Multiple sequence alignment - TraesCS3A01G508100

Loading Multiple Alignment...

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 TraesCS3A01G508100 chr3A 100.000 4382 0 0 1 4382 729318147 729313766 0.000000e+00 8093
1 TraesCS3A01G508100 chr3A 97.652 937 20 2 1 937 703891912 703892846 0.000000e+00 1607
2 TraesCS3A01G508100 chr3A 88.940 1293 108 14 2142 3406 729392487 729393772 0.000000e+00 1563
3 TraesCS3A01G508100 chr3A 85.514 925 76 28 941 1854 729391492 729392369 0.000000e+00 913
4 TraesCS3A01G508100 chr3A 95.695 511 17 2 3872 4382 729405571 729406076 0.000000e+00 817
5 TraesCS3A01G508100 chr3A 89.171 434 30 11 3407 3829 729393638 729394065 3.880000e-145 525
6 TraesCS3A01G508100 chr3A 95.522 134 4 1 3273 3406 729314741 729314610 3.430000e-51 213
7 TraesCS3A01G508100 chr3A 95.522 134 4 1 3407 3538 729314875 729314742 3.430000e-51 213
8 TraesCS3A01G508100 chr3D 95.229 3479 92 16 940 4382 599269373 599265933 0.000000e+00 5437
9 TraesCS3A01G508100 chr3D 89.899 1188 96 12 2234 3406 599177699 599178877 0.000000e+00 1507
10 TraesCS3A01G508100 chr3D 85.904 1057 69 36 941 1967 599175997 599177003 0.000000e+00 1053
11 TraesCS3A01G508100 chr3D 91.977 511 34 4 3872 4382 599195234 599195737 0.000000e+00 710
12 TraesCS3A01G508100 chr3D 87.822 427 31 11 3415 3829 599178747 599179164 8.520000e-132 481
13 TraesCS3A01G508100 chr3D 95.522 134 4 1 3407 3538 599267054 599266921 3.430000e-51 213
14 TraesCS3A01G508100 chr3D 93.431 137 6 3 3273 3408 599266920 599266786 2.670000e-47 200
15 TraesCS3A01G508100 chr3D 76.953 256 30 10 2003 2230 599177002 599177256 7.700000e-23 119
16 TraesCS3A01G508100 chr5A 98.081 938 18 0 1 938 426474237 426475174 0.000000e+00 1633
17 TraesCS3A01G508100 chr5A 90.317 537 50 2 203 738 598902532 598901997 0.000000e+00 702
18 TraesCS3A01G508100 chr5D 97.650 936 21 1 1 936 538971253 538970319 0.000000e+00 1605
19 TraesCS3A01G508100 chr1D 97.231 939 25 1 1 938 439091262 439090324 0.000000e+00 1589
20 TraesCS3A01G508100 chr4D 95.091 937 46 0 1 937 245260838 245261774 0.000000e+00 1476
21 TraesCS3A01G508100 chr6B 96.275 886 33 0 1 886 702205379 702204494 0.000000e+00 1454
22 TraesCS3A01G508100 chr2B 96.812 690 22 0 246 935 701784346 701785035 0.000000e+00 1153
23 TraesCS3A01G508100 chr2B 95.618 251 10 1 1 251 701775815 701776064 6.830000e-108 401
24 TraesCS3A01G508100 chr3B 84.255 940 127 6 1 940 122701254 122700336 0.000000e+00 896


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 TraesCS3A01G508100 chr3A 729313766 729318147 4381 True 2839.666667 8093 97.014667 1 4382 3 chr3A.!!$R1 4381
1 TraesCS3A01G508100 chr3A 703891912 703892846 934 False 1607.000000 1607 97.652000 1 937 1 chr3A.!!$F1 936
2 TraesCS3A01G508100 chr3A 729391492 729394065 2573 False 1000.333333 1563 87.875000 941 3829 3 chr3A.!!$F3 2888
3 TraesCS3A01G508100 chr3A 729405571 729406076 505 False 817.000000 817 95.695000 3872 4382 1 chr3A.!!$F2 510
4 TraesCS3A01G508100 chr3D 599265933 599269373 3440 True 1950.000000 5437 94.727333 940 4382 3 chr3D.!!$R1 3442
5 TraesCS3A01G508100 chr3D 599175997 599179164 3167 False 790.000000 1507 85.144500 941 3829 4 chr3D.!!$F2 2888
6 TraesCS3A01G508100 chr3D 599195234 599195737 503 False 710.000000 710 91.977000 3872 4382 1 chr3D.!!$F1 510
7 TraesCS3A01G508100 chr5A 426474237 426475174 937 False 1633.000000 1633 98.081000 1 938 1 chr5A.!!$F1 937
8 TraesCS3A01G508100 chr5A 598901997 598902532 535 True 702.000000 702 90.317000 203 738 1 chr5A.!!$R1 535
9 TraesCS3A01G508100 chr5D 538970319 538971253 934 True 1605.000000 1605 97.650000 1 936 1 chr5D.!!$R1 935
10 TraesCS3A01G508100 chr1D 439090324 439091262 938 True 1589.000000 1589 97.231000 1 938 1 chr1D.!!$R1 937
11 TraesCS3A01G508100 chr4D 245260838 245261774 936 False 1476.000000 1476 95.091000 1 937 1 chr4D.!!$F1 936
12 TraesCS3A01G508100 chr6B 702204494 702205379 885 True 1454.000000 1454 96.275000 1 886 1 chr6B.!!$R1 885
13 TraesCS3A01G508100 chr2B 701784346 701785035 689 False 1153.000000 1153 96.812000 246 935 1 chr2B.!!$F2 689
14 TraesCS3A01G508100 chr3B 122700336 122701254 918 True 896.000000 896 84.255000 1 940 1 chr3B.!!$R1 939

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
962 965 0.323957 GGTCGGTTCTTTGGTAGGCT 59.676 55.0 0.00 0.0 0.00 4.58 F
1390 1417 0.103208 GCGAGAGGTGGATCGATGTT 59.897 55.0 0.54 0.0 41.40 2.71 F
2739 3263 0.240945 CCACATGGTTTTCGAGGTGC 59.759 55.0 0.00 0.0 38.58 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1823 1854 2.715046 CTGCCATTGCTACTTCTCCAA 58.285 47.619 0.00 0.0 38.71 3.53 R
3164 3688 2.224426 ACAAAAGCATCGACCACCAGTA 60.224 45.455 0.00 0.0 0.00 2.74 R
4023 4692 0.395586 TACCATGGGATTGGCACAGC 60.396 55.000 18.09 0.0 42.39 4.40 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
107 108 5.203528 TGTCTCATCCACATGTCTCTATCA 58.796 41.667 0.00 0.00 0.00 2.15
439 441 1.480954 GGAGTCTATCTTTCGTGGCCA 59.519 52.381 0.00 0.00 0.00 5.36
539 541 2.322161 CACTTTCTTTTGCGGCTCATG 58.678 47.619 0.00 0.00 0.00 3.07
800 803 5.927689 CCTGAAATATGTTGCTTTGCTTCAA 59.072 36.000 0.00 0.00 0.00 2.69
905 908 4.201990 GCTACTGAGCTGAATGAATTTGGG 60.202 45.833 0.00 0.00 45.98 4.12
962 965 0.323957 GGTCGGTTCTTTGGTAGGCT 59.676 55.000 0.00 0.00 0.00 4.58
1390 1417 0.103208 GCGAGAGGTGGATCGATGTT 59.897 55.000 0.54 0.00 41.40 2.71
1474 1501 0.540597 AGTTTCCTTCTTGCCTGCCC 60.541 55.000 0.00 0.00 0.00 5.36
1501 1528 6.061022 TCCTTGGTTGCTCTTGTAATATCA 57.939 37.500 0.00 0.00 0.00 2.15
1538 1565 7.655732 TGATTGATTGATTGATTGATTGATGGC 59.344 33.333 0.00 0.00 0.00 4.40
1764 1791 0.951040 GTGAAAGGGACGACTGCCAG 60.951 60.000 0.00 0.00 0.00 4.85
1819 1850 1.123928 CCCACTCTAGGACATGGGTC 58.876 60.000 11.36 0.00 45.89 4.46
1823 1854 3.303938 CACTCTAGGACATGGGTCAGAT 58.696 50.000 0.00 0.00 46.17 2.90
1854 1885 1.465777 GCAATGGCAGCAAAATTCACC 59.534 47.619 0.00 0.00 40.72 4.02
1887 1919 5.181811 TGCTTCACCAGACATTCATTACTTG 59.818 40.000 0.00 0.00 0.00 3.16
1966 1998 7.170658 GCTTTACAATTCATGCCTACAAACAAA 59.829 33.333 0.00 0.00 0.00 2.83
2059 2108 4.385748 GCTTTTGCTTAATGGTTTCGAAGG 59.614 41.667 0.00 0.00 43.35 3.46
2061 2110 4.497473 TTGCTTAATGGTTTCGAAGGTG 57.503 40.909 0.00 0.00 0.00 4.00
2159 2236 5.070847 TGAGATATGTAATGCCTCTGCTTGA 59.929 40.000 0.00 0.00 38.71 3.02
2162 2239 7.002879 AGATATGTAATGCCTCTGCTTGAAAT 58.997 34.615 0.00 0.00 38.71 2.17
2477 3001 4.130118 GCAGGATTCATACCTAACACTGG 58.870 47.826 0.00 0.00 35.84 4.00
2542 3066 6.206634 CACATTTGGAGGTTAAGCTCAAAGTA 59.793 38.462 30.11 15.63 32.03 2.24
2739 3263 0.240945 CCACATGGTTTTCGAGGTGC 59.759 55.000 0.00 0.00 38.58 5.01
3113 3637 8.057536 AGACTGGTTTATGTAACTGTAGAGAG 57.942 38.462 0.00 0.00 36.93 3.20
3164 3688 6.536224 GTGTGTGGTTTGTGTAGTAACTAGTT 59.464 38.462 13.68 13.68 0.00 2.24
3286 3810 9.899226 CTTGTTCTGATTTTAGTCCTTTTTAGG 57.101 33.333 0.00 0.00 0.00 2.69
3370 3899 9.190858 GTTAATCAGCACACATTGTATTTTGAA 57.809 29.630 0.00 0.00 0.00 2.69
3389 3918 8.744568 TTTTGAAGCCAAAATAAATTTGTCCT 57.255 26.923 0.00 0.00 45.72 3.85
3390 3919 8.744568 TTTGAAGCCAAAATAAATTTGTCCTT 57.255 26.923 0.00 3.05 45.72 3.36
3391 3920 9.838339 TTTGAAGCCAAAATAAATTTGTCCTTA 57.162 25.926 0.00 0.00 45.72 2.69
3392 3921 9.838339 TTGAAGCCAAAATAAATTTGTCCTTAA 57.162 25.926 0.00 0.00 45.72 1.85
3393 3922 9.838339 TGAAGCCAAAATAAATTTGTCCTTAAA 57.162 25.926 0.00 0.00 45.72 1.52
3395 3924 9.845740 AAGCCAAAATAAATTTGTCCTTAAACT 57.154 25.926 0.00 0.00 45.72 2.66
3396 3925 9.845740 AGCCAAAATAAATTTGTCCTTAAACTT 57.154 25.926 0.00 0.00 45.72 2.66
3397 3926 9.877137 GCCAAAATAAATTTGTCCTTAAACTTG 57.123 29.630 0.00 0.00 45.72 3.16
3410 3939 9.411189 TGTCCTTAAACTTGTAATTTGGTTAGT 57.589 29.630 0.00 0.00 0.00 2.24
3411 3940 9.888878 GTCCTTAAACTTGTAATTTGGTTAGTC 57.111 33.333 0.00 0.00 0.00 2.59
3412 3941 9.856162 TCCTTAAACTTGTAATTTGGTTAGTCT 57.144 29.630 0.00 0.00 0.00 3.24
3440 3969 9.950496 TTTTAGAAGCTCACAGAGATTTTATCT 57.050 29.630 0.00 0.00 38.45 1.98
3447 3976 9.979578 AGCTCACAGAGATTTTATCTATAACTG 57.020 33.333 0.00 0.00 40.38 3.16
3448 3977 9.202273 GCTCACAGAGATTTTATCTATAACTGG 57.798 37.037 0.00 0.00 40.38 4.00
3462 3991 8.774546 ATCTATAACTGGAATGTTCTCTCTGA 57.225 34.615 0.00 0.00 0.00 3.27
3463 3992 8.231692 TCTATAACTGGAATGTTCTCTCTGAG 57.768 38.462 0.00 0.00 0.00 3.35
3464 3993 8.055790 TCTATAACTGGAATGTTCTCTCTGAGA 58.944 37.037 7.24 7.24 36.86 3.27
3465 3994 5.404466 AACTGGAATGTTCTCTCTGAGAG 57.596 43.478 25.33 25.33 43.64 3.20
3473 4002 1.458398 TCTCTCTGAGAGACAAGCCG 58.542 55.000 28.77 6.62 45.77 5.52
3474 4003 1.173043 CTCTCTGAGAGACAAGCCGT 58.827 55.000 26.79 0.00 45.07 5.68
3475 4004 1.543802 CTCTCTGAGAGACAAGCCGTT 59.456 52.381 26.79 0.00 45.07 4.44
3476 4005 1.270826 TCTCTGAGAGACAAGCCGTTG 59.729 52.381 8.34 0.00 39.82 4.10
3485 4014 2.989422 ACAAGCCGTTGTTAATCAGC 57.011 45.000 0.00 0.00 45.00 4.26
3486 4015 2.226330 ACAAGCCGTTGTTAATCAGCA 58.774 42.857 0.00 0.00 45.00 4.41
3487 4016 2.031157 ACAAGCCGTTGTTAATCAGCAC 60.031 45.455 0.00 0.00 45.00 4.40
3488 4017 1.890876 AGCCGTTGTTAATCAGCACA 58.109 45.000 0.00 0.00 0.00 4.57
3489 4018 1.535462 AGCCGTTGTTAATCAGCACAC 59.465 47.619 0.00 0.00 0.00 3.82
3490 4019 1.265635 GCCGTTGTTAATCAGCACACA 59.734 47.619 0.00 0.00 0.00 3.72
3491 4020 2.095263 GCCGTTGTTAATCAGCACACAT 60.095 45.455 0.00 0.00 0.00 3.21
3492 4021 3.611530 GCCGTTGTTAATCAGCACACATT 60.612 43.478 0.00 0.00 0.00 2.71
3493 4022 3.913763 CCGTTGTTAATCAGCACACATTG 59.086 43.478 0.00 0.00 0.00 2.82
3494 4023 4.536065 CGTTGTTAATCAGCACACATTGT 58.464 39.130 0.00 0.00 0.00 2.71
3495 4024 5.334491 CCGTTGTTAATCAGCACACATTGTA 60.334 40.000 0.00 0.00 0.00 2.41
3496 4025 6.314018 CGTTGTTAATCAGCACACATTGTAT 58.686 36.000 0.00 0.00 0.00 2.29
3497 4026 6.801377 CGTTGTTAATCAGCACACATTGTATT 59.199 34.615 0.00 0.00 0.00 1.89
3498 4027 7.325821 CGTTGTTAATCAGCACACATTGTATTT 59.674 33.333 0.00 0.00 0.00 1.40
3499 4028 8.977505 GTTGTTAATCAGCACACATTGTATTTT 58.022 29.630 0.00 0.00 0.00 1.82
3500 4029 8.518151 TGTTAATCAGCACACATTGTATTTTG 57.482 30.769 0.00 0.00 0.00 2.44
3501 4030 8.355913 TGTTAATCAGCACACATTGTATTTTGA 58.644 29.630 0.00 0.00 0.00 2.69
3502 4031 8.853345 GTTAATCAGCACACATTGTATTTTGAG 58.147 33.333 0.00 0.00 0.00 3.02
3503 4032 5.375417 TCAGCACACATTGTATTTTGAGG 57.625 39.130 0.00 0.00 0.00 3.86
3504 4033 3.922240 CAGCACACATTGTATTTTGAGGC 59.078 43.478 0.00 0.00 0.00 4.70
3505 4034 3.056607 AGCACACATTGTATTTTGAGGCC 60.057 43.478 0.00 0.00 0.00 5.19
3506 4035 3.305950 GCACACATTGTATTTTGAGGCCA 60.306 43.478 5.01 0.00 0.00 5.36
3507 4036 4.798924 GCACACATTGTATTTTGAGGCCAA 60.799 41.667 5.01 0.00 0.00 4.52
3508 4037 5.295950 CACACATTGTATTTTGAGGCCAAA 58.704 37.500 5.01 0.00 40.24 3.28
3655 4323 1.315690 CCATGGCAAGCTGATGTAGG 58.684 55.000 0.00 0.00 0.00 3.18
3666 4334 2.630580 GCTGATGTAGGAGACTTAGGGG 59.369 54.545 0.00 0.00 43.67 4.79
3762 4430 6.215845 CACAAGGTGGGTAAAAAGAAGATTG 58.784 40.000 0.00 0.00 0.00 2.67
3912 4580 6.705825 ACATTAAAAGCAGGAAAACATGTTCC 59.294 34.615 12.39 10.12 46.48 3.62
3983 4651 4.758688 TCAGTTGCTATCACAGTACCATG 58.241 43.478 0.00 0.00 0.00 3.66
4023 4692 7.067494 CAGACCAAAAATAAGTAGGATGGAAGG 59.933 40.741 0.00 0.00 0.00 3.46
4060 4729 6.295236 CCATGGTAAGGCTGAATTCTTTTCAA 60.295 38.462 2.57 0.00 0.00 2.69
4276 4950 3.381045 GTGAAACTTGCAACTTTAGGGC 58.619 45.455 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
439 441 8.143193 TGCACATTTACTTCAATTTGATCTTGT 58.857 29.630 0.00 1.01 0.00 3.16
539 541 6.094881 TGAATAATGTTAAGCCTGTTAGCCAC 59.905 38.462 0.00 0.00 0.00 5.01
800 803 5.190528 CAGGGCAAGATATATGTCTATGGGT 59.809 44.000 2.00 0.00 0.00 4.51
962 965 1.065782 TGGGCTGCGCTACTTTTATGA 60.066 47.619 17.81 0.00 0.00 2.15
1083 1107 5.593010 CTTCCGAAGAACCGATCTAATCTT 58.407 41.667 1.51 4.12 37.42 2.40
1233 1260 3.997681 GGACCTTTCTTCTTCTTCTTCCG 59.002 47.826 0.00 0.00 0.00 4.30
1234 1261 5.000591 CAGGACCTTTCTTCTTCTTCTTCC 58.999 45.833 0.00 0.00 0.00 3.46
1242 1269 3.181439 CCACTTCCAGGACCTTTCTTCTT 60.181 47.826 0.00 0.00 0.00 2.52
1243 1270 2.373502 CCACTTCCAGGACCTTTCTTCT 59.626 50.000 0.00 0.00 0.00 2.85
1390 1417 2.031919 ATCTTGCCGTGCGACCAA 59.968 55.556 0.00 0.00 0.00 3.67
1474 1501 0.169672 CAAGAGCAACCAAGGATGCG 59.830 55.000 14.51 0.00 46.38 4.73
1511 1538 9.541143 CCATCAATCAATCAATCAATCAATCAA 57.459 29.630 0.00 0.00 0.00 2.57
1512 1539 7.655732 GCCATCAATCAATCAATCAATCAATCA 59.344 33.333 0.00 0.00 0.00 2.57
1513 1540 7.872993 AGCCATCAATCAATCAATCAATCAATC 59.127 33.333 0.00 0.00 0.00 2.67
1514 1541 7.657354 CAGCCATCAATCAATCAATCAATCAAT 59.343 33.333 0.00 0.00 0.00 2.57
1515 1542 6.983890 CAGCCATCAATCAATCAATCAATCAA 59.016 34.615 0.00 0.00 0.00 2.57
1516 1543 6.512297 CAGCCATCAATCAATCAATCAATCA 58.488 36.000 0.00 0.00 0.00 2.57
1517 1544 5.405571 GCAGCCATCAATCAATCAATCAATC 59.594 40.000 0.00 0.00 0.00 2.67
1518 1545 5.163353 TGCAGCCATCAATCAATCAATCAAT 60.163 36.000 0.00 0.00 0.00 2.57
1519 1546 4.160626 TGCAGCCATCAATCAATCAATCAA 59.839 37.500 0.00 0.00 0.00 2.57
1520 1547 3.702045 TGCAGCCATCAATCAATCAATCA 59.298 39.130 0.00 0.00 0.00 2.57
1521 1548 4.299155 CTGCAGCCATCAATCAATCAATC 58.701 43.478 0.00 0.00 0.00 2.67
1522 1549 3.492656 GCTGCAGCCATCAATCAATCAAT 60.493 43.478 28.76 0.00 34.31 2.57
1523 1550 2.159156 GCTGCAGCCATCAATCAATCAA 60.159 45.455 28.76 0.00 34.31 2.57
1524 1551 1.407618 GCTGCAGCCATCAATCAATCA 59.592 47.619 28.76 0.00 34.31 2.57
1525 1552 1.599667 CGCTGCAGCCATCAATCAATC 60.600 52.381 32.07 0.90 37.91 2.67
1526 1553 0.384309 CGCTGCAGCCATCAATCAAT 59.616 50.000 32.07 0.00 37.91 2.57
1527 1554 1.804598 CGCTGCAGCCATCAATCAA 59.195 52.632 32.07 0.00 37.91 2.57
1528 1555 2.767445 GCGCTGCAGCCATCAATCA 61.767 57.895 32.07 0.00 37.91 2.57
1529 1556 2.025727 GCGCTGCAGCCATCAATC 59.974 61.111 32.07 9.29 37.91 2.67
1538 1565 2.753043 AGGGGATTTGCGCTGCAG 60.753 61.111 10.11 10.11 40.61 4.41
1764 1791 3.553511 CACGAACCTGCTCATTGATACTC 59.446 47.826 0.00 0.00 0.00 2.59
1817 1848 4.574013 CCATTGCTACTTCTCCAATCTGAC 59.426 45.833 0.00 0.00 0.00 3.51
1819 1850 3.314635 GCCATTGCTACTTCTCCAATCTG 59.685 47.826 0.00 0.00 33.53 2.90
1823 1854 2.715046 CTGCCATTGCTACTTCTCCAA 58.285 47.619 0.00 0.00 38.71 3.53
1854 1885 3.316029 TGTCTGGTGAAGCACAAAAGATG 59.684 43.478 0.00 0.00 35.86 2.90
1887 1919 7.381678 CACTACACTAGTAAGACCAAGTTTGAC 59.618 40.741 10.57 0.00 37.23 3.18
2032 2081 4.857037 CGAAACCATTAAGCAAAAGCTACC 59.143 41.667 0.00 0.00 0.00 3.18
2059 2108 6.677913 ACAGGTTTATTTAGCATGTTGTCAC 58.322 36.000 0.00 0.00 0.00 3.67
2061 2110 7.812648 TGTACAGGTTTATTTAGCATGTTGTC 58.187 34.615 0.00 0.00 0.00 3.18
2162 2239 6.791028 GTCTAATTTGAAGACCTGCAAATGCA 60.791 38.462 14.80 7.98 42.17 3.96
2542 3066 7.741554 ATCTTCAGATTCAGTAGTACCCTTT 57.258 36.000 0.00 0.00 0.00 3.11
2739 3263 4.705507 TCTTGGAGGTACTAGCAGTTAGTG 59.294 45.833 7.19 0.00 42.57 2.74
3113 3637 3.146066 TCACACTAATTGACAAGCCACC 58.854 45.455 0.00 0.00 0.00 4.61
3164 3688 2.224426 ACAAAAGCATCGACCACCAGTA 60.224 45.455 0.00 0.00 0.00 2.74
3249 3773 5.954296 AATCAGAACAAGACATGGTTCAG 57.046 39.130 13.00 6.89 44.46 3.02
3384 3913 9.411189 ACTAACCAAATTACAAGTTTAAGGACA 57.589 29.630 0.00 0.00 0.00 4.02
3385 3914 9.888878 GACTAACCAAATTACAAGTTTAAGGAC 57.111 33.333 0.00 0.00 0.00 3.85
3386 3915 9.856162 AGACTAACCAAATTACAAGTTTAAGGA 57.144 29.630 0.00 0.00 0.00 3.36
3414 3943 9.950496 AGATAAAATCTCTGTGAGCTTCTAAAA 57.050 29.630 0.00 0.00 33.42 1.52
3421 3950 9.979578 CAGTTATAGATAAAATCTCTGTGAGCT 57.020 33.333 0.00 0.00 40.76 4.09
3422 3951 9.202273 CCAGTTATAGATAAAATCTCTGTGAGC 57.798 37.037 0.00 0.00 40.76 4.26
3436 3965 9.868160 TCAGAGAGAACATTCCAGTTATAGATA 57.132 33.333 0.00 0.00 0.00 1.98
3437 3966 8.774546 TCAGAGAGAACATTCCAGTTATAGAT 57.225 34.615 0.00 0.00 0.00 1.98
3438 3967 8.055790 TCTCAGAGAGAACATTCCAGTTATAGA 58.944 37.037 0.00 0.00 35.59 1.98
3439 3968 8.231692 TCTCAGAGAGAACATTCCAGTTATAG 57.768 38.462 0.00 0.00 35.59 1.31
3440 3969 8.231692 CTCTCAGAGAGAACATTCCAGTTATA 57.768 38.462 21.55 0.00 45.07 0.98
3441 3970 7.111247 CTCTCAGAGAGAACATTCCAGTTAT 57.889 40.000 21.55 0.00 45.07 1.89
3442 3971 6.522625 CTCTCAGAGAGAACATTCCAGTTA 57.477 41.667 21.55 0.00 45.07 2.24
3443 3972 5.404466 CTCTCAGAGAGAACATTCCAGTT 57.596 43.478 21.55 0.00 45.07 3.16
3455 3984 1.173043 ACGGCTTGTCTCTCAGAGAG 58.827 55.000 20.25 20.25 43.64 3.20
3456 3985 1.270826 CAACGGCTTGTCTCTCAGAGA 59.729 52.381 0.00 0.00 36.22 3.10
3457 3986 1.000283 ACAACGGCTTGTCTCTCAGAG 60.000 52.381 0.00 0.00 35.57 3.35
3458 3987 1.040646 ACAACGGCTTGTCTCTCAGA 58.959 50.000 0.00 0.00 35.57 3.27
3459 3988 1.871080 AACAACGGCTTGTCTCTCAG 58.129 50.000 3.41 0.00 39.88 3.35
3460 3989 3.462483 TTAACAACGGCTTGTCTCTCA 57.538 42.857 3.41 0.00 39.88 3.27
3461 3990 3.994392 TGATTAACAACGGCTTGTCTCTC 59.006 43.478 3.41 2.56 39.88 3.20
3462 3991 3.997021 CTGATTAACAACGGCTTGTCTCT 59.003 43.478 3.41 0.00 39.88 3.10
3463 3992 3.424962 GCTGATTAACAACGGCTTGTCTC 60.425 47.826 3.41 3.07 39.88 3.36
3464 3993 2.484264 GCTGATTAACAACGGCTTGTCT 59.516 45.455 3.41 0.00 39.88 3.41
3465 3994 2.225491 TGCTGATTAACAACGGCTTGTC 59.775 45.455 0.00 0.00 39.88 3.18
3466 3995 2.031157 GTGCTGATTAACAACGGCTTGT 60.031 45.455 0.00 0.00 42.81 3.16
3467 3996 2.031245 TGTGCTGATTAACAACGGCTTG 60.031 45.455 0.00 0.00 38.93 4.01
3468 3997 2.031157 GTGTGCTGATTAACAACGGCTT 60.031 45.455 0.00 0.00 38.93 4.35
3469 3998 1.535462 GTGTGCTGATTAACAACGGCT 59.465 47.619 0.00 0.00 38.93 5.52
3470 3999 1.265635 TGTGTGCTGATTAACAACGGC 59.734 47.619 0.00 0.00 38.67 5.68
3471 4000 3.829886 ATGTGTGCTGATTAACAACGG 57.170 42.857 0.00 0.00 0.00 4.44
3472 4001 4.536065 ACAATGTGTGCTGATTAACAACG 58.464 39.130 0.00 0.00 0.00 4.10
3473 4002 8.519492 AAATACAATGTGTGCTGATTAACAAC 57.481 30.769 0.00 0.00 0.00 3.32
3474 4003 8.976471 CAAAATACAATGTGTGCTGATTAACAA 58.024 29.630 0.00 0.00 0.00 2.83
3475 4004 8.355913 TCAAAATACAATGTGTGCTGATTAACA 58.644 29.630 0.00 0.00 0.00 2.41
3476 4005 8.741101 TCAAAATACAATGTGTGCTGATTAAC 57.259 30.769 0.00 0.00 0.00 2.01
3477 4006 8.028354 CCTCAAAATACAATGTGTGCTGATTAA 58.972 33.333 0.00 0.00 0.00 1.40
3478 4007 7.537715 CCTCAAAATACAATGTGTGCTGATTA 58.462 34.615 0.00 0.00 0.00 1.75
3479 4008 6.392354 CCTCAAAATACAATGTGTGCTGATT 58.608 36.000 0.00 0.00 0.00 2.57
3480 4009 5.622914 GCCTCAAAATACAATGTGTGCTGAT 60.623 40.000 0.00 0.00 0.00 2.90
3481 4010 4.321156 GCCTCAAAATACAATGTGTGCTGA 60.321 41.667 0.00 0.00 0.00 4.26
3482 4011 3.922240 GCCTCAAAATACAATGTGTGCTG 59.078 43.478 0.00 0.00 0.00 4.41
3483 4012 3.056607 GGCCTCAAAATACAATGTGTGCT 60.057 43.478 0.00 0.00 0.00 4.40
3484 4013 3.253230 GGCCTCAAAATACAATGTGTGC 58.747 45.455 0.00 0.00 0.00 4.57
3485 4014 4.517952 TGGCCTCAAAATACAATGTGTG 57.482 40.909 3.32 0.00 0.00 3.82
3486 4015 5.543507 TTTGGCCTCAAAATACAATGTGT 57.456 34.783 3.32 0.00 39.64 3.72
3503 4032 9.877137 CAAGTTTAAGGACAATTTTATTTTGGC 57.123 29.630 0.00 0.00 0.00 4.52
3655 4323 8.865420 AAAAAGTCTAAAATCCCCTAAGTCTC 57.135 34.615 0.00 0.00 0.00 3.36
3762 4430 4.260375 CGAGTAATGTAATGCCACAAGAGC 60.260 45.833 0.00 0.00 30.84 4.09
3912 4580 1.884235 AGCCCTGTGAAGTTTCTTCG 58.116 50.000 5.28 0.00 0.00 3.79
3983 4651 1.811679 GTCTGCTAGCCGAACCAGC 60.812 63.158 13.29 0.00 35.82 4.85
4023 4692 0.395586 TACCATGGGATTGGCACAGC 60.396 55.000 18.09 0.00 42.39 4.40
4060 4729 3.630312 GTGTTGTGTTGTGTATGTCCCTT 59.370 43.478 0.00 0.00 0.00 3.95
4276 4950 6.390987 AATTTCGTCTTAGTTAGCGTTGAG 57.609 37.500 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.