Multiple sequence alignment - TraesCS2D01G308200

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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 TraesCS2D01G308200 chr2D 100.000 3547 0 0 1 3547 395277107 395280653 0.000000e+00 6551
1 TraesCS2D01G308200 chr2D 100.000 411 0 0 3843 4253 395280949 395281359 0.000000e+00 760
2 TraesCS2D01G308200 chr2B 96.172 2612 91 6 892 3501 468444112 468446716 0.000000e+00 4261
3 TraesCS2D01G308200 chr2B 93.462 413 20 2 3843 4253 468446920 468447327 1.310000e-169 606
4 TraesCS2D01G308200 chr2A 96.768 2537 73 5 892 3420 533536419 533538954 0.000000e+00 4222
5 TraesCS2D01G308200 chr2A 91.525 413 22 6 3843 4253 533539340 533539741 1.340000e-154 556
6 TraesCS2D01G308200 chr3D 98.427 890 13 1 1 889 100193619 100194508 0.000000e+00 1565
7 TraesCS2D01G308200 chr3D 98.090 890 16 1 1 889 486974669 486973780 0.000000e+00 1548
8 TraesCS2D01G308200 chr3D 98.090 890 16 1 1 889 486981801 486980912 0.000000e+00 1548
9 TraesCS2D01G308200 chr3D 97.640 890 20 1 1 889 99255814 99256703 0.000000e+00 1526
10 TraesCS2D01G308200 chr4D 98.315 890 14 1 1 889 280211638 280210749 0.000000e+00 1559
11 TraesCS2D01G308200 chr5D 98.202 890 15 1 1 889 280937203 280938092 0.000000e+00 1554
12 TraesCS2D01G308200 chr5D 97.753 890 19 1 1 889 280950388 280951277 0.000000e+00 1531
13 TraesCS2D01G308200 chrUn 98.090 890 16 1 1 889 365218251 365219140 0.000000e+00 1548
14 TraesCS2D01G308200 chr7D 97.978 890 17 1 1 889 419674210 419673321 0.000000e+00 1543
15 TraesCS2D01G308200 chr1A 81.546 401 60 8 3854 4248 421035333 421034941 6.860000e-83 318


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 TraesCS2D01G308200 chr2D 395277107 395281359 4252 False 3655.5 6551 100.0000 1 4253 2 chr2D.!!$F1 4252
1 TraesCS2D01G308200 chr2B 468444112 468447327 3215 False 2433.5 4261 94.8170 892 4253 2 chr2B.!!$F1 3361
2 TraesCS2D01G308200 chr2A 533536419 533539741 3322 False 2389.0 4222 94.1465 892 4253 2 chr2A.!!$F1 3361
3 TraesCS2D01G308200 chr3D 100193619 100194508 889 False 1565.0 1565 98.4270 1 889 1 chr3D.!!$F2 888
4 TraesCS2D01G308200 chr3D 486973780 486974669 889 True 1548.0 1548 98.0900 1 889 1 chr3D.!!$R1 888
5 TraesCS2D01G308200 chr3D 486980912 486981801 889 True 1548.0 1548 98.0900 1 889 1 chr3D.!!$R2 888
6 TraesCS2D01G308200 chr3D 99255814 99256703 889 False 1526.0 1526 97.6400 1 889 1 chr3D.!!$F1 888
7 TraesCS2D01G308200 chr4D 280210749 280211638 889 True 1559.0 1559 98.3150 1 889 1 chr4D.!!$R1 888
8 TraesCS2D01G308200 chr5D 280937203 280938092 889 False 1554.0 1554 98.2020 1 889 1 chr5D.!!$F1 888
9 TraesCS2D01G308200 chr5D 280950388 280951277 889 False 1531.0 1531 97.7530 1 889 1 chr5D.!!$F2 888
10 TraesCS2D01G308200 chrUn 365218251 365219140 889 False 1548.0 1548 98.0900 1 889 1 chrUn.!!$F1 888
11 TraesCS2D01G308200 chr7D 419673321 419674210 889 True 1543.0 1543 97.9780 1 889 1 chr7D.!!$R1 888

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
897 898 0.251165 GCTGCCCTCAACACCCTTTA 60.251 55.0 0.0 0.0 0.00 1.85 F
1631 1635 0.251832 TCCTTCAGGAGGTTCGAGCT 60.252 55.0 0.0 0.0 46.39 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1800 1804 0.535335 TTAGCCGATGAGTGGTGTCC 59.465 55.0 0.0 0.0 0.0 4.02 R
3506 3516 0.108963 CTGAAACCCACACCCCGTAA 59.891 55.0 0.0 0.0 0.0 3.18 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
129 130 1.066858 TCCTTCTCATGACCTCGTTGC 60.067 52.381 0.00 0.00 0.00 4.17
133 134 2.047274 CATGACCTCGTTGCCCGT 60.047 61.111 0.00 0.00 37.94 5.28
271 272 9.077885 AGCTTTTATCAAATCCAGTTTCAACTA 57.922 29.630 0.00 0.00 37.08 2.24
305 306 1.522569 GTACTGGGCTTGATCCGCT 59.477 57.895 4.39 0.00 0.00 5.52
775 776 1.682344 GGACCCGGTACCCGTACTT 60.682 63.158 6.25 0.00 46.80 2.24
778 779 0.324645 ACCCGGTACCCGTACTTCAT 60.325 55.000 6.25 0.00 46.80 2.57
886 887 2.124942 CCCTTCGAAGCTGCCCTC 60.125 66.667 19.99 0.00 0.00 4.30
887 888 2.665000 CCTTCGAAGCTGCCCTCA 59.335 61.111 19.99 0.00 0.00 3.86
889 890 1.301677 CCTTCGAAGCTGCCCTCAAC 61.302 60.000 19.99 0.00 0.00 3.18
890 891 0.603707 CTTCGAAGCTGCCCTCAACA 60.604 55.000 13.09 0.00 0.00 3.33
897 898 0.251165 GCTGCCCTCAACACCCTTTA 60.251 55.000 0.00 0.00 0.00 1.85
977 978 0.804933 GAGTTTTACGGCGGCGATCT 60.805 55.000 38.93 24.31 0.00 2.75
995 996 2.433436 TCTTCTAGAGCAGCGTGTGTA 58.567 47.619 0.00 0.00 0.00 2.90
1320 1324 2.534990 CAGAGGAACAGGAAGTCCTCT 58.465 52.381 15.02 15.02 46.65 3.69
1329 1333 4.443266 AAGTCCTCTCGCTGCGGC 62.443 66.667 23.03 7.70 0.00 6.53
1443 1447 4.457496 CGGCAGGATGAGGTGCGT 62.457 66.667 0.00 0.00 40.82 5.24
1449 1453 1.734465 CAGGATGAGGTGCGTTTTCTC 59.266 52.381 0.00 0.00 39.69 2.87
1471 1475 0.870393 GGCGTACCGTATCATCTCGA 59.130 55.000 0.00 0.00 0.00 4.04
1599 1603 5.121811 CCATTTACTGAGAAGGATGTGAGG 58.878 45.833 0.00 0.00 0.00 3.86
1631 1635 0.251832 TCCTTCAGGAGGTTCGAGCT 60.252 55.000 0.00 0.00 46.39 4.09
1800 1804 2.867287 TTGGTGATGCTGTTGTGTTG 57.133 45.000 0.00 0.00 0.00 3.33
1905 1909 3.529341 TTGCGCGCTTCTGAGGGAA 62.529 57.895 33.29 11.89 38.03 3.97
1980 1984 5.353394 AACTCACAGTCCTCTTTACAACA 57.647 39.130 0.00 0.00 0.00 3.33
2050 2058 2.843701 ACAGAAAAGCTCCACAGACAG 58.156 47.619 0.00 0.00 0.00 3.51
2334 2342 1.074775 ACGGAAGCTTTGGGCATCA 59.925 52.632 0.00 0.00 44.79 3.07
2445 2453 1.942657 CAGACATGCCTATCCCGTTTG 59.057 52.381 0.00 0.00 0.00 2.93
2770 2780 6.040729 TGTTTTCACCCCATATGCATTCTATG 59.959 38.462 3.54 2.30 0.00 2.23
2808 2818 0.401738 TAGAGGCTGCCCATTATGCC 59.598 55.000 16.57 0.00 45.21 4.40
2898 2908 3.117322 TCACATGGAACCAAAAGGAGGAA 60.117 43.478 0.00 0.00 0.00 3.36
2974 2984 1.591594 CTCCGTGTGCTCACAACGT 60.592 57.895 18.23 0.00 43.77 3.99
3059 3069 1.462616 TCCAAGTCATTGATTGGCGG 58.537 50.000 16.65 5.19 44.67 6.13
3214 3224 2.019897 AAGGCAGCAACCTGTTGTGC 62.020 55.000 19.87 19.87 39.93 4.57
3222 3232 1.876799 CAACCTGTTGTGCCGAATGTA 59.123 47.619 1.84 0.00 35.92 2.29
3242 3252 2.913777 TCAGGTGATAGTGTTCGTCG 57.086 50.000 0.00 0.00 0.00 5.12
3256 3266 4.357947 GTCGGCAGCGGTGACTGA 62.358 66.667 20.69 16.59 40.25 3.41
3406 3416 4.070581 ACTGATTTTGATTTCGTGCTCG 57.929 40.909 0.81 0.81 38.55 5.03
3423 3433 1.080161 CGGTCAAATTTTGGGGCCG 60.080 57.895 18.49 18.49 35.75 6.13
3433 3443 0.254747 TTTGGGGCCGTTAGATCTGG 59.745 55.000 5.18 0.00 0.00 3.86
3436 3446 0.759436 GGGGCCGTTAGATCTGGAGA 60.759 60.000 5.18 0.00 0.00 3.71
3476 3486 4.142816 CGATTCTGAAAGCATCCGTCTTTT 60.143 41.667 0.00 0.00 32.70 2.27
3495 3505 4.538746 TTTTTGGTTTCGGGTTTTCTGT 57.461 36.364 0.00 0.00 0.00 3.41
3497 3507 3.786516 TTGGTTTCGGGTTTTCTGTTC 57.213 42.857 0.00 0.00 0.00 3.18
3498 3508 1.671845 TGGTTTCGGGTTTTCTGTTCG 59.328 47.619 0.00 0.00 0.00 3.95
3499 3509 1.672363 GGTTTCGGGTTTTCTGTTCGT 59.328 47.619 0.00 0.00 0.00 3.85
3500 3510 2.540157 GGTTTCGGGTTTTCTGTTCGTG 60.540 50.000 0.00 0.00 0.00 4.35
3501 3511 0.658897 TTCGGGTTTTCTGTTCGTGC 59.341 50.000 0.00 0.00 0.00 5.34
3502 3512 1.161563 TCGGGTTTTCTGTTCGTGCC 61.162 55.000 0.00 0.00 0.00 5.01
3503 3513 1.164041 CGGGTTTTCTGTTCGTGCCT 61.164 55.000 0.00 0.00 0.00 4.75
3504 3514 1.029681 GGGTTTTCTGTTCGTGCCTT 58.970 50.000 0.00 0.00 0.00 4.35
3505 3515 1.407618 GGGTTTTCTGTTCGTGCCTTT 59.592 47.619 0.00 0.00 0.00 3.11
3506 3516 2.159156 GGGTTTTCTGTTCGTGCCTTTT 60.159 45.455 0.00 0.00 0.00 2.27
3507 3517 3.517602 GGTTTTCTGTTCGTGCCTTTTT 58.482 40.909 0.00 0.00 0.00 1.94
3508 3518 4.440387 GGGTTTTCTGTTCGTGCCTTTTTA 60.440 41.667 0.00 0.00 0.00 1.52
3509 3519 4.501559 GGTTTTCTGTTCGTGCCTTTTTAC 59.498 41.667 0.00 0.00 0.00 2.01
3510 3520 3.595709 TTCTGTTCGTGCCTTTTTACG 57.404 42.857 0.00 0.00 41.38 3.18
3511 3521 1.868498 TCTGTTCGTGCCTTTTTACGG 59.132 47.619 0.00 0.00 40.48 4.02
3512 3522 0.945813 TGTTCGTGCCTTTTTACGGG 59.054 50.000 0.00 0.00 40.48 5.28
3513 3523 0.239082 GTTCGTGCCTTTTTACGGGG 59.761 55.000 0.00 0.00 40.48 5.73
3514 3524 0.179023 TTCGTGCCTTTTTACGGGGT 60.179 50.000 0.00 0.00 40.48 4.95
3515 3525 0.885596 TCGTGCCTTTTTACGGGGTG 60.886 55.000 0.00 0.00 40.48 4.61
3516 3526 1.167781 CGTGCCTTTTTACGGGGTGT 61.168 55.000 0.00 0.00 36.71 4.16
3517 3527 0.312729 GTGCCTTTTTACGGGGTGTG 59.687 55.000 0.00 0.00 0.00 3.82
3518 3528 0.824182 TGCCTTTTTACGGGGTGTGG 60.824 55.000 0.00 0.00 0.00 4.17
3519 3529 1.529152 GCCTTTTTACGGGGTGTGGG 61.529 60.000 0.00 0.00 0.00 4.61
3520 3530 0.178984 CCTTTTTACGGGGTGTGGGT 60.179 55.000 0.00 0.00 0.00 4.51
3521 3531 1.694844 CTTTTTACGGGGTGTGGGTT 58.305 50.000 0.00 0.00 0.00 4.11
3522 3532 2.033372 CTTTTTACGGGGTGTGGGTTT 58.967 47.619 0.00 0.00 0.00 3.27
3523 3533 1.689984 TTTTACGGGGTGTGGGTTTC 58.310 50.000 0.00 0.00 0.00 2.78
3524 3534 0.549950 TTTACGGGGTGTGGGTTTCA 59.450 50.000 0.00 0.00 0.00 2.69
3525 3535 0.108963 TTACGGGGTGTGGGTTTCAG 59.891 55.000 0.00 0.00 0.00 3.02
3526 3536 1.055551 TACGGGGTGTGGGTTTCAGT 61.056 55.000 0.00 0.00 0.00 3.41
3527 3537 1.896660 CGGGGTGTGGGTTTCAGTG 60.897 63.158 0.00 0.00 0.00 3.66
3528 3538 1.229076 GGGGTGTGGGTTTCAGTGT 59.771 57.895 0.00 0.00 0.00 3.55
3529 3539 0.396556 GGGGTGTGGGTTTCAGTGTT 60.397 55.000 0.00 0.00 0.00 3.32
3530 3540 1.480789 GGGTGTGGGTTTCAGTGTTT 58.519 50.000 0.00 0.00 0.00 2.83
3531 3541 1.828595 GGGTGTGGGTTTCAGTGTTTT 59.171 47.619 0.00 0.00 0.00 2.43
3532 3542 2.159156 GGGTGTGGGTTTCAGTGTTTTC 60.159 50.000 0.00 0.00 0.00 2.29
3533 3543 2.159156 GGTGTGGGTTTCAGTGTTTTCC 60.159 50.000 0.00 0.00 0.00 3.13
3534 3544 2.104170 TGTGGGTTTCAGTGTTTTCCC 58.896 47.619 7.93 7.93 35.85 3.97
3535 3545 2.104170 GTGGGTTTCAGTGTTTTCCCA 58.896 47.619 11.74 11.74 41.96 4.37
3536 3546 2.498078 GTGGGTTTCAGTGTTTTCCCAA 59.502 45.455 15.44 3.30 45.02 4.12
3537 3547 3.055747 GTGGGTTTCAGTGTTTTCCCAAA 60.056 43.478 15.44 0.00 45.02 3.28
3538 3548 3.777522 TGGGTTTCAGTGTTTTCCCAAAT 59.222 39.130 12.83 0.00 41.38 2.32
3539 3549 4.126437 GGGTTTCAGTGTTTTCCCAAATG 58.874 43.478 9.34 0.00 35.43 2.32
3540 3550 4.141824 GGGTTTCAGTGTTTTCCCAAATGA 60.142 41.667 9.34 0.00 35.43 2.57
3541 3551 4.808895 GGTTTCAGTGTTTTCCCAAATGAC 59.191 41.667 0.00 0.00 0.00 3.06
3542 3552 5.395214 GGTTTCAGTGTTTTCCCAAATGACT 60.395 40.000 0.00 0.00 0.00 3.41
3543 3553 4.916983 TCAGTGTTTTCCCAAATGACTG 57.083 40.909 0.00 0.00 36.97 3.51
3544 3554 4.531854 TCAGTGTTTTCCCAAATGACTGA 58.468 39.130 0.00 0.00 39.56 3.41
3545 3555 4.338118 TCAGTGTTTTCCCAAATGACTGAC 59.662 41.667 0.00 0.00 38.30 3.51
3546 3556 3.636764 AGTGTTTTCCCAAATGACTGACC 59.363 43.478 0.00 0.00 0.00 4.02
3875 3885 0.178990 GTTTTGCCTCTGTCCCCAGT 60.179 55.000 0.00 0.00 39.82 4.00
3877 3887 1.059584 TTTGCCTCTGTCCCCAGTCA 61.060 55.000 0.00 0.00 39.82 3.41
3919 3931 0.840722 GTTGGGGGAGAGAGGTGGAA 60.841 60.000 0.00 0.00 0.00 3.53
3935 3947 3.029981 AAATGGAGGGGAGGGGCC 61.030 66.667 0.00 0.00 0.00 5.80
3980 3992 1.131126 CGCGCACTGATTTCCTGAAAT 59.869 47.619 8.75 4.85 43.14 2.17
3981 3993 2.351418 CGCGCACTGATTTCCTGAAATA 59.649 45.455 8.75 0.00 40.77 1.40
3982 3994 3.181511 CGCGCACTGATTTCCTGAAATAA 60.182 43.478 8.75 0.00 40.77 1.40
3983 3995 4.671508 CGCGCACTGATTTCCTGAAATAAA 60.672 41.667 8.75 0.00 40.77 1.40
3984 3996 5.160641 GCGCACTGATTTCCTGAAATAAAA 58.839 37.500 0.30 0.00 40.77 1.52
4016 4028 3.582780 CGGTTTGGGTCTGTTAGTACTC 58.417 50.000 0.00 0.00 0.00 2.59
4054 4066 1.005569 TGTTGGGGTGTGGTTTGTGTA 59.994 47.619 0.00 0.00 0.00 2.90
4127 4139 3.800604 GCTTGTATGTAGAGTAGCCAGCC 60.801 52.174 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 1.481871 GGATCCAGTAACCCGACAGA 58.518 55.000 6.95 0.00 0.00 3.41
48 49 0.516877 CCGCGCAATCTCTTCAACAA 59.483 50.000 8.75 0.00 0.00 2.83
129 130 0.175760 ACGATGGATCAGAACACGGG 59.824 55.000 0.00 0.00 0.00 5.28
133 134 3.588955 CAACTCACGATGGATCAGAACA 58.411 45.455 0.00 0.00 0.00 3.18
886 887 5.365619 AGAGGCGTAATATAAAGGGTGTTG 58.634 41.667 0.00 0.00 0.00 3.33
887 888 5.365895 AGAGAGGCGTAATATAAAGGGTGTT 59.634 40.000 0.00 0.00 0.00 3.32
889 890 5.244178 AGAGAGAGGCGTAATATAAAGGGTG 59.756 44.000 0.00 0.00 0.00 4.61
890 891 5.395611 AGAGAGAGGCGTAATATAAAGGGT 58.604 41.667 0.00 0.00 0.00 4.34
897 898 4.383931 TGGGTAGAGAGAGGCGTAATAT 57.616 45.455 0.00 0.00 0.00 1.28
977 978 1.201647 GGTACACACGCTGCTCTAGAA 59.798 52.381 0.00 0.00 0.00 2.10
995 996 2.087248 CTGGGTCTTTCCATGGGGT 58.913 57.895 13.02 0.00 36.05 4.95
1329 1333 2.104331 CGTAGGTACGCCTGGCAG 59.896 66.667 20.29 7.75 46.47 4.85
1437 1441 3.733960 GCCGGGAGAAAACGCACC 61.734 66.667 2.18 0.00 0.00 5.01
1462 1466 2.616376 CTCTGTCCGAGTTCGAGATGAT 59.384 50.000 2.59 0.00 43.02 2.45
1471 1475 2.096248 GATCCTGTCTCTGTCCGAGTT 58.904 52.381 0.00 0.00 40.75 3.01
1599 1603 5.860941 TCCTGAAGGAGTGTATGAGATTC 57.139 43.478 0.00 0.00 39.78 2.52
1631 1635 0.322636 GTCGACACTCTCCTCCTCCA 60.323 60.000 11.55 0.00 0.00 3.86
1800 1804 0.535335 TTAGCCGATGAGTGGTGTCC 59.465 55.000 0.00 0.00 0.00 4.02
1905 1909 5.773680 CCATATGAAGGATTGCAGATTTCCT 59.226 40.000 3.65 4.32 41.68 3.36
1925 1929 5.103898 TCAATGGTTACCTGTAATGCCCATA 60.104 40.000 2.07 0.00 31.94 2.74
1980 1984 6.890293 ACAACAAAGACTTCCTAAGAGAACT 58.110 36.000 0.00 0.00 0.00 3.01
2050 2058 9.823098 GAGATGCATATTTTGATCAGTCAATAC 57.177 33.333 0.00 0.00 43.49 1.89
2071 2079 5.919141 CCTTTTGAACTGCTTCTTTGAGATG 59.081 40.000 0.00 0.00 0.00 2.90
2445 2453 3.084039 TGAAATGGTCACCTGCTCAATC 58.916 45.455 0.00 0.00 0.00 2.67
2620 2630 5.868043 ACTACCGCAACCTATGTAAAAAC 57.132 39.130 0.00 0.00 0.00 2.43
2898 2908 2.517959 TGGCAGCTGCAAGAAATTAGT 58.482 42.857 37.63 0.00 44.36 2.24
2974 2984 5.337813 GGTCCGGGATCTGAAAGTAGTTTAA 60.338 44.000 0.00 0.00 33.76 1.52
3059 3069 2.924757 TGATCTGCCATGATCAGGAC 57.075 50.000 9.37 0.00 45.29 3.85
3214 3224 5.201713 ACACTATCACCTGATACATTCGG 57.798 43.478 0.00 0.00 36.05 4.30
3222 3232 2.099263 CCGACGAACACTATCACCTGAT 59.901 50.000 0.00 0.00 38.51 2.90
3242 3252 1.237285 AATTGTCAGTCACCGCTGCC 61.237 55.000 0.00 0.00 36.49 4.85
3256 3266 4.040339 CCCTTGGAAAGCTACCAAAATTGT 59.960 41.667 20.60 0.00 44.44 2.71
3406 3416 0.394938 AACGGCCCCAAAATTTGACC 59.605 50.000 7.37 4.98 0.00 4.02
3423 3433 2.941453 TGTGCGTCTCCAGATCTAAC 57.059 50.000 0.00 0.00 0.00 2.34
3433 3443 3.685592 CGCTGAGATGTGCGTCTC 58.314 61.111 13.00 13.00 46.09 3.36
3453 3463 2.544685 AGACGGATGCTTTCAGAATCG 58.455 47.619 0.00 0.00 30.61 3.34
3476 3486 3.427773 CGAACAGAAAACCCGAAACCAAA 60.428 43.478 0.00 0.00 0.00 3.28
3492 3502 1.069500 CCCGTAAAAAGGCACGAACAG 60.069 52.381 0.00 0.00 40.56 3.16
3493 3503 0.945813 CCCGTAAAAAGGCACGAACA 59.054 50.000 0.00 0.00 40.56 3.18
3494 3504 0.239082 CCCCGTAAAAAGGCACGAAC 59.761 55.000 0.00 0.00 40.56 3.95
3495 3505 0.179023 ACCCCGTAAAAAGGCACGAA 60.179 50.000 0.00 0.00 40.56 3.85
3497 3507 1.167781 ACACCCCGTAAAAAGGCACG 61.168 55.000 0.00 0.00 37.89 5.34
3498 3508 0.312729 CACACCCCGTAAAAAGGCAC 59.687 55.000 0.00 0.00 0.00 5.01
3499 3509 0.824182 CCACACCCCGTAAAAAGGCA 60.824 55.000 0.00 0.00 0.00 4.75
3500 3510 1.529152 CCCACACCCCGTAAAAAGGC 61.529 60.000 0.00 0.00 0.00 4.35
3501 3511 0.178984 ACCCACACCCCGTAAAAAGG 60.179 55.000 0.00 0.00 0.00 3.11
3502 3512 1.694844 AACCCACACCCCGTAAAAAG 58.305 50.000 0.00 0.00 0.00 2.27
3503 3513 2.030371 GAAACCCACACCCCGTAAAAA 58.970 47.619 0.00 0.00 0.00 1.94
3504 3514 1.064166 TGAAACCCACACCCCGTAAAA 60.064 47.619 0.00 0.00 0.00 1.52
3505 3515 0.549950 TGAAACCCACACCCCGTAAA 59.450 50.000 0.00 0.00 0.00 2.01
3506 3516 0.108963 CTGAAACCCACACCCCGTAA 59.891 55.000 0.00 0.00 0.00 3.18
3507 3517 1.055551 ACTGAAACCCACACCCCGTA 61.056 55.000 0.00 0.00 0.00 4.02
3508 3518 2.380285 ACTGAAACCCACACCCCGT 61.380 57.895 0.00 0.00 0.00 5.28
3509 3519 1.896660 CACTGAAACCCACACCCCG 60.897 63.158 0.00 0.00 0.00 5.73
3510 3520 0.396556 AACACTGAAACCCACACCCC 60.397 55.000 0.00 0.00 0.00 4.95
3511 3521 1.480789 AAACACTGAAACCCACACCC 58.519 50.000 0.00 0.00 0.00 4.61
3512 3522 2.159156 GGAAAACACTGAAACCCACACC 60.159 50.000 0.00 0.00 0.00 4.16
3513 3523 2.159156 GGGAAAACACTGAAACCCACAC 60.159 50.000 0.00 0.00 37.50 3.82
3514 3524 2.104170 GGGAAAACACTGAAACCCACA 58.896 47.619 0.00 0.00 37.50 4.17
3515 3525 2.104170 TGGGAAAACACTGAAACCCAC 58.896 47.619 0.00 0.00 41.76 4.61
3516 3526 2.534042 TGGGAAAACACTGAAACCCA 57.466 45.000 0.00 0.00 43.96 4.51
3517 3527 3.897141 TTTGGGAAAACACTGAAACCC 57.103 42.857 0.00 0.00 37.99 4.11
3518 3528 4.808895 GTCATTTGGGAAAACACTGAAACC 59.191 41.667 0.00 0.00 0.00 3.27
3519 3529 5.519927 CAGTCATTTGGGAAAACACTGAAAC 59.480 40.000 0.00 0.00 36.75 2.78
3520 3530 5.420421 TCAGTCATTTGGGAAAACACTGAAA 59.580 36.000 10.32 0.00 38.83 2.69
3521 3531 4.952957 TCAGTCATTTGGGAAAACACTGAA 59.047 37.500 10.32 0.14 38.83 3.02
3522 3532 4.338118 GTCAGTCATTTGGGAAAACACTGA 59.662 41.667 9.28 9.28 39.17 3.41
3523 3533 4.499696 GGTCAGTCATTTGGGAAAACACTG 60.500 45.833 0.00 0.00 36.32 3.66
3524 3534 3.636764 GGTCAGTCATTTGGGAAAACACT 59.363 43.478 0.00 0.00 0.00 3.55
3525 3535 3.977427 GGTCAGTCATTTGGGAAAACAC 58.023 45.455 0.00 0.00 0.00 3.32
3875 3885 1.380515 CTCGCCCCTCTCTCCTTGA 60.381 63.158 0.00 0.00 0.00 3.02
3877 3887 2.762043 GCTCGCCCCTCTCTCCTT 60.762 66.667 0.00 0.00 0.00 3.36
3951 3963 1.032657 ATCAGTGCGCGGAGACTACT 61.033 55.000 8.83 0.00 0.00 2.57
3990 4002 2.113139 CAGACCCAAACCGGCTGT 59.887 61.111 0.00 0.00 0.00 4.40
4003 4015 2.481952 ACCGTGTCGAGTACTAACAGAC 59.518 50.000 10.11 10.70 36.60 3.51
4016 4028 0.939577 CACAGACCTCAACCGTGTCG 60.940 60.000 0.00 0.00 34.24 4.35
4054 4066 0.178891 TCCTGAAACCCCTGCTCTCT 60.179 55.000 0.00 0.00 0.00 3.10
4127 4139 5.639506 ACTTAAATCGATGAGAACACACAGG 59.360 40.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.