Multiple sequence alignment - TraesCS4D01G303700

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 TraesCS4D01G303700 chr4D 100.000 3410 0 0 1 3410 472166768 472163359 0.000000e+00 6298.0
1 TraesCS4D01G303700 chr4D 96.429 56 2 0 12 67 472208701 472208646 3.620000e-15 93.5
2 TraesCS4D01G303700 chr4B 89.203 3436 279 59 7 3389 594359816 594356420 0.000000e+00 4205.0
3 TraesCS4D01G303700 chr4B 87.313 402 49 2 3011 3410 594355552 594355151 3.100000e-125 459.0
4 TraesCS4D01G303700 chr4B 98.214 56 1 0 12 67 594437336 594437281 7.790000e-17 99.0
5 TraesCS4D01G303700 chr4A 91.702 3049 159 31 118 3103 679076426 679073409 0.000000e+00 4143.0
6 TraesCS4D01G303700 chr4A 95.000 120 6 0 7 126 679076583 679076464 4.490000e-44 189.0
7 TraesCS4D01G303700 chr4A 90.435 115 11 0 3296 3410 679073404 679073290 5.890000e-33 152.0
8 TraesCS4D01G303700 chr7D 92.159 829 44 3 1338 2160 538599681 538598868 0.000000e+00 1151.0
9 TraesCS4D01G303700 chr7D 92.707 713 43 2 1454 2160 159703171 159703880 0.000000e+00 1020.0
10 TraesCS4D01G303700 chr7D 93.798 129 8 0 1395 1523 137915408 137915536 9.660000e-46 195.0
11 TraesCS4D01G303700 chr2D 93.149 686 41 1 1444 2123 442056969 442056284 0.000000e+00 1002.0
12 TraesCS4D01G303700 chr2D 85.882 85 10 2 24 107 114729831 114729914 4.690000e-14 89.8
13 TraesCS4D01G303700 chr2D 84.706 85 11 2 24 107 114695114 114695197 2.180000e-12 84.2
14 TraesCS4D01G303700 chr3D 91.148 610 44 6 1557 2160 320413817 320413212 0.000000e+00 819.0
15 TraesCS4D01G303700 chr2A 89.555 584 52 2 1583 2160 85584677 85585257 0.000000e+00 732.0
16 TraesCS4D01G303700 chr2A 92.000 150 12 0 1438 1587 85537649 85537798 9.590000e-51 211.0
17 TraesCS4D01G303700 chr2A 83.529 85 12 2 24 107 116154137 116154220 1.010000e-10 78.7
18 TraesCS4D01G303700 chr1B 92.248 129 10 0 1395 1523 167949602 167949474 2.090000e-42 183.0
19 TraesCS4D01G303700 chr6D 91.538 130 11 0 1395 1524 157661293 157661164 2.700000e-41 180.0
20 TraesCS4D01G303700 chr7A 88.525 122 14 0 434 555 733065835 733065714 7.620000e-32 148.0
21 TraesCS4D01G303700 chr2B 82.524 103 18 0 13 115 165245767 165245869 1.300000e-14 91.6
22 TraesCS4D01G303700 chr2B 83.333 84 12 2 24 106 165252554 165252636 3.650000e-10 76.8


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 TraesCS4D01G303700 chr4D 472163359 472166768 3409 True 6298.000000 6298 100.000 1 3410 1 chr4D.!!$R1 3409
1 TraesCS4D01G303700 chr4B 594355151 594359816 4665 True 2332.000000 4205 88.258 7 3410 2 chr4B.!!$R2 3403
2 TraesCS4D01G303700 chr4A 679073290 679076583 3293 True 1494.666667 4143 92.379 7 3410 3 chr4A.!!$R1 3403
3 TraesCS4D01G303700 chr7D 538598868 538599681 813 True 1151.000000 1151 92.159 1338 2160 1 chr7D.!!$R1 822
4 TraesCS4D01G303700 chr7D 159703171 159703880 709 False 1020.000000 1020 92.707 1454 2160 1 chr7D.!!$F2 706
5 TraesCS4D01G303700 chr2D 442056284 442056969 685 True 1002.000000 1002 93.149 1444 2123 1 chr2D.!!$R1 679
6 TraesCS4D01G303700 chr3D 320413212 320413817 605 True 819.000000 819 91.148 1557 2160 1 chr3D.!!$R1 603
7 TraesCS4D01G303700 chr2A 85584677 85585257 580 False 732.000000 732 89.555 1583 2160 1 chr2A.!!$F2 577

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
279 326 0.253610 ACGGGAAATGCGTAATGGGA 59.746 50.0 0.00 0.0 0.00 4.37 F
1344 1435 0.179062 AGATCACCAAGATGGCGCTC 60.179 55.0 7.64 0.0 42.67 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1491 1582 1.02192 GCTTGTTCTTCTCCTCCGCC 61.022 60.0 0.0 0.0 0.0 6.13 R
3226 4635 0.24912 CACGAGATGTTGCACCCCTA 59.751 55.0 0.0 0.0 0.0 3.53 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
258 305 3.260380 CCATATCTTCGCTGGAGATCCTT 59.740 47.826 3.08 0.00 36.82 3.36
273 320 0.609151 TCCTTCACGGGAAATGCGTA 59.391 50.000 0.00 0.00 31.35 4.42
279 326 0.253610 ACGGGAAATGCGTAATGGGA 59.746 50.000 0.00 0.00 0.00 4.37
373 420 1.004595 CATCAGACTGACCATGCGTG 58.995 55.000 7.47 0.00 0.00 5.34
414 463 7.148440 CGAGAGCTTCTGATTCAGAGAATTTTT 60.148 37.037 15.59 1.68 41.75 1.94
557 617 3.507162 TGGATGGACAAGTGACAATGT 57.493 42.857 0.00 0.00 0.00 2.71
558 618 3.831323 TGGATGGACAAGTGACAATGTT 58.169 40.909 0.00 0.00 0.00 2.71
566 626 5.204409 ACAAGTGACAATGTTGCATGAAT 57.796 34.783 0.00 0.00 0.00 2.57
574 634 2.203470 TGTTGCATGAATCTGAGGCA 57.797 45.000 0.00 0.00 0.00 4.75
578 638 2.799017 TGCATGAATCTGAGGCAGTTT 58.201 42.857 0.00 0.00 32.61 2.66
579 639 2.490509 TGCATGAATCTGAGGCAGTTTG 59.509 45.455 0.00 0.00 32.61 2.93
596 674 1.165907 TTGGTGGAGTTTGCTGCTCG 61.166 55.000 0.00 0.00 33.91 5.03
639 718 2.100031 CATTGCTGCCGCGTGTAGA 61.100 57.895 14.74 0.00 39.65 2.59
688 767 4.868171 TGACTTAATGTGCCGATGTAACTC 59.132 41.667 0.00 0.00 0.00 3.01
708 787 3.869065 TCCATCCATCCGTGTTAAACTC 58.131 45.455 0.00 0.00 0.00 3.01
725 804 7.717436 TGTTAAACTCCATTGTTCATCAGTACA 59.283 33.333 0.00 0.00 0.00 2.90
727 806 5.489792 ACTCCATTGTTCATCAGTACACT 57.510 39.130 0.00 0.00 0.00 3.55
729 808 7.187824 ACTCCATTGTTCATCAGTACACTAT 57.812 36.000 0.00 0.00 0.00 2.12
800 879 7.059488 GTGCAATATACGTTGACTTGTTTCTTG 59.941 37.037 0.00 0.00 0.00 3.02
954 1035 5.064707 CCACATATTTACCAACCACTTCGAG 59.935 44.000 0.00 0.00 0.00 4.04
1050 1131 2.472909 GCACCGTTATGGCCTGAGC 61.473 63.158 3.32 0.00 43.94 4.26
1086 1177 0.592637 CCGTGCAGCATTTCAACAGA 59.407 50.000 0.00 0.00 0.00 3.41
1126 1217 1.297689 GACATGGAGCAGCAGGTCA 59.702 57.895 10.61 0.00 43.97 4.02
1212 1303 4.379243 ACGGAGTGGAAGGCGCTG 62.379 66.667 7.64 0.00 42.51 5.18
1344 1435 0.179062 AGATCACCAAGATGGCGCTC 60.179 55.000 7.64 0.00 42.67 5.03
1948 2039 2.496341 CGGCGCTCAAGGAGATGA 59.504 61.111 7.64 0.00 0.00 2.92
1975 2066 2.504274 AAGGACACCGCCGTCAAGA 61.504 57.895 5.03 0.00 37.66 3.02
2265 2362 2.776913 GGAGAGCTTCGAGGGGTCG 61.777 68.421 11.87 0.00 36.47 4.79
2406 2503 4.380023 CGGTGGAAGAGTTTCAACAACAAA 60.380 41.667 0.00 0.00 38.74 2.83
2428 2525 0.032403 GCAACTTTGTGATGCTGGCA 59.968 50.000 0.00 0.00 40.68 4.92
2435 2532 1.077212 GTGATGCTGGCAGTGGGAT 60.077 57.895 17.16 3.35 0.00 3.85
2437 2534 1.890979 GATGCTGGCAGTGGGATCG 60.891 63.158 17.16 0.00 0.00 3.69
2440 2537 2.187946 CTGGCAGTGGGATCGGTC 59.812 66.667 6.28 0.00 0.00 4.79
2459 2558 4.628074 GGTCTGCCGTGTATATGTTGTAT 58.372 43.478 0.00 0.00 0.00 2.29
2476 2575 7.873719 TGTTGTATAATGTCCTTGGTATTGG 57.126 36.000 0.00 0.00 0.00 3.16
2484 2595 7.849322 AATGTCCTTGGTATTGGTAGTTTTT 57.151 32.000 0.00 0.00 0.00 1.94
2575 2690 9.557338 CTCTTGTAAGTGACTAAGTGTGTATAC 57.443 37.037 0.00 0.00 0.00 1.47
2590 2705 6.320418 AGTGTGTATACGTGATCACCTGAATA 59.680 38.462 20.03 9.52 0.00 1.75
2649 2783 1.079750 GTCAAGCCCGAGGTGAGTC 60.080 63.158 0.00 0.00 0.00 3.36
2696 2830 3.961480 TGTACCCTGTCTCATTCACAG 57.039 47.619 0.00 0.00 40.96 3.66
2711 2845 0.105593 CACAGATGCCCACGCTAGAT 59.894 55.000 0.00 0.00 35.36 1.98
2772 2906 7.548075 CGACCAACCTATCTTACAACAAATACT 59.452 37.037 0.00 0.00 0.00 2.12
2775 2909 8.388103 CCAACCTATCTTACAACAAATACTTCG 58.612 37.037 0.00 0.00 0.00 3.79
2797 2931 3.068873 GCACACAACCCCACAAGATAAAA 59.931 43.478 0.00 0.00 0.00 1.52
2881 3036 2.680370 AACCGATGAAGCCCTCCCC 61.680 63.158 0.00 0.00 0.00 4.81
2883 3038 2.679342 CCGATGAAGCCCTCCCCAA 61.679 63.158 0.00 0.00 0.00 4.12
2884 3039 1.153086 CGATGAAGCCCTCCCCAAG 60.153 63.158 0.00 0.00 0.00 3.61
2885 3040 1.915078 CGATGAAGCCCTCCCCAAGT 61.915 60.000 0.00 0.00 0.00 3.16
2887 3042 1.575447 ATGAAGCCCTCCCCAAGTCC 61.575 60.000 0.00 0.00 0.00 3.85
2888 3043 2.941583 AAGCCCTCCCCAAGTCCC 60.942 66.667 0.00 0.00 0.00 4.46
2895 3050 0.184933 CTCCCCAAGTCCCAACAACA 59.815 55.000 0.00 0.00 0.00 3.33
2929 3084 2.417239 CGCGCTAAGGTCAACCAAATAA 59.583 45.455 5.56 0.00 38.89 1.40
2933 3088 5.392595 GCGCTAAGGTCAACCAAATAATTGA 60.393 40.000 0.00 0.00 38.94 2.57
2944 3099 4.649218 ACCAAATAATTGACCACATAGGCC 59.351 41.667 0.00 0.00 38.94 5.19
2946 3101 2.631160 TAATTGACCACATAGGCCGG 57.369 50.000 0.00 0.00 43.14 6.13
2968 3123 4.947388 GGAAATAAGATGGGTGTGTGCTTA 59.053 41.667 0.00 0.00 0.00 3.09
2969 3124 5.417580 GGAAATAAGATGGGTGTGTGCTTAA 59.582 40.000 0.00 0.00 0.00 1.85
2970 3125 6.096846 GGAAATAAGATGGGTGTGTGCTTAAT 59.903 38.462 0.00 0.00 0.00 1.40
2977 3132 3.071747 TGGGTGTGTGCTTAATGAGTACA 59.928 43.478 0.00 0.00 46.81 2.90
3008 4408 0.542232 ACTGAGTGCCGGACCTACTT 60.542 55.000 5.05 0.00 0.00 2.24
3009 4409 0.608640 CTGAGTGCCGGACCTACTTT 59.391 55.000 5.05 0.00 0.00 2.66
3024 4424 7.391275 CGGACCTACTTTCCAAAATTAACCTAA 59.609 37.037 0.00 0.00 31.94 2.69
3046 4446 8.139989 CCTAAATGATTCAATTTCAGGGATCAC 58.860 37.037 0.00 0.00 32.16 3.06
3052 4452 4.836825 TCAATTTCAGGGATCACTCTCAC 58.163 43.478 0.00 0.00 0.00 3.51
3064 4464 3.506398 TCACTCTCACATACCAAGGACA 58.494 45.455 0.00 0.00 0.00 4.02
3065 4465 4.096681 TCACTCTCACATACCAAGGACAT 58.903 43.478 0.00 0.00 0.00 3.06
3073 4480 6.582636 TCACATACCAAGGACATGACTATTC 58.417 40.000 0.00 0.00 0.00 1.75
3074 4481 5.760253 CACATACCAAGGACATGACTATTCC 59.240 44.000 0.00 0.00 0.00 3.01
3077 4484 3.711704 ACCAAGGACATGACTATTCCGAT 59.288 43.478 0.00 0.00 34.31 4.18
3099 4506 2.427095 GGCATGGGCGAAAAGTTTATCT 59.573 45.455 0.00 0.00 42.47 1.98
3105 4512 3.257375 GGGCGAAAAGTTTATCTGGGTTT 59.743 43.478 0.00 0.00 0.00 3.27
3106 4513 4.234574 GGCGAAAAGTTTATCTGGGTTTG 58.765 43.478 0.00 0.00 0.00 2.93
3109 4516 5.854866 GCGAAAAGTTTATCTGGGTTTGTAC 59.145 40.000 0.00 0.00 0.00 2.90
3110 4517 6.075280 CGAAAAGTTTATCTGGGTTTGTACG 58.925 40.000 0.00 0.00 0.00 3.67
3115 4522 2.264005 ATCTGGGTTTGTACGTTGCA 57.736 45.000 0.00 0.00 0.00 4.08
3123 4530 4.142838 GGGTTTGTACGTTGCATTAGGTAC 60.143 45.833 12.37 12.37 38.94 3.34
3126 4533 1.589779 GTACGTTGCATTAGGTACGGC 59.410 52.381 10.74 0.50 38.26 5.68
3129 4536 2.168503 TTGCATTAGGTACGGCGCG 61.169 57.895 6.90 0.00 0.00 6.86
3132 4539 3.534056 ATTAGGTACGGCGCGGCT 61.534 61.111 30.60 19.12 0.00 5.52
3133 4540 3.495352 ATTAGGTACGGCGCGGCTC 62.495 63.158 30.60 19.11 0.00 4.70
3168 4576 0.464452 CTATCCGTGAAGGGGTGGTC 59.536 60.000 0.00 0.00 41.52 4.02
3193 4602 4.431131 ATGCTTGCCCCCTCCACG 62.431 66.667 0.00 0.00 0.00 4.94
3198 4607 1.921869 CTTGCCCCCTCCACGGTAAT 61.922 60.000 0.00 0.00 0.00 1.89
3210 4619 0.981183 ACGGTAATGCCCTTGAGACA 59.019 50.000 0.00 0.00 0.00 3.41
3215 4624 3.629398 GGTAATGCCCTTGAGACAATGAG 59.371 47.826 0.00 0.00 0.00 2.90
3254 4663 3.190849 CATCTCGTGGCAGGTGCG 61.191 66.667 7.12 0.00 43.26 5.34
3277 4686 1.227556 ACGCTTCGCTTTGGTGACT 60.228 52.632 0.00 0.00 0.00 3.41
3312 4721 2.353704 CGAGTTCCAGGCTATGTTGACA 60.354 50.000 0.00 0.00 0.00 3.58
3314 4723 4.265073 GAGTTCCAGGCTATGTTGACATT 58.735 43.478 1.46 0.00 37.76 2.71
3357 4766 2.361104 GATTGCGTTGGGGCCTCA 60.361 61.111 0.00 0.00 0.00 3.86
3374 4783 3.817647 GCCTCAATTCATGCTAGGGTTAG 59.182 47.826 0.00 0.00 0.00 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.031277 TCTCGATGATCACCTGTTTATATCATG 58.969 37.037 0.00 0.00 37.40 3.07
1 2 8.127150 TCTCGATGATCACCTGTTTATATCAT 57.873 34.615 0.00 0.00 39.39 2.45
2 3 7.524717 TCTCGATGATCACCTGTTTATATCA 57.475 36.000 0.00 0.00 0.00 2.15
3 4 8.246871 TCATCTCGATGATCACCTGTTTATATC 58.753 37.037 0.00 0.00 42.42 1.63
4 5 8.127150 TCATCTCGATGATCACCTGTTTATAT 57.873 34.615 0.00 0.00 42.42 0.86
5 6 7.524717 TCATCTCGATGATCACCTGTTTATA 57.475 36.000 0.00 0.00 42.42 0.98
258 305 1.374560 CCATTACGCATTTCCCGTGA 58.625 50.000 0.00 0.00 39.54 4.35
273 320 1.597742 CTCCGAATTGCGATCCCATT 58.402 50.000 0.00 0.00 44.57 3.16
284 331 3.890674 GCTTCACGCCTCCGAATT 58.109 55.556 0.00 0.00 38.29 2.17
373 420 0.109272 TCTCGAACATCGACAGTGCC 60.109 55.000 0.00 0.00 44.82 5.01
414 463 5.451242 GCTCCTACAAAACAAAACACATGGA 60.451 40.000 0.00 0.00 0.00 3.41
557 617 2.502142 ACTGCCTCAGATTCATGCAA 57.498 45.000 0.00 0.00 35.18 4.08
558 618 2.490509 CAAACTGCCTCAGATTCATGCA 59.509 45.455 0.29 0.00 35.18 3.96
566 626 0.397941 CTCCACCAAACTGCCTCAGA 59.602 55.000 0.29 0.00 35.18 3.27
574 634 0.746659 GCAGCAAACTCCACCAAACT 59.253 50.000 0.00 0.00 0.00 2.66
578 638 1.597854 CGAGCAGCAAACTCCACCA 60.598 57.895 0.00 0.00 0.00 4.17
579 639 1.166531 AACGAGCAGCAAACTCCACC 61.167 55.000 0.00 0.00 0.00 4.61
596 674 8.145122 TGAAACCCAATTATTTTGTACTGGAAC 58.855 33.333 0.00 0.00 0.00 3.62
639 718 1.166531 GCACGGCACAAAGAGGACTT 61.167 55.000 0.00 0.00 38.05 3.01
688 767 2.943033 GGAGTTTAACACGGATGGATGG 59.057 50.000 0.00 0.00 0.00 3.51
708 787 6.258727 GGTGATAGTGTACTGATGAACAATGG 59.741 42.308 0.00 0.00 0.00 3.16
800 879 3.181491 CCCGAGACTTCTCTGAATCACTC 60.181 52.174 4.76 0.00 40.75 3.51
963 1044 1.750193 TAAAAGAGGGAGGCGCATTG 58.250 50.000 10.83 0.00 0.00 2.82
969 1050 3.714280 AGAAGAGGATAAAAGAGGGAGGC 59.286 47.826 0.00 0.00 0.00 4.70
1050 1131 3.564027 GCGATCGGGGCAAGAACG 61.564 66.667 18.30 6.72 37.05 3.95
1185 1276 2.262915 CACTCCGTCACCTCCAGC 59.737 66.667 0.00 0.00 0.00 4.85
1344 1435 2.519541 TCGATCCTGGCCTCCTCG 60.520 66.667 3.32 7.76 0.00 4.63
1491 1582 1.021920 GCTTGTTCTTCTCCTCCGCC 61.022 60.000 0.00 0.00 0.00 6.13
1948 2039 2.990479 GGTGTCCTTGCTCCCGAT 59.010 61.111 0.00 0.00 0.00 4.18
2316 2413 1.811266 CGTCGGCATCCTGGTGAAG 60.811 63.158 0.00 0.00 0.00 3.02
2425 2522 2.187946 CAGACCGATCCCACTGCC 59.812 66.667 0.00 0.00 0.00 4.85
2426 2523 2.512515 GCAGACCGATCCCACTGC 60.513 66.667 13.90 13.90 46.25 4.40
2437 2534 2.901249 ACAACATATACACGGCAGACC 58.099 47.619 0.00 0.00 0.00 3.85
2440 2537 7.148639 GGACATTATACAACATATACACGGCAG 60.149 40.741 0.00 0.00 0.00 4.85
2459 2558 8.943594 AAAAACTACCAATACCAAGGACATTA 57.056 30.769 0.00 0.00 0.00 1.90
2484 2595 1.904287 AGACGCCAATTAGCCAACAA 58.096 45.000 0.00 0.00 0.00 2.83
2491 2602 2.159572 CCGGAACAAAGACGCCAATTAG 60.160 50.000 0.00 0.00 0.00 1.73
2575 2690 3.170791 AGCAGTATTCAGGTGATCACG 57.829 47.619 19.33 7.07 0.00 4.35
2590 2705 6.588719 TGTAAAATAGCATTTCCAAGCAGT 57.411 33.333 0.00 0.00 0.00 4.40
2649 2783 4.035278 TGCCTCCGTTACAAACAAAAAG 57.965 40.909 0.00 0.00 0.00 2.27
2696 2830 3.129792 GCTATCTAGCGTGGGCATC 57.870 57.895 0.00 0.00 43.41 3.91
2711 2845 9.342308 CCTTAGAGAATTTTATGTTCCATGCTA 57.658 33.333 0.00 0.00 0.00 3.49
2724 2858 6.981559 GTCGAGAGTATGCCTTAGAGAATTTT 59.018 38.462 0.00 0.00 0.00 1.82
2733 2867 2.429610 GGTTGGTCGAGAGTATGCCTTA 59.570 50.000 0.00 0.00 0.00 2.69
2772 2906 1.378646 TTGTGGGGTTGTGTGCGAA 60.379 52.632 0.00 0.00 0.00 4.70
2775 2909 1.904287 TATCTTGTGGGGTTGTGTGC 58.096 50.000 0.00 0.00 0.00 4.57
2797 2931 6.093633 GTGATGACGATAACCTTAGCCTTTTT 59.906 38.462 0.00 0.00 0.00 1.94
2801 2935 3.961408 AGTGATGACGATAACCTTAGCCT 59.039 43.478 0.00 0.00 0.00 4.58
2805 2939 5.446860 AGAGGAGTGATGACGATAACCTTA 58.553 41.667 0.00 0.00 0.00 2.69
2806 2940 4.282496 AGAGGAGTGATGACGATAACCTT 58.718 43.478 0.00 0.00 0.00 3.50
2858 3013 1.375523 GGGCTTCATCGGTTGTCGT 60.376 57.895 0.00 0.00 40.32 4.34
2864 3019 3.090532 GGGGAGGGCTTCATCGGT 61.091 66.667 0.00 0.00 0.00 4.69
2881 3036 2.487762 ACGCATATGTTGTTGGGACTTG 59.512 45.455 4.29 0.00 0.00 3.16
2883 3038 2.083774 CACGCATATGTTGTTGGGACT 58.916 47.619 4.29 0.00 0.00 3.85
2884 3039 2.080693 TCACGCATATGTTGTTGGGAC 58.919 47.619 4.29 0.00 0.00 4.46
2885 3040 2.481289 TCACGCATATGTTGTTGGGA 57.519 45.000 4.29 0.00 0.00 4.37
2887 3042 2.518949 GCTTCACGCATATGTTGTTGG 58.481 47.619 4.29 0.00 38.92 3.77
2888 3043 2.518949 GGCTTCACGCATATGTTGTTG 58.481 47.619 4.29 0.00 41.67 3.33
2909 3064 4.632538 ATTATTTGGTTGACCTTAGCGC 57.367 40.909 0.00 0.00 36.82 5.92
2929 3084 0.916086 TTCCGGCCTATGTGGTCAAT 59.084 50.000 0.00 0.00 41.50 2.57
2933 3088 2.775384 TCTTATTTCCGGCCTATGTGGT 59.225 45.455 0.00 0.00 38.35 4.16
2944 3099 2.097466 GCACACACCCATCTTATTTCCG 59.903 50.000 0.00 0.00 0.00 4.30
2946 3101 6.509418 TTAAGCACACACCCATCTTATTTC 57.491 37.500 0.00 0.00 0.00 2.17
2991 3146 0.606604 GAAAGTAGGTCCGGCACTCA 59.393 55.000 0.00 0.00 0.00 3.41
2997 3152 5.106038 GGTTAATTTTGGAAAGTAGGTCCGG 60.106 44.000 0.00 0.00 38.06 5.14
3024 4424 7.124052 AGAGTGATCCCTGAAATTGAATCATT 58.876 34.615 0.00 0.00 0.00 2.57
3046 4446 4.161189 AGTCATGTCCTTGGTATGTGAGAG 59.839 45.833 0.00 0.00 0.00 3.20
3052 4452 4.991056 CGGAATAGTCATGTCCTTGGTATG 59.009 45.833 0.00 0.00 0.00 2.39
3064 4464 2.290514 CCCATGCCATCGGAATAGTCAT 60.291 50.000 0.00 0.00 0.00 3.06
3065 4465 1.072173 CCCATGCCATCGGAATAGTCA 59.928 52.381 0.00 0.00 0.00 3.41
3073 4480 2.340453 CTTTTCGCCCATGCCATCGG 62.340 60.000 0.00 0.00 0.00 4.18
3074 4481 1.064621 CTTTTCGCCCATGCCATCG 59.935 57.895 0.00 0.00 0.00 3.84
3077 4484 1.621992 TAAACTTTTCGCCCATGCCA 58.378 45.000 0.00 0.00 0.00 4.92
3099 4506 2.814919 CCTAATGCAACGTACAAACCCA 59.185 45.455 0.00 0.00 0.00 4.51
3105 4512 2.878580 CCGTACCTAATGCAACGTACA 58.121 47.619 5.71 0.00 32.41 2.90
3106 4513 1.589779 GCCGTACCTAATGCAACGTAC 59.410 52.381 5.71 5.94 33.63 3.67
3109 4516 1.634225 CGCCGTACCTAATGCAACG 59.366 57.895 0.00 0.00 35.20 4.10
3110 4517 1.350665 GCGCCGTACCTAATGCAAC 59.649 57.895 0.00 0.00 0.00 4.17
3115 4522 3.495352 GAGCCGCGCCGTACCTAAT 62.495 63.158 0.00 0.00 0.00 1.73
3152 4560 1.460689 AAGACCACCCCTTCACGGA 60.461 57.895 0.00 0.00 33.16 4.69
3160 4568 1.032114 GCATGCTACAAGACCACCCC 61.032 60.000 11.37 0.00 0.00 4.95
3187 4596 0.251916 TCAAGGGCATTACCGTGGAG 59.748 55.000 0.00 0.00 39.95 3.86
3193 4602 3.620488 TCATTGTCTCAAGGGCATTACC 58.380 45.455 0.00 0.00 37.93 2.85
3198 4607 1.338105 CGACTCATTGTCTCAAGGGCA 60.338 52.381 0.00 0.00 43.25 5.36
3215 4624 1.218316 CACCCCTAAGTGAGGCGAC 59.782 63.158 0.00 0.00 45.17 5.19
3218 4627 0.960861 GTTGCACCCCTAAGTGAGGC 60.961 60.000 0.00 0.00 45.17 4.70
3223 4632 1.066143 CGAGATGTTGCACCCCTAAGT 60.066 52.381 0.00 0.00 0.00 2.24
3226 4635 0.249120 CACGAGATGTTGCACCCCTA 59.751 55.000 0.00 0.00 0.00 3.53
3227 4636 1.003355 CACGAGATGTTGCACCCCT 60.003 57.895 0.00 0.00 0.00 4.79
3277 4686 3.055458 TGGAACTCGAGAATGCATGGTTA 60.055 43.478 21.68 0.00 0.00 2.85
3312 4721 9.912634 CACCAATGTATGAAAGAACACTTTAAT 57.087 29.630 0.00 0.00 34.54 1.40
3314 4723 8.349245 CACACCAATGTATGAAAGAACACTTTA 58.651 33.333 0.00 0.00 36.72 1.85
3357 4766 4.475016 ACTGACCTAACCCTAGCATGAATT 59.525 41.667 0.00 0.00 0.00 2.17
3374 4783 1.207329 GTCATCACCCACCTACTGACC 59.793 57.143 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.