Multiple sequence alignment - TraesCS3B01G388600

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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 TraesCS3B01G388600 chr3B 100.000 4169 0 0 1 4169 611675518 611679686 0.000000e+00 7699.0
1 TraesCS3B01G388600 chr3B 90.597 553 44 6 1 547 419713583 419713033 0.000000e+00 726.0
2 TraesCS3B01G388600 chr3D 96.080 2908 90 10 559 3446 461199039 461201942 0.000000e+00 4717.0
3 TraesCS3B01G388600 chr3D 88.783 419 26 11 3486 3895 461202277 461202683 1.040000e-135 494.0
4 TraesCS3B01G388600 chr3D 89.434 265 15 5 3910 4169 461202770 461203026 5.200000e-84 322.0
5 TraesCS3B01G388600 chr3A 95.726 2901 94 11 565 3440 603789642 603792537 0.000000e+00 4643.0
6 TraesCS3B01G388600 chr3A 89.006 473 17 8 3449 3901 603793027 603793484 1.690000e-153 553.0
7 TraesCS3B01G388600 chr3A 92.340 235 12 3 3941 4169 603793607 603793841 3.110000e-86 329.0
8 TraesCS3B01G388600 chr1D 90.985 2385 192 12 1084 3449 471303057 471300677 0.000000e+00 3192.0
9 TraesCS3B01G388600 chr1D 85.604 389 31 11 2907 3270 471432555 471432943 6.540000e-103 385.0
10 TraesCS3B01G388600 chr1D 91.228 114 9 1 3449 3561 303318861 303318974 2.010000e-33 154.0
11 TraesCS3B01G388600 chr1D 100.000 37 0 0 987 1023 471303094 471303058 7.480000e-08 69.4
12 TraesCS3B01G388600 chr1B 90.426 2392 193 20 1084 3444 655104327 655101941 0.000000e+00 3116.0
13 TraesCS3B01G388600 chr1B 85.347 1051 117 23 2351 3371 655271553 655272596 0.000000e+00 1053.0
14 TraesCS3B01G388600 chr1B 91.228 114 9 1 3449 3561 410798056 410798169 2.010000e-33 154.0
15 TraesCS3B01G388600 chr1B 97.619 42 1 0 982 1023 655104369 655104328 5.780000e-09 73.1
16 TraesCS3B01G388600 chr7D 96.056 1572 52 5 1878 3449 29536560 29534999 0.000000e+00 2551.0
17 TraesCS3B01G388600 chr7D 95.093 591 20 2 1291 1881 29537521 29536940 0.000000e+00 922.0
18 TraesCS3B01G388600 chr7D 95.652 161 6 1 3733 3893 29534640 29534481 1.490000e-64 257.0
19 TraesCS3B01G388600 chr1A 82.416 1871 294 19 1313 3169 20815109 20816958 0.000000e+00 1600.0
20 TraesCS3B01G388600 chr1A 86.296 540 59 7 1210 1749 565571868 565572392 1.300000e-159 573.0
21 TraesCS3B01G388600 chr1A 90.566 106 9 1 3449 3553 380951169 380951274 5.620000e-29 139.0
22 TraesCS3B01G388600 chr1A 89.655 58 4 2 964 1020 565569992 565570048 5.780000e-09 73.1
23 TraesCS3B01G388600 chr7A 95.675 763 28 1 1291 2048 29781385 29780623 0.000000e+00 1221.0
24 TraesCS3B01G388600 chr7A 83.333 270 25 7 3145 3402 704893845 704893584 9.010000e-57 231.0
25 TraesCS3B01G388600 chr6B 92.043 553 39 5 1 552 176137288 176136740 0.000000e+00 773.0
26 TraesCS3B01G388600 chr6B 91.912 544 42 2 1 543 209166423 209165881 0.000000e+00 760.0
27 TraesCS3B01G388600 chr6B 91.123 552 43 5 1 549 209134806 209134258 0.000000e+00 743.0
28 TraesCS3B01G388600 chr6B 91.091 550 47 2 1 549 513384397 513384945 0.000000e+00 743.0
29 TraesCS3B01G388600 chr6B 89.809 157 11 4 4018 4169 702830284 702830440 3.290000e-46 196.0
30 TraesCS3B01G388600 chr2B 91.367 556 40 7 1 552 139651514 139652065 0.000000e+00 754.0
31 TraesCS3B01G388600 chr2B 90.827 556 45 5 1 552 439613520 439612967 0.000000e+00 739.0
32 TraesCS3B01G388600 chr7B 91.728 544 42 3 1 543 569564578 569564037 0.000000e+00 752.0
33 TraesCS3B01G388600 chr7B 90.502 558 46 5 1 553 474640688 474640133 0.000000e+00 730.0
34 TraesCS3B01G388600 chr7B 94.393 107 6 0 3061 3167 703302127 703302021 9.270000e-37 165.0
35 TraesCS3B01G388600 chr7B 92.920 113 8 0 2909 3021 703302238 703302126 9.270000e-37 165.0
36 TraesCS3B01G388600 chrUn 86.296 540 59 7 1210 1749 1368158 1368682 1.300000e-159 573.0
37 TraesCS3B01G388600 chrUn 86.771 446 39 8 1304 1749 396328458 396328033 2.920000e-131 479.0
38 TraesCS3B01G388600 chrUn 86.747 83 6 3 943 1020 1366257 1366339 2.060000e-13 87.9
39 TraesCS3B01G388600 chrUn 86.047 86 7 3 943 1023 349798125 349798040 2.060000e-13 87.9
40 TraesCS3B01G388600 chr6A 82.573 241 23 13 3948 4169 607956727 607956967 1.180000e-45 195.0
41 TraesCS3B01G388600 chr4B 88.496 113 11 2 3449 3560 283728958 283728847 7.270000e-28 135.0


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 TraesCS3B01G388600 chr3B 611675518 611679686 4168 False 7699.000000 7699 100.000000 1 4169 1 chr3B.!!$F1 4168
1 TraesCS3B01G388600 chr3B 419713033 419713583 550 True 726.000000 726 90.597000 1 547 1 chr3B.!!$R1 546
2 TraesCS3B01G388600 chr3D 461199039 461203026 3987 False 1844.333333 4717 91.432333 559 4169 3 chr3D.!!$F1 3610
3 TraesCS3B01G388600 chr3A 603789642 603793841 4199 False 1841.666667 4643 92.357333 565 4169 3 chr3A.!!$F1 3604
4 TraesCS3B01G388600 chr1D 471300677 471303094 2417 True 1630.700000 3192 95.492500 987 3449 2 chr1D.!!$R1 2462
5 TraesCS3B01G388600 chr1B 655101941 655104369 2428 True 1594.550000 3116 94.022500 982 3444 2 chr1B.!!$R1 2462
6 TraesCS3B01G388600 chr1B 655271553 655272596 1043 False 1053.000000 1053 85.347000 2351 3371 1 chr1B.!!$F2 1020
7 TraesCS3B01G388600 chr7D 29534481 29537521 3040 True 1243.333333 2551 95.600333 1291 3893 3 chr7D.!!$R1 2602
8 TraesCS3B01G388600 chr1A 20815109 20816958 1849 False 1600.000000 1600 82.416000 1313 3169 1 chr1A.!!$F1 1856
9 TraesCS3B01G388600 chr1A 565569992 565572392 2400 False 323.050000 573 87.975500 964 1749 2 chr1A.!!$F3 785
10 TraesCS3B01G388600 chr7A 29780623 29781385 762 True 1221.000000 1221 95.675000 1291 2048 1 chr7A.!!$R1 757
11 TraesCS3B01G388600 chr6B 176136740 176137288 548 True 773.000000 773 92.043000 1 552 1 chr6B.!!$R1 551
12 TraesCS3B01G388600 chr6B 209165881 209166423 542 True 760.000000 760 91.912000 1 543 1 chr6B.!!$R3 542
13 TraesCS3B01G388600 chr6B 209134258 209134806 548 True 743.000000 743 91.123000 1 549 1 chr6B.!!$R2 548
14 TraesCS3B01G388600 chr6B 513384397 513384945 548 False 743.000000 743 91.091000 1 549 1 chr6B.!!$F1 548
15 TraesCS3B01G388600 chr2B 139651514 139652065 551 False 754.000000 754 91.367000 1 552 1 chr2B.!!$F1 551
16 TraesCS3B01G388600 chr2B 439612967 439613520 553 True 739.000000 739 90.827000 1 552 1 chr2B.!!$R1 551
17 TraesCS3B01G388600 chr7B 569564037 569564578 541 True 752.000000 752 91.728000 1 543 1 chr7B.!!$R2 542
18 TraesCS3B01G388600 chr7B 474640133 474640688 555 True 730.000000 730 90.502000 1 553 1 chr7B.!!$R1 552
19 TraesCS3B01G388600 chrUn 1366257 1368682 2425 False 330.450000 573 86.521500 943 1749 2 chrUn.!!$F1 806

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
876 918 0.031721 CTAACCCTAACCCTAGCGCG 59.968 60.0 0.00 0.00 0.00 6.86 F
985 1035 0.391263 AACATCGCCGTTCTTCTCCC 60.391 55.0 0.00 0.00 0.00 4.30 F
1761 3524 0.035725 CAGCCAATGAGGAGCTCACA 60.036 55.0 17.19 15.12 43.63 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1734 3497 0.896940 CCTCATTGGCTGCAACCACT 60.897 55.000 8.74 0.0 40.19 4.00 R
2464 4616 1.302033 GGAGTGGTGGTGTGAGCAG 60.302 63.158 0.00 0.0 0.00 4.24 R
3558 6227 0.466189 ACCACAACAGCACCAAGGAG 60.466 55.000 0.00 0.0 0.00 3.69 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
111 112 2.439701 CCCTGAGGCGGTCGACTA 60.440 66.667 16.46 0.00 30.74 2.59
128 135 4.097437 TCGACTAGAATATGGGTGTGTGTC 59.903 45.833 0.00 0.00 0.00 3.67
248 258 1.626825 ACAGGGCGTTACTGGTAATGT 59.373 47.619 12.43 3.66 40.23 2.71
334 344 4.730966 TGAGTGACTCTAGGTCTTCTGTT 58.269 43.478 14.42 0.00 44.74 3.16
355 365 1.893801 ACTCCGAGTGGTTTCCTGTAG 59.106 52.381 0.00 0.00 36.30 2.74
390 401 3.599343 CATCCAGGTCGAGTGAAATTGA 58.401 45.455 0.00 0.00 0.00 2.57
419 431 1.531423 GTGAGGTGACTGGTCGAGTA 58.469 55.000 0.00 0.00 44.43 2.59
438 453 1.376543 AGATTGCACTCGATGGCTTG 58.623 50.000 9.48 0.00 0.00 4.01
459 474 7.206687 GCTTGAGTCAGTACTTCTTGCTATAT 58.793 38.462 0.00 0.00 35.56 0.86
515 530 3.502488 GGGTAGGGCATATAGGTCAGACT 60.502 52.174 0.00 0.00 0.00 3.24
550 565 2.880443 AGGTTCATGGCATTGTCACTT 58.120 42.857 0.00 0.00 0.00 3.16
551 566 4.032960 AGGTTCATGGCATTGTCACTTA 57.967 40.909 0.00 0.00 0.00 2.24
552 567 4.603131 AGGTTCATGGCATTGTCACTTAT 58.397 39.130 0.00 0.00 0.00 1.73
553 568 5.018809 AGGTTCATGGCATTGTCACTTATT 58.981 37.500 0.00 0.00 0.00 1.40
554 569 6.186957 AGGTTCATGGCATTGTCACTTATTA 58.813 36.000 0.00 0.00 0.00 0.98
555 570 6.319658 AGGTTCATGGCATTGTCACTTATTAG 59.680 38.462 0.00 0.00 0.00 1.73
556 571 6.095440 GGTTCATGGCATTGTCACTTATTAGT 59.905 38.462 0.00 0.00 34.00 2.24
557 572 7.282224 GGTTCATGGCATTGTCACTTATTAGTA 59.718 37.037 0.00 0.00 31.96 1.82
669 687 1.671054 ACCGTCGGATGCAGTTTGG 60.671 57.895 20.51 0.00 0.00 3.28
749 776 1.189227 GCACGGCATGTTTCGTTTTTC 59.811 47.619 7.85 0.00 37.53 2.29
793 820 8.935844 CCCTTAAAAGCCATATTTTTGACTTTC 58.064 33.333 0.00 0.00 34.35 2.62
875 917 1.340568 CTCTAACCCTAACCCTAGCGC 59.659 57.143 0.00 0.00 0.00 5.92
876 918 0.031721 CTAACCCTAACCCTAGCGCG 59.968 60.000 0.00 0.00 0.00 6.86
877 919 2.019897 TAACCCTAACCCTAGCGCGC 62.020 60.000 26.66 26.66 0.00 6.86
985 1035 0.391263 AACATCGCCGTTCTTCTCCC 60.391 55.000 0.00 0.00 0.00 4.30
1224 2964 3.829044 TCGTCGTACATGGGCGGG 61.829 66.667 10.47 4.71 0.00 6.13
1728 3491 2.125512 GATGACCGCTCGGCAACT 60.126 61.111 8.41 0.00 39.32 3.16
1761 3524 0.035725 CAGCCAATGAGGAGCTCACA 60.036 55.000 17.19 15.12 43.63 3.58
2243 4395 6.019748 AGAGGAAGGAGATGAACAAGAAGTA 58.980 40.000 0.00 0.00 0.00 2.24
2364 4516 1.669927 TTGCCAAGGGGAAGGGGAAA 61.670 55.000 0.00 0.00 35.59 3.13
2464 4616 0.036875 CCACTTCCCAGAACCCACTC 59.963 60.000 0.00 0.00 0.00 3.51
2694 4846 2.625790 GCTGAGGATTGGACGATACTCT 59.374 50.000 12.00 0.00 37.78 3.24
2715 4867 6.318648 ACTCTCAGCATTTTGTTGACTTGTTA 59.681 34.615 0.00 0.00 32.63 2.41
2903 5056 7.041440 TGTTGTGTTCACTTCGATATCAATGTT 60.041 33.333 3.12 0.00 0.00 2.71
2928 5081 3.366396 TCCTCACATTCTCCTACTGGAC 58.634 50.000 0.00 0.00 37.46 4.02
2961 5114 9.407380 ACAAATCACTTGGATATGCAAAGTATA 57.593 29.630 11.06 4.40 39.56 1.47
3025 5178 2.176045 TCTTGGTTAGCCATGACTCGA 58.824 47.619 9.75 0.00 45.56 4.04
3054 5207 3.636282 TCTCGAGTTTGTGACGATGAA 57.364 42.857 13.13 0.00 35.58 2.57
3147 5300 6.438425 ACAAGGATGAACTAATGGCAGAAATT 59.562 34.615 0.00 0.00 0.00 1.82
3159 5312 9.396022 CTAATGGCAGAAATTAAGAAGGAAGTA 57.604 33.333 0.00 0.00 0.00 2.24
3228 5391 3.070018 AGAATGAGCTGGTTTGTTCTCG 58.930 45.455 0.00 0.00 0.00 4.04
3248 5414 8.621286 GTTCTCGTGAAATCCCATGTATTATTT 58.379 33.333 0.74 0.00 33.52 1.40
3343 5527 8.829612 CAAGATGAGTTATTTGTTTGCCTTTTT 58.170 29.630 0.00 0.00 0.00 1.94
3406 5590 1.334059 CGATTTTGCGCAACACAGTCT 60.334 47.619 24.99 0.00 0.00 3.24
3440 5629 6.894735 TCTTGGGTGGTATTACTTCCATAA 57.105 37.500 8.97 4.64 36.09 1.90
3446 5635 6.151144 GGGTGGTATTACTTCCATAATGCATC 59.849 42.308 0.00 0.00 36.09 3.91
3464 6132 4.040217 TGCATCTTGGGTTAGCAAAATTGT 59.960 37.500 0.00 0.00 31.42 2.71
3480 6148 2.341846 TTGTTATGGAAGGATCGCCC 57.658 50.000 0.00 0.00 33.31 6.13
3558 6227 6.642707 ACTAGTAGCATGAGTAAGGATGTC 57.357 41.667 0.00 0.00 0.00 3.06
3679 6352 7.606456 TGTCTTCTTCACTACCAATATTTGACC 59.394 37.037 0.00 0.00 0.00 4.02
3680 6353 7.824779 GTCTTCTTCACTACCAATATTTGACCT 59.175 37.037 0.00 0.00 0.00 3.85
3684 6357 6.235231 TCACTACCAATATTTGACCTCCTC 57.765 41.667 0.00 0.00 0.00 3.71
3802 6490 6.174720 TCTTCTGTTTCAGTGTATTCAGGT 57.825 37.500 0.00 0.00 32.61 4.00
3812 6500 9.599866 TTTCAGTGTATTCAGGTATTATCTGTG 57.400 33.333 3.93 0.00 34.15 3.66
3897 6585 2.369860 TCAGATCCACAGCTGAACACTT 59.630 45.455 23.35 0.00 42.20 3.16
3898 6586 2.483106 CAGATCCACAGCTGAACACTTG 59.517 50.000 23.35 6.76 38.41 3.16
3899 6587 2.105477 AGATCCACAGCTGAACACTTGT 59.895 45.455 23.35 0.00 0.00 3.16
3900 6588 1.953559 TCCACAGCTGAACACTTGTC 58.046 50.000 23.35 0.00 0.00 3.18
3901 6589 0.583438 CCACAGCTGAACACTTGTCG 59.417 55.000 23.35 0.00 0.00 4.35
3903 6591 1.258982 CACAGCTGAACACTTGTCGTC 59.741 52.381 23.35 0.00 0.00 4.20
3904 6592 0.861837 CAGCTGAACACTTGTCGTCC 59.138 55.000 8.42 0.00 0.00 4.79
3905 6593 0.753262 AGCTGAACACTTGTCGTCCT 59.247 50.000 0.00 0.00 0.00 3.85
3906 6594 1.139058 AGCTGAACACTTGTCGTCCTT 59.861 47.619 0.00 0.00 0.00 3.36
3907 6595 1.940613 GCTGAACACTTGTCGTCCTTT 59.059 47.619 0.00 0.00 0.00 3.11
3908 6596 2.286418 GCTGAACACTTGTCGTCCTTTG 60.286 50.000 0.00 0.00 0.00 2.77
3920 6680 4.586001 TGTCGTCCTTTGTAGGTAGAAGTT 59.414 41.667 0.00 0.00 42.60 2.66
3974 6744 4.277476 TGCTTGTTCCAAAGGAGAGAAAA 58.723 39.130 0.00 0.00 31.21 2.29
3995 6765 8.635328 AGAAAATGTATGTTTTTACGGTTTCCT 58.365 29.630 0.00 0.00 32.89 3.36
4016 6786 8.608844 TTCCTCTCTTTGAGTAAGAAACATTC 57.391 34.615 0.00 0.00 42.19 2.67
4017 6787 7.735917 TCCTCTCTTTGAGTAAGAAACATTCA 58.264 34.615 0.00 0.00 42.19 2.57
4050 6825 5.920193 AAAGCATGGAAGCAATTTAGCTA 57.080 34.783 0.00 0.00 45.89 3.32
4055 6830 8.010733 AGCATGGAAGCAATTTAGCTAAAATA 57.989 30.769 22.13 0.55 45.89 1.40
4138 6914 8.738645 ATCAGTGTATAAGGTTTCCATTTCTC 57.261 34.615 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.486211 ACAACCTCGCCATAGCTAGT 58.514 50.000 0.00 0.00 36.60 2.57
78 79 3.066814 GGCACCGAGACGTAGGGT 61.067 66.667 8.73 4.27 33.37 4.34
111 112 4.326826 CTTGTGACACACACCCATATTCT 58.673 43.478 8.05 0.00 44.47 2.40
286 296 1.594293 AACGGTCAGGCGTTCACTG 60.594 57.895 0.00 0.00 37.30 3.66
334 344 2.005370 ACAGGAAACCACTCGGAGTA 57.995 50.000 10.87 0.00 35.59 2.59
355 365 0.830648 TGGATGGAGTCATTCGACCC 59.169 55.000 0.00 0.00 43.73 4.46
390 401 0.686769 GTCACCTCACCCGGATACCT 60.687 60.000 0.73 0.00 0.00 3.08
419 431 1.065926 TCAAGCCATCGAGTGCAATCT 60.066 47.619 12.92 0.00 0.00 2.40
438 453 9.587772 TCAAAATATAGCAAGAAGTACTGACTC 57.412 33.333 0.00 0.00 33.58 3.36
459 474 5.073144 ACCCTAGAGTCAAGGACATTCAAAA 59.927 40.000 0.00 0.00 36.08 2.44
515 530 6.826668 CCATGAACCTATGGTAGTGTCATAA 58.173 40.000 0.00 0.00 42.16 1.90
576 591 7.934855 AATCAGCTGAGTCAGTTATGAATTT 57.065 32.000 22.96 11.77 37.14 1.82
617 635 4.976116 GCAATTTTATCGTTCCCATAGCAC 59.024 41.667 0.00 0.00 0.00 4.40
625 643 2.854185 GCAGCAGCAATTTTATCGTTCC 59.146 45.455 0.00 0.00 41.58 3.62
669 687 3.188786 CCGCGGTAGAAGTGCTGC 61.189 66.667 19.50 0.00 37.32 5.25
737 764 0.725686 TCGCGTGGAAAAACGAAACA 59.274 45.000 5.77 0.00 46.49 2.83
749 776 2.464459 GCCTCTTTGGATCGCGTGG 61.464 63.158 5.77 0.00 38.35 4.94
800 827 1.525306 CGGGTCGGCTTATTTCCCC 60.525 63.158 0.00 0.00 35.11 4.81
803 830 1.719709 GCACGGGTCGGCTTATTTC 59.280 57.895 0.00 0.00 0.00 2.17
1053 1103 3.703127 GAGGACGAGGGGGCGTTT 61.703 66.667 0.00 0.00 45.72 3.60
1122 1172 0.881796 CGTCCATCGAGGCTAGCATA 59.118 55.000 18.24 0.00 42.86 3.14
1224 2964 2.427753 GATGGGGGCAGGTCGATC 59.572 66.667 0.00 0.00 0.00 3.69
1239 2979 1.818785 GTCCTCCTCGTCGTCCGAT 60.819 63.158 0.00 0.00 46.23 4.18
1308 3060 2.915659 AGGGCGTTGAGGTCGACA 60.916 61.111 18.91 0.00 38.15 4.35
1734 3497 0.896940 CCTCATTGGCTGCAACCACT 60.897 55.000 8.74 0.00 40.19 4.00
2243 4395 3.678056 TCTGCTTTTCGTACACCTCAT 57.322 42.857 0.00 0.00 0.00 2.90
2364 4516 4.773674 TCATCATTTGCCACATTCTTTCCT 59.226 37.500 0.00 0.00 0.00 3.36
2464 4616 1.302033 GGAGTGGTGGTGTGAGCAG 60.302 63.158 0.00 0.00 0.00 4.24
2694 4846 5.741510 CGTTAACAAGTCAACAAAATGCTGA 59.258 36.000 6.39 0.00 0.00 4.26
2715 4867 2.795329 ACTGCATTTTCCTCCATCGTT 58.205 42.857 0.00 0.00 0.00 3.85
2903 5056 4.406972 CCAGTAGGAGAATGTGAGGATTCA 59.593 45.833 0.00 0.00 35.16 2.57
2928 5081 2.972625 TCCAAGTGATTTGTAGGCTCG 58.027 47.619 0.00 0.00 34.87 5.03
3025 5178 5.411781 GTCACAAACTCGAGATATCAACCT 58.588 41.667 21.68 0.00 0.00 3.50
3054 5207 3.342926 ACCCATATCTGGCTCTTCTCT 57.657 47.619 0.00 0.00 41.64 3.10
3147 5300 8.470805 CAGCATTACTCTTCTACTTCCTTCTTA 58.529 37.037 0.00 0.00 0.00 2.10
3159 5312 6.824553 TCAATATGAGCAGCATTACTCTTCT 58.175 36.000 0.00 0.00 38.44 2.85
3228 5391 6.421801 GCTGCAAATAATACATGGGATTTCAC 59.578 38.462 0.00 0.00 0.00 3.18
3248 5414 2.008329 CCAAAGCAAACAAAAGCTGCA 58.992 42.857 1.02 0.00 41.70 4.41
3343 5527 9.613428 CCAGATTTCCAGTATCTTGTAATGTAA 57.387 33.333 0.00 0.00 30.05 2.41
3402 5586 5.431765 CACCCAAGATGCATTAGTAAGACT 58.568 41.667 0.00 0.00 0.00 3.24
3406 5590 4.584638 ACCACCCAAGATGCATTAGTAA 57.415 40.909 0.00 0.00 0.00 2.24
3440 5629 5.180271 CAATTTTGCTAACCCAAGATGCAT 58.820 37.500 0.00 0.00 33.50 3.96
3446 5635 6.696411 TCCATAACAATTTTGCTAACCCAAG 58.304 36.000 0.00 0.00 0.00 3.61
3464 6132 1.070786 GCGGGCGATCCTTCCATAA 59.929 57.895 0.00 0.00 0.00 1.90
3480 6148 3.081804 AGAAACATCCAACTTAAGGGCG 58.918 45.455 7.53 0.00 0.00 6.13
3522 6190 3.253432 TGCTACTAGTATCGTGAGGCATG 59.747 47.826 2.33 0.00 0.00 4.06
3558 6227 0.466189 ACCACAACAGCACCAAGGAG 60.466 55.000 0.00 0.00 0.00 3.69
3566 6235 7.753309 AACACTAATATTTACCACAACAGCA 57.247 32.000 0.00 0.00 0.00 4.41
3679 6352 0.467384 ATGGCAATCGTGAGGAGGAG 59.533 55.000 0.00 0.00 0.00 3.69
3680 6353 0.911769 AATGGCAATCGTGAGGAGGA 59.088 50.000 0.00 0.00 0.00 3.71
3684 6357 7.080099 CAGATTTATTAATGGCAATCGTGAGG 58.920 38.462 0.00 0.00 31.95 3.86
3726 6399 8.097662 GCTTACTATCAGGTATAGGCAAGATTT 58.902 37.037 10.43 0.00 41.78 2.17
3727 6400 7.456269 AGCTTACTATCAGGTATAGGCAAGATT 59.544 37.037 10.43 0.53 41.78 2.40
3731 6404 6.014499 GGAAGCTTACTATCAGGTATAGGCAA 60.014 42.308 0.00 0.00 41.78 4.52
3751 6439 4.187694 CAGTAAGACAGAATCAGGGAAGC 58.812 47.826 0.00 0.00 0.00 3.86
3933 6693 4.679662 AGCAAAATCAGACATGCAATAGC 58.320 39.130 0.00 0.00 41.18 2.97
3974 6744 7.166167 AGAGAGGAAACCGTAAAAACATACAT 58.834 34.615 0.00 0.00 0.00 2.29
4016 6786 6.127814 TGCTTCCATGCTTTTCTCTTCTTATG 60.128 38.462 0.00 0.00 0.00 1.90
4017 6787 5.948162 TGCTTCCATGCTTTTCTCTTCTTAT 59.052 36.000 0.00 0.00 0.00 1.73
4020 6790 3.759581 TGCTTCCATGCTTTTCTCTTCT 58.240 40.909 0.00 0.00 0.00 2.85
4021 6791 4.510038 TTGCTTCCATGCTTTTCTCTTC 57.490 40.909 0.00 0.00 0.00 2.87
4025 6800 5.046807 AGCTAAATTGCTTCCATGCTTTTCT 60.047 36.000 0.00 0.00 40.93 2.52
4071 6846 2.112279 ACAGGTGTCCTTACTTCCCA 57.888 50.000 0.00 0.00 0.00 4.37
4075 6850 4.949121 AGGATCTACAGGTGTCCTTACTT 58.051 43.478 0.00 0.00 37.84 2.24


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

AutoCloner maintained by Alex Coulton.