Multiple sequence alignment - TraesCS6B01G428900

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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 TraesCS6B01G428900 chr6B 100.000 3705 0 0 1 3705 697120299 697116595 0.000000e+00 6842.0
1 TraesCS6B01G428900 chr6B 98.812 3704 41 3 4 3705 697263220 697259518 0.000000e+00 6593.0
2 TraesCS6B01G428900 chr6B 98.388 3722 39 7 4 3705 697229284 697225564 0.000000e+00 6521.0
3 TraesCS6B01G428900 chr6B 98.291 3159 48 5 4 3159 697374314 697371159 0.000000e+00 5529.0
4 TraesCS6B01G428900 chr6B 91.040 1529 105 16 2202 3705 696994663 696993142 0.000000e+00 2036.0
5 TraesCS6B01G428900 chr6B 86.203 1580 137 39 2201 3705 697404600 697403027 0.000000e+00 1635.0
6 TraesCS6B01G428900 chr6B 95.419 895 38 3 4 897 697014829 697013937 0.000000e+00 1423.0
7 TraesCS6B01G428900 chr6B 97.449 784 18 2 1140 1921 696995437 696994654 0.000000e+00 1336.0
8 TraesCS6B01G428900 chr6B 89.990 1039 71 20 904 1921 697405616 697404590 0.000000e+00 1312.0
9 TraesCS6B01G428900 chr6B 98.375 554 8 1 3152 3705 697357327 697356775 0.000000e+00 972.0
10 TraesCS6B01G428900 chr6B 88.522 575 64 1 419 991 697374965 697374391 0.000000e+00 695.0
11 TraesCS6B01G428900 chr6B 88.522 575 63 2 419 991 697263870 697263297 0.000000e+00 693.0
12 TraesCS6B01G428900 chr6B 88.348 575 65 1 419 991 697229935 697229361 0.000000e+00 689.0
13 TraesCS6B01G428900 chr6B 88.000 575 66 2 419 991 697015479 697014906 0.000000e+00 676.0
14 TraesCS6B01G428900 chr6B 88.000 575 66 2 419 991 697239295 697238722 0.000000e+00 676.0
15 TraesCS6B01G428900 chr6B 90.487 431 37 4 4 433 697124935 697124508 1.930000e-157 566.0
16 TraesCS6B01G428900 chr6B 90.092 434 36 5 4 433 697019284 697018854 1.160000e-154 556.0
17 TraesCS6B01G428900 chr6B 90.023 431 39 4 4 433 697231502 697231075 4.180000e-154 555.0
18 TraesCS6B01G428900 chr6B 90.023 431 39 4 4 433 697234208 697233781 4.180000e-154 555.0
19 TraesCS6B01G428900 chr6B 89.791 431 40 4 4 433 697236427 697236000 1.950000e-152 549.0
20 TraesCS6B01G428900 chr6B 95.000 260 11 1 892 1149 697000906 697000647 1.240000e-109 407.0
21 TraesCS6B01G428900 chr6B 90.816 98 3 3 1997 2089 221814320 221814416 3.880000e-25 126.0
22 TraesCS6B01G428900 chr6D 87.530 1692 134 36 2075 3705 458507659 458505984 0.000000e+00 1884.0
23 TraesCS6B01G428900 chr6D 92.765 1161 56 15 842 1988 458509036 458507890 0.000000e+00 1653.0
24 TraesCS6B01G428900 chr6D 86.401 1581 129 37 2201 3705 458530151 458528581 0.000000e+00 1650.0
25 TraesCS6B01G428900 chr6D 90.019 1032 74 17 904 1922 458531154 458530139 0.000000e+00 1308.0
26 TraesCS6B01G428900 chr6A 89.961 1036 78 17 904 1921 605102418 605103445 0.000000e+00 1314.0
27 TraesCS6B01G428900 chr6A 87.911 943 79 13 2223 3130 605103460 605104402 0.000000e+00 1077.0
28 TraesCS6B01G428900 chr6A 89.127 607 56 7 3102 3705 605117789 605118388 0.000000e+00 747.0
29 TraesCS6B01G428900 chr6A 85.000 80 12 0 2123 2202 54200538 54200459 8.530000e-12 82.4
30 TraesCS6B01G428900 chr4A 83.544 790 115 11 1091 1874 669392294 669391514 0.000000e+00 725.0
31 TraesCS6B01G428900 chr4A 83.133 83 8 2 2123 2199 626288381 626288463 1.850000e-08 71.3
32 TraesCS6B01G428900 chr3D 92.121 165 9 2 255 415 535459690 535459854 2.880000e-56 230.0
33 TraesCS6B01G428900 chr3D 85.938 128 15 3 2077 2202 185070515 185070389 2.320000e-27 134.0
34 TraesCS6B01G428900 chr3D 83.019 106 10 2 1 98 15199373 15199478 5.100000e-14 89.8
35 TraesCS6B01G428900 chr1A 90.654 107 10 0 6 112 12762491 12762385 3.860000e-30 143.0
36 TraesCS6B01G428900 chr7B 90.426 94 3 3 1999 2086 723211866 723211773 6.500000e-23 119.0
37 TraesCS6B01G428900 chr7B 90.426 94 3 3 1999 2086 723381115 723381022 6.500000e-23 119.0
38 TraesCS6B01G428900 chr7B 90.566 53 5 0 2119 2171 608409413 608409465 1.850000e-08 71.3
39 TraesCS6B01G428900 chr7B 100.000 33 0 0 1966 1998 624756359 624756327 1.110000e-05 62.1
40 TraesCS6B01G428900 chr4B 88.660 97 5 3 1993 2083 370885382 370885478 3.020000e-21 113.0
41 TraesCS6B01G428900 chr1D 83.871 124 14 3 2079 2202 414276687 414276570 3.020000e-21 113.0
42 TraesCS6B01G428900 chr3B 87.379 103 6 4 1993 2088 48860716 48860818 1.090000e-20 111.0
43 TraesCS6B01G428900 chr3B 100.000 30 0 0 1969 1998 77007605 77007634 5.170000e-04 56.5
44 TraesCS6B01G428900 chr1B 85.981 107 8 4 1997 2098 557412723 557412827 1.410000e-19 108.0
45 TraesCS6B01G428900 chr5D 92.537 67 4 1 2092 2157 497851527 497851593 1.100000e-15 95.3
46 TraesCS6B01G428900 chr7D 83.495 103 9 2 4 98 256446698 256446596 5.100000e-14 89.8
47 TraesCS6B01G428900 chr7D 92.063 63 5 0 1 63 485983685 485983747 5.100000e-14 89.8
48 TraesCS6B01G428900 chr5B 78.626 131 17 5 1965 2084 702225458 702225588 3.970000e-10 76.8
49 TraesCS6B01G428900 chr2B 100.000 30 0 0 1969 1998 245689728 245689757 5.170000e-04 56.5


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 TraesCS6B01G428900 chr6B 697116595 697120299 3704 True 6842.000000 6842 100.000000 1 3705 1 chr6B.!!$R2 3704
1 TraesCS6B01G428900 chr6B 697259518 697263870 4352 True 3643.000000 6593 93.667000 4 3705 2 chr6B.!!$R8 3701
2 TraesCS6B01G428900 chr6B 697371159 697374965 3806 True 3112.000000 5529 93.406500 4 3159 2 chr6B.!!$R9 3155
3 TraesCS6B01G428900 chr6B 696993142 696995437 2295 True 1686.000000 2036 94.244500 1140 3705 2 chr6B.!!$R5 2565
4 TraesCS6B01G428900 chr6B 697225564 697239295 13731 True 1590.833333 6521 90.762167 4 3705 6 chr6B.!!$R7 3701
5 TraesCS6B01G428900 chr6B 697403027 697405616 2589 True 1473.500000 1635 88.096500 904 3705 2 chr6B.!!$R10 2801
6 TraesCS6B01G428900 chr6B 697356775 697357327 552 True 972.000000 972 98.375000 3152 3705 1 chr6B.!!$R4 553
7 TraesCS6B01G428900 chr6B 697013937 697019284 5347 True 885.000000 1423 91.170333 4 991 3 chr6B.!!$R6 987
8 TraesCS6B01G428900 chr6D 458505984 458509036 3052 True 1768.500000 1884 90.147500 842 3705 2 chr6D.!!$R1 2863
9 TraesCS6B01G428900 chr6D 458528581 458531154 2573 True 1479.000000 1650 88.210000 904 3705 2 chr6D.!!$R2 2801
10 TraesCS6B01G428900 chr6A 605102418 605104402 1984 False 1195.500000 1314 88.936000 904 3130 2 chr6A.!!$F2 2226
11 TraesCS6B01G428900 chr6A 605117789 605118388 599 False 747.000000 747 89.127000 3102 3705 1 chr6A.!!$F1 603
12 TraesCS6B01G428900 chr4A 669391514 669392294 780 True 725.000000 725 83.544000 1091 1874 1 chr4A.!!$R1 783

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
363 3753 0.240945 CGTCCAAGGCAAACATGACC 59.759 55.0 0.0 0.0 0.00 4.02 F
740 6348 0.316937 CAGCAAAATCGTGTGCGTGT 60.317 50.0 0.0 0.0 45.62 4.49 F
869 13620 0.390860 ACAGCGAGCAGTCTTGAGTT 59.609 50.0 0.0 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2525 16572 0.737715 GTCCTTCTCATCGCGCTGTT 60.738 55.0 10.07 0.0 0.00 3.16 R
2548 16595 1.646189 GCCTTGACGAAGATCTCACC 58.354 55.0 0.00 0.0 0.00 4.02 R
3063 17197 7.401060 TGATAGGGTCCATATGTATTGGTTT 57.599 36.0 0.00 0.0 35.64 3.27 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
116 3506 3.932710 GCACTCGTGATAATCAACCAAGA 59.067 43.478 0.39 0.00 0.00 3.02
119 3509 6.330278 CACTCGTGATAATCAACCAAGACTA 58.670 40.000 0.00 0.00 0.00 2.59
134 3524 1.142870 AGACTAAAGGTTGTGCAGCCA 59.857 47.619 7.76 0.00 33.73 4.75
148 3538 2.408271 CAGCCATGCAGGAACTAGAA 57.592 50.000 0.00 0.00 41.22 2.10
194 3584 3.185246 CCATGTCGGTAAGCTCTGAAT 57.815 47.619 0.00 0.00 0.00 2.57
203 3593 2.853731 AAGCTCTGAATAGGACGACG 57.146 50.000 0.00 0.00 0.00 5.12
208 3598 1.135199 TCTGAATAGGACGACGTTGCC 60.135 52.381 0.13 5.43 0.00 4.52
241 3631 1.134670 GGGCAGTAGGTACAAGAGCTG 60.135 57.143 0.00 0.00 37.09 4.24
245 3635 2.757868 CAGTAGGTACAAGAGCTGAGCT 59.242 50.000 6.69 6.69 43.88 4.09
299 3689 1.525765 AGCGTGTGCACACCAATGA 60.526 52.632 37.23 5.49 46.23 2.57
340 3730 3.384532 GGCAGCAACACCATGGGG 61.385 66.667 14.08 14.08 41.29 4.96
352 3742 4.047125 ATGGGGGTGCGTCCAAGG 62.047 66.667 0.37 0.00 36.54 3.61
355 3745 4.966787 GGGGTGCGTCCAAGGCAA 62.967 66.667 0.00 0.00 40.93 4.52
356 3746 2.909965 GGGTGCGTCCAAGGCAAA 60.910 61.111 0.00 0.00 40.93 3.68
358 3748 2.485795 GGTGCGTCCAAGGCAAACA 61.486 57.895 0.00 0.00 40.93 2.83
360 3750 0.664166 GTGCGTCCAAGGCAAACATG 60.664 55.000 0.00 0.00 40.93 3.21
361 3751 0.821301 TGCGTCCAAGGCAAACATGA 60.821 50.000 0.00 0.00 35.91 3.07
362 3752 0.387239 GCGTCCAAGGCAAACATGAC 60.387 55.000 0.00 0.00 0.00 3.06
363 3753 0.240945 CGTCCAAGGCAAACATGACC 59.759 55.000 0.00 0.00 0.00 4.02
364 3754 0.240945 GTCCAAGGCAAACATGACCG 59.759 55.000 0.00 0.00 0.00 4.79
365 3755 1.080569 CCAAGGCAAACATGACCGC 60.081 57.895 0.00 0.00 0.00 5.68
387 3777 2.030562 CTGCGGTCCGACCTGTTT 59.969 61.111 17.49 0.00 35.66 2.83
389 3779 3.047877 GCGGTCCGACCTGTTTGG 61.048 66.667 17.49 0.00 42.93 3.28
391 3781 2.874664 CGGTCCGACCTGTTTGGGA 61.875 63.158 15.70 0.00 41.11 4.37
392 3782 1.003718 GGTCCGACCTGTTTGGGAG 60.004 63.158 10.59 0.00 41.11 4.30
393 3783 1.477685 GGTCCGACCTGTTTGGGAGA 61.478 60.000 10.59 0.00 41.11 3.71
394 3784 0.395312 GTCCGACCTGTTTGGGAGAA 59.605 55.000 0.00 0.00 41.11 2.87
395 3785 1.003233 GTCCGACCTGTTTGGGAGAAT 59.997 52.381 0.00 0.00 41.11 2.40
396 3786 1.702957 TCCGACCTGTTTGGGAGAATT 59.297 47.619 0.00 0.00 41.11 2.17
397 3787 2.107552 TCCGACCTGTTTGGGAGAATTT 59.892 45.455 0.00 0.00 41.11 1.82
398 3788 2.890945 CCGACCTGTTTGGGAGAATTTT 59.109 45.455 0.00 0.00 41.11 1.82
399 3789 3.305335 CCGACCTGTTTGGGAGAATTTTG 60.305 47.826 0.00 0.00 41.11 2.44
400 3790 3.317993 CGACCTGTTTGGGAGAATTTTGT 59.682 43.478 0.00 0.00 41.11 2.83
402 3792 4.546674 ACCTGTTTGGGAGAATTTTGTCT 58.453 39.130 0.00 0.00 41.11 3.41
404 3794 4.262164 CCTGTTTGGGAGAATTTTGTCTGG 60.262 45.833 0.00 0.00 0.00 3.86
406 3796 4.714308 TGTTTGGGAGAATTTTGTCTGGTT 59.286 37.500 0.00 0.00 0.00 3.67
407 3797 5.188751 TGTTTGGGAGAATTTTGTCTGGTTT 59.811 36.000 0.00 0.00 0.00 3.27
408 3798 5.529581 TTGGGAGAATTTTGTCTGGTTTC 57.470 39.130 0.00 0.00 0.00 2.78
410 3800 5.147032 TGGGAGAATTTTGTCTGGTTTCAT 58.853 37.500 0.00 0.00 0.00 2.57
411 3801 5.010922 TGGGAGAATTTTGTCTGGTTTCATG 59.989 40.000 0.00 0.00 0.00 3.07
412 3802 4.925646 GGAGAATTTTGTCTGGTTTCATGC 59.074 41.667 0.00 0.00 0.00 4.06
413 3803 4.886579 AGAATTTTGTCTGGTTTCATGCC 58.113 39.130 0.00 0.00 0.00 4.40
414 3804 4.590222 AGAATTTTGTCTGGTTTCATGCCT 59.410 37.500 0.00 0.00 0.00 4.75
415 3805 4.525912 ATTTTGTCTGGTTTCATGCCTC 57.474 40.909 0.00 0.00 0.00 4.70
417 3807 0.955428 TGTCTGGTTTCATGCCTCGC 60.955 55.000 0.00 0.00 0.00 5.03
440 3831 2.980233 GAGGTTGCGGCACTGCTT 60.980 61.111 0.05 0.00 35.36 3.91
441 3832 2.519302 AGGTTGCGGCACTGCTTT 60.519 55.556 0.05 0.00 35.36 3.51
444 3835 1.661509 GTTGCGGCACTGCTTTTCC 60.662 57.895 0.05 0.00 35.36 3.13
457 3848 1.589716 CTTTTCCGGCTCCTTGGCTG 61.590 60.000 0.00 0.00 39.32 4.85
478 3869 3.851051 CTGCTCTCCAGGTTTCTCC 57.149 57.895 0.00 0.00 37.93 3.71
522 3913 4.715523 GCCGGGGCACACTGCTTA 62.716 66.667 2.18 0.00 44.28 3.09
523 3914 2.272146 CCGGGGCACACTGCTTAT 59.728 61.111 0.00 0.00 44.28 1.73
525 3916 1.656818 CCGGGGCACACTGCTTATTG 61.657 60.000 0.00 0.00 44.28 1.90
533 3924 1.488812 ACACTGCTTATTGGCCGGATA 59.511 47.619 5.05 0.00 0.00 2.59
624 4015 1.355796 CGGTTTTGTCGGATAGCGCA 61.356 55.000 11.47 0.00 0.00 6.09
625 4016 1.014352 GGTTTTGTCGGATAGCGCAT 58.986 50.000 11.47 0.06 0.00 4.73
626 4017 2.206750 GGTTTTGTCGGATAGCGCATA 58.793 47.619 11.47 0.00 0.00 3.14
677 6285 4.308458 CTGACGGTCGTGGGCCAA 62.308 66.667 8.40 0.00 0.00 4.52
679 6287 2.359478 GACGGTCGTGGGCCAAAT 60.359 61.111 8.40 0.00 0.00 2.32
686 6294 2.699768 CGTGGGCCAAATGATGCGT 61.700 57.895 8.40 0.00 0.00 5.24
707 6315 2.334946 GCAATGAGCGGTCCAAGCA 61.335 57.895 12.85 0.00 37.01 3.91
734 6342 1.531149 CTCGGTTCAGCAAAATCGTGT 59.469 47.619 4.05 0.00 0.00 4.49
740 6348 0.316937 CAGCAAAATCGTGTGCGTGT 60.317 50.000 0.00 0.00 45.62 4.49
807 6415 3.299340 GAATGTGTGTACAGTCGGTCT 57.701 47.619 0.00 0.00 41.35 3.85
821 6429 3.129638 AGTCGGTCTGTCTATCTCAAAGC 59.870 47.826 0.00 0.00 0.00 3.51
825 6433 1.824852 TCTGTCTATCTCAAAGCCGCA 59.175 47.619 0.00 0.00 0.00 5.69
835 6443 3.866379 AAAGCCGCATGTGCCTCCA 62.866 57.895 0.00 0.00 37.91 3.86
840 6448 1.750018 CGCATGTGCCTCCATTCCA 60.750 57.895 0.00 0.00 37.91 3.53
869 13620 0.390860 ACAGCGAGCAGTCTTGAGTT 59.609 50.000 0.00 0.00 0.00 3.01
883 13634 3.002656 TCTTGAGTTTTCTTTCTGCGCTG 59.997 43.478 9.73 8.88 0.00 5.18
900 13651 1.811359 GCTGTATCGATACGCTACCCT 59.189 52.381 28.83 0.20 36.06 4.34
932 13683 2.294979 AGCGATATAGTGTCGTGGTCA 58.705 47.619 0.00 0.00 40.98 4.02
942 13693 1.605451 TCGTGGTCATCACCCTCGT 60.605 57.895 1.18 0.00 42.99 4.18
2525 16572 0.976641 CTAGTGGTGACAAGAGGCCA 59.023 55.000 5.01 0.00 46.06 5.36
2548 16595 1.227089 CGCGATGAGAAGGACTGGG 60.227 63.158 0.00 0.00 0.00 4.45
2599 16646 6.820656 CAGTGGCTATAAGATTGTGAAGAAGT 59.179 38.462 0.00 0.00 0.00 3.01
3063 17197 4.593206 ACACTTAGGTGAGTCTTGGATTCA 59.407 41.667 12.54 0.00 45.61 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.565482 AGAAAGTTGCACAACACGATCAT 59.435 39.130 15.40 0.00 43.47 2.45
1 2 2.942376 AGAAAGTTGCACAACACGATCA 59.058 40.909 15.40 0.00 43.47 2.92
63 3453 8.721133 TGCCTGAGTAGATTATCCAATAGTTA 57.279 34.615 0.00 0.00 0.00 2.24
116 3506 1.888512 CATGGCTGCACAACCTTTAGT 59.111 47.619 0.50 0.00 0.00 2.24
181 3571 3.548415 CGTCGTCCTATTCAGAGCTTACC 60.548 52.174 0.00 0.00 0.00 2.85
194 3584 2.967397 CCAGGCAACGTCGTCCTA 59.033 61.111 5.38 0.00 46.39 2.94
241 3631 1.895707 CCCGGCATCATTGGAGCTC 60.896 63.158 4.71 4.71 0.00 4.09
245 3635 2.440065 GTGCCCGGCATCATTGGA 60.440 61.111 16.96 0.00 41.91 3.53
269 3659 2.435410 CACGCTGCTGCTCATGGA 60.435 61.111 14.03 0.00 36.97 3.41
285 3675 1.202394 GCAAGTTCATTGGTGTGCACA 60.202 47.619 17.42 17.42 39.47 4.57
299 3689 0.820891 CTGGTGGAGCTGTGCAAGTT 60.821 55.000 0.00 0.00 0.00 2.66
340 3730 1.805428 ATGTTTGCCTTGGACGCACC 61.805 55.000 0.00 0.00 35.56 5.01
342 3732 0.821301 TCATGTTTGCCTTGGACGCA 60.821 50.000 0.00 0.00 0.00 5.24
343 3733 0.387239 GTCATGTTTGCCTTGGACGC 60.387 55.000 0.00 0.00 0.00 5.19
344 3734 0.240945 GGTCATGTTTGCCTTGGACG 59.759 55.000 0.00 0.00 0.00 4.79
346 3736 1.523154 GCGGTCATGTTTGCCTTGGA 61.523 55.000 0.00 0.00 0.00 3.53
347 3737 1.080569 GCGGTCATGTTTGCCTTGG 60.081 57.895 0.00 0.00 0.00 3.61
348 3738 1.442520 CGCGGTCATGTTTGCCTTG 60.443 57.895 0.00 0.00 0.00 3.61
349 3739 2.953821 CGCGGTCATGTTTGCCTT 59.046 55.556 0.00 0.00 0.00 4.35
369 3759 4.681978 AACAGGTCGGACCGCAGC 62.682 66.667 20.87 8.16 44.90 5.25
370 3760 2.030562 AAACAGGTCGGACCGCAG 59.969 61.111 20.87 16.62 44.90 5.18
371 3761 2.280524 CAAACAGGTCGGACCGCA 60.281 61.111 20.87 0.00 44.90 5.69
372 3762 3.047877 CCAAACAGGTCGGACCGC 61.048 66.667 20.87 4.24 44.90 5.68
375 3765 0.395312 TTCTCCCAAACAGGTCGGAC 59.605 55.000 0.00 0.00 34.66 4.79
376 3766 1.358152 ATTCTCCCAAACAGGTCGGA 58.642 50.000 0.00 0.00 34.66 4.55
377 3767 2.200373 AATTCTCCCAAACAGGTCGG 57.800 50.000 0.00 0.00 34.66 4.79
378 3768 3.317993 ACAAAATTCTCCCAAACAGGTCG 59.682 43.478 0.00 0.00 34.66 4.79
379 3769 4.584743 AGACAAAATTCTCCCAAACAGGTC 59.415 41.667 0.00 0.00 34.66 3.85
380 3770 4.342092 CAGACAAAATTCTCCCAAACAGGT 59.658 41.667 0.00 0.00 34.66 4.00
381 3771 4.262164 CCAGACAAAATTCTCCCAAACAGG 60.262 45.833 0.00 0.00 37.03 4.00
382 3772 4.342092 ACCAGACAAAATTCTCCCAAACAG 59.658 41.667 0.00 0.00 0.00 3.16
383 3773 4.285863 ACCAGACAAAATTCTCCCAAACA 58.714 39.130 0.00 0.00 0.00 2.83
384 3774 4.937201 ACCAGACAAAATTCTCCCAAAC 57.063 40.909 0.00 0.00 0.00 2.93
385 3775 5.423610 TGAAACCAGACAAAATTCTCCCAAA 59.576 36.000 0.00 0.00 0.00 3.28
387 3777 4.541705 TGAAACCAGACAAAATTCTCCCA 58.458 39.130 0.00 0.00 0.00 4.37
389 3779 4.925646 GCATGAAACCAGACAAAATTCTCC 59.074 41.667 0.00 0.00 0.00 3.71
391 3781 4.590222 AGGCATGAAACCAGACAAAATTCT 59.410 37.500 0.00 0.00 0.00 2.40
392 3782 4.886579 AGGCATGAAACCAGACAAAATTC 58.113 39.130 0.00 0.00 0.00 2.17
393 3783 4.559300 CGAGGCATGAAACCAGACAAAATT 60.559 41.667 0.00 0.00 0.00 1.82
394 3784 3.057315 CGAGGCATGAAACCAGACAAAAT 60.057 43.478 0.00 0.00 0.00 1.82
395 3785 2.293122 CGAGGCATGAAACCAGACAAAA 59.707 45.455 0.00 0.00 0.00 2.44
396 3786 1.879380 CGAGGCATGAAACCAGACAAA 59.121 47.619 0.00 0.00 0.00 2.83
397 3787 1.522668 CGAGGCATGAAACCAGACAA 58.477 50.000 0.00 0.00 0.00 3.18
398 3788 0.955428 GCGAGGCATGAAACCAGACA 60.955 55.000 0.00 0.00 0.00 3.41
399 3789 1.648467 GGCGAGGCATGAAACCAGAC 61.648 60.000 0.00 0.00 0.00 3.51
400 3790 1.377202 GGCGAGGCATGAAACCAGA 60.377 57.895 0.00 0.00 0.00 3.86
402 3792 2.745884 CGGCGAGGCATGAAACCA 60.746 61.111 0.00 0.00 0.00 3.67
404 3794 2.435938 TCCGGCGAGGCATGAAAC 60.436 61.111 9.30 0.00 40.77 2.78
413 3803 4.821589 GCAACCTCCTCCGGCGAG 62.822 72.222 9.30 10.56 35.72 5.03
428 3819 3.659092 CGGAAAAGCAGTGCCGCA 61.659 61.111 12.58 0.00 37.08 5.69
431 3822 2.982744 GAGCCGGAAAAGCAGTGCC 61.983 63.158 12.58 0.00 0.00 5.01
440 3831 2.034066 CAGCCAAGGAGCCGGAAA 59.966 61.111 5.05 0.00 0.00 3.13
441 3832 2.927856 TCAGCCAAGGAGCCGGAA 60.928 61.111 5.05 0.00 0.00 4.30
444 3835 3.710722 AGGTCAGCCAAGGAGCCG 61.711 66.667 0.00 0.00 37.19 5.52
505 3896 3.995506 ATAAGCAGTGTGCCCCGGC 62.996 63.158 0.00 0.00 46.52 6.13
507 3898 1.656818 CCAATAAGCAGTGTGCCCCG 61.657 60.000 0.00 0.00 46.52 5.73
522 3913 3.200483 GTCTTTAACGTATCCGGCCAAT 58.800 45.455 2.24 0.00 38.78 3.16
523 3914 2.620242 GTCTTTAACGTATCCGGCCAA 58.380 47.619 2.24 0.00 38.78 4.52
525 3916 1.203065 CGTCTTTAACGTATCCGGCC 58.797 55.000 0.00 0.00 46.42 6.13
536 3927 9.884636 TCCTTATCATCTTTTCATCGTCTTTAA 57.115 29.630 0.00 0.00 0.00 1.52
538 3929 8.970859 ATCCTTATCATCTTTTCATCGTCTTT 57.029 30.769 0.00 0.00 0.00 2.52
608 3999 2.286833 GCTTATGCGCTATCCGACAAAA 59.713 45.455 9.73 0.00 40.02 2.44
624 4015 1.202382 GGCGAGACGTGGTTAGCTTAT 60.202 52.381 0.00 0.00 0.00 1.73
625 4016 0.171903 GGCGAGACGTGGTTAGCTTA 59.828 55.000 0.00 0.00 0.00 3.09
626 4017 1.080025 GGCGAGACGTGGTTAGCTT 60.080 57.895 0.00 0.00 0.00 3.74
630 4021 3.751246 CGGGGCGAGACGTGGTTA 61.751 66.667 0.00 0.00 0.00 2.85
663 6271 2.478335 ATCATTTGGCCCACGACCGT 62.478 55.000 0.00 0.00 0.00 4.83
665 6273 1.809207 CATCATTTGGCCCACGACC 59.191 57.895 0.00 0.00 0.00 4.79
710 6318 1.586154 ATTTTGCTGAACCGAGCGGG 61.586 55.000 14.07 0.00 42.32 6.13
721 6329 0.316937 ACACGCACACGATTTTGCTG 60.317 50.000 0.00 0.00 43.93 4.41
768 6376 4.577687 TTCCTTTCGTGAATTCGAATCG 57.422 40.909 11.83 11.06 46.55 3.34
785 6393 1.968493 ACCGACTGTACACACATTCCT 59.032 47.619 0.00 0.00 32.22 3.36
807 6415 2.093500 ACATGCGGCTTTGAGATAGACA 60.093 45.455 0.00 0.00 0.00 3.41
812 6420 1.660560 GGCACATGCGGCTTTGAGAT 61.661 55.000 9.51 0.00 43.26 2.75
817 6425 3.064324 GGAGGCACATGCGGCTTT 61.064 61.111 11.48 0.00 42.77 3.51
821 6429 2.484062 GGAATGGAGGCACATGCGG 61.484 63.158 0.00 0.00 43.26 5.69
825 6433 2.292389 TGGAAATGGAATGGAGGCACAT 60.292 45.455 0.00 0.00 0.00 3.21
835 6443 1.188863 GCTGTGGCTGGAAATGGAAT 58.811 50.000 0.00 0.00 35.22 3.01
840 6448 2.042831 GCTCGCTGTGGCTGGAAAT 61.043 57.895 0.00 0.00 36.09 2.17
869 13620 2.954316 TCGATACAGCGCAGAAAGAAA 58.046 42.857 11.47 0.00 0.00 2.52
883 13634 1.135460 GCCAGGGTAGCGTATCGATAC 60.135 57.143 23.03 23.03 46.03 2.24
942 13693 2.143122 GCTGTCATTTCTCGTGGAACA 58.857 47.619 0.00 0.00 35.74 3.18
2525 16572 0.737715 GTCCTTCTCATCGCGCTGTT 60.738 55.000 10.07 0.00 0.00 3.16
2548 16595 1.646189 GCCTTGACGAAGATCTCACC 58.354 55.000 0.00 0.00 0.00 4.02
3063 17197 7.401060 TGATAGGGTCCATATGTATTGGTTT 57.599 36.000 0.00 0.00 35.64 3.27
3527 17680 6.485830 TTGTGAATTTGTTGGTCCCAAATA 57.514 33.333 0.00 0.00 40.62 1.40


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

AutoCloner maintained by Alex Coulton.