Multiple sequence alignment - TraesCS6D01G164900

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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 TraesCS6D01G164900 chr6D 100.000 8813 0 0 1 8813 143946684 143955496 0.000000e+00 16275.0
1 TraesCS6D01G164900 chr6B 97.086 5937 140 15 1563 7486 256314389 256320305 0.000000e+00 9974.0
2 TraesCS6D01G164900 chr6B 96.386 1273 32 6 7482 8752 256324881 256326141 0.000000e+00 2084.0
3 TraesCS6D01G164900 chr6B 90.247 1620 74 41 1 1564 256312715 256314306 0.000000e+00 2039.0
4 TraesCS6D01G164900 chr6B 87.045 247 20 5 236 479 685237574 685237811 1.460000e-67 268.0
5 TraesCS6D01G164900 chr6B 97.222 36 1 0 8713 8748 256326389 256326424 2.660000e-05 62.1
6 TraesCS6D01G164900 chr6A 97.170 2438 41 8 2036 4469 203773178 203770765 0.000000e+00 4095.0
7 TraesCS6D01G164900 chr6A 97.086 1853 40 6 5778 7621 203766241 203764394 0.000000e+00 3110.0
8 TraesCS6D01G164900 chr6A 97.166 1341 30 3 4454 5794 203769032 203767700 0.000000e+00 2259.0
9 TraesCS6D01G164900 chr6A 91.462 937 53 15 954 1888 203774925 203774014 0.000000e+00 1262.0
10 TraesCS6D01G164900 chr6A 97.264 731 20 0 7658 8388 203764393 203763663 0.000000e+00 1240.0
11 TraesCS6D01G164900 chr6A 93.240 429 22 3 8386 8813 203762626 203762204 7.510000e-175 625.0
12 TraesCS6D01G164900 chr6A 97.753 178 4 0 1874 2051 203773618 203773441 3.090000e-79 307.0
13 TraesCS6D01G164900 chr7D 81.954 870 90 38 100 927 379494884 379495728 0.000000e+00 675.0
14 TraesCS6D01G164900 chr7D 89.431 123 10 2 113 233 392268231 392268110 1.530000e-32 152.0
15 TraesCS6D01G164900 chr7B 91.473 387 31 1 100 484 254771033 254770647 1.680000e-146 531.0
16 TraesCS6D01G164900 chr7B 92.351 353 25 1 113 463 161781112 161780760 1.320000e-137 501.0
17 TraesCS6D01G164900 chr7B 90.547 201 13 5 248 442 422902151 422902351 2.440000e-65 261.0
18 TraesCS6D01G164900 chr7B 90.050 201 14 5 248 442 696630157 696630357 1.140000e-63 255.0
19 TraesCS6D01G164900 chr7B 97.436 39 1 0 6 44 161781139 161781101 5.710000e-07 67.6
20 TraesCS6D01G164900 chr5B 87.766 376 30 7 92 463 397945798 397946161 8.180000e-115 425.0
21 TraesCS6D01G164900 chr2D 90.000 210 15 5 248 451 42644819 42645028 5.250000e-67 267.0
22 TraesCS6D01G164900 chr3D 86.611 239 21 8 248 481 577049065 577049297 4.080000e-63 254.0
23 TraesCS6D01G164900 chr4B 82.069 290 37 8 652 927 109318929 109319217 5.320000e-57 233.0
24 TraesCS6D01G164900 chr4A 91.250 80 7 0 1 80 162406202 162406281 9.350000e-20 110.0


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 TraesCS6D01G164900 chr6D 143946684 143955496 8812 False 16275.000000 16275 100.000000 1 8813 1 chr6D.!!$F1 8812
1 TraesCS6D01G164900 chr6B 256312715 256320305 7590 False 6006.500000 9974 93.666500 1 7486 2 chr6B.!!$F2 7485
2 TraesCS6D01G164900 chr6B 256324881 256326424 1543 False 1073.050000 2084 96.804000 7482 8752 2 chr6B.!!$F3 1270
3 TraesCS6D01G164900 chr6A 203762204 203774925 12721 True 1842.571429 4095 95.877286 954 8813 7 chr6A.!!$R1 7859
4 TraesCS6D01G164900 chr7D 379494884 379495728 844 False 675.000000 675 81.954000 100 927 1 chr7D.!!$F1 827

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
665 731 1.648720 CAACGTGCAGTCCAACCAG 59.351 57.895 0.00 0.00 0.00 4.00 F
1452 1528 2.066999 GGATTCGTGGAGGGGCTCT 61.067 63.158 0.00 0.00 0.00 4.09 F
1466 1542 2.288025 GCTCTTGGGGGTCGTGGTA 61.288 63.158 0.00 0.00 0.00 3.25 F
2517 3367 4.587684 GCCTATATGTACCCAGTGTAGTGT 59.412 45.833 0.00 0.00 0.00 3.55 F
3807 4662 3.953612 TGAATGGCATTCTTACCCACATC 59.046 43.478 33.21 10.47 39.96 3.06 F
4994 7597 5.649395 CCAGACACATATGAGGAACATGTTT 59.351 40.000 13.36 0.00 39.77 2.83 F
6125 10204 0.731514 CACGCGTACACTCCAACGAT 60.732 55.000 13.44 0.00 41.55 3.73 F
6972 11059 1.410153 CCAAGGAATATTGGCAGCCAC 59.590 52.381 15.89 1.18 43.12 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2155 3005 4.100189 ACAAACTGTGTCTTAGCAGAGAGT 59.900 41.667 7.53 0.0 34.38 3.24 R
2911 3765 3.629398 GGGCAAATCAAGATAGAGTGGTG 59.371 47.826 0.00 0.0 0.00 4.17 R
3135 3989 4.158394 TGCCTGCAATTGGAAGACTTAATC 59.842 41.667 7.72 0.0 0.00 1.75 R
4294 5149 5.664294 TGAATGCTCAGCCAAACAATAAT 57.336 34.783 0.00 0.0 0.00 1.28 R
5052 7655 6.544038 TCAGATGAATGCATATAAACACCG 57.456 37.500 0.00 0.0 34.11 4.94 R
6934 11014 0.233848 GGAGCAACCGTGTTTGTACG 59.766 55.000 0.00 0.0 43.35 3.67 R
7335 11422 0.239347 CAAGAAAGCTGCCTTCACCG 59.761 55.000 13.05 0.0 0.00 4.94 R
8431 13561 0.950836 CAACCTGAACCGCATTCACA 59.049 50.000 0.00 0.0 42.62 3.58 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
55 56 8.453238 TGTTCAGTTACCTACTAAATTTGCAA 57.547 30.769 0.00 0.00 34.56 4.08
59 60 9.953565 TCAGTTACCTACTAAATTTGCAATAGT 57.046 29.630 14.03 14.03 34.56 2.12
199 201 6.014669 ACTGAGCAGATTCAAGACTTCTAAGT 60.015 38.462 4.21 0.00 43.16 2.24
211 213 6.168270 AGACTTCTAAGTAGATTCATGGCC 57.832 41.667 0.00 0.00 39.88 5.36
254 258 2.835764 AGGGCAGCATCAAACATGAATT 59.164 40.909 0.00 0.00 0.00 2.17
481 513 3.224324 GGCGGTAGATCCAGGCGA 61.224 66.667 0.00 0.00 35.57 5.54
595 653 2.753043 GAGCGGTCCGACCAGGTA 60.753 66.667 17.49 0.00 38.47 3.08
633 699 4.043200 GGCGGCCAAGTGTTGCTC 62.043 66.667 15.62 0.00 0.00 4.26
665 731 1.648720 CAACGTGCAGTCCAACCAG 59.351 57.895 0.00 0.00 0.00 4.00
667 733 3.357079 CGTGCAGTCCAACCAGGC 61.357 66.667 0.00 0.00 37.29 4.85
698 764 7.011828 AGGAACGTAAATACATCGATTTTGG 57.988 36.000 0.00 0.00 31.51 3.28
736 805 4.954118 TCGGCCCAGACCAGGTGT 62.954 66.667 0.00 0.00 0.00 4.16
782 851 2.291209 TGGACATGCCAGTCAATTGT 57.709 45.000 5.13 0.00 43.33 2.71
791 860 3.248266 GCCAGTCAATTGTCAAATCAGC 58.752 45.455 5.13 0.00 0.00 4.26
792 861 3.841643 CCAGTCAATTGTCAAATCAGCC 58.158 45.455 5.13 0.00 0.00 4.85
793 862 3.508793 CCAGTCAATTGTCAAATCAGCCT 59.491 43.478 5.13 0.00 0.00 4.58
798 867 4.154015 TCAATTGTCAAATCAGCCTGTACG 59.846 41.667 5.13 0.00 0.00 3.67
801 870 4.260139 TGTCAAATCAGCCTGTACGTAA 57.740 40.909 0.00 0.00 0.00 3.18
804 873 5.527951 TGTCAAATCAGCCTGTACGTAAAAA 59.472 36.000 0.00 0.00 0.00 1.94
830 900 4.458295 CCGTAGATTGGACCGTATATGACT 59.542 45.833 0.00 0.00 0.00 3.41
832 902 6.318144 CCGTAGATTGGACCGTATATGACTAT 59.682 42.308 0.00 0.00 0.00 2.12
860 930 9.554395 TGAGACAAATTCAGTGACTGTATTTTA 57.446 29.630 22.23 8.49 38.66 1.52
932 1007 6.039829 ACCTCCAGTGAATTTTTCTCTTTGTC 59.960 38.462 0.00 0.00 31.64 3.18
980 1055 2.504585 ACCCTCCCCGTTATCTTTCTTC 59.495 50.000 0.00 0.00 0.00 2.87
1242 1318 3.007635 CGTGTGGGGAAGGAAGAAATAC 58.992 50.000 0.00 0.00 0.00 1.89
1243 1319 3.007635 GTGTGGGGAAGGAAGAAATACG 58.992 50.000 0.00 0.00 0.00 3.06
1452 1528 2.066999 GGATTCGTGGAGGGGCTCT 61.067 63.158 0.00 0.00 0.00 4.09
1466 1542 2.288025 GCTCTTGGGGGTCGTGGTA 61.288 63.158 0.00 0.00 0.00 3.25
1973 2545 6.923508 TGTCAACGATATCCAGATATGAACAC 59.076 38.462 4.89 0.00 34.36 3.32
2177 3027 4.626042 ACTCTCTGCTAAGACACAGTTTG 58.374 43.478 0.00 0.00 35.37 2.93
2288 3138 7.859325 TTCTTTGTGGAGTATTTGCCTATAC 57.141 36.000 0.00 0.00 0.00 1.47
2482 3332 8.044060 TGATGGAAATGATACTTGTGTTCTTC 57.956 34.615 0.00 0.00 0.00 2.87
2506 3356 7.101054 TCGTGGAATATTTGCCTATATGTACC 58.899 38.462 0.00 0.00 0.00 3.34
2517 3367 4.587684 GCCTATATGTACCCAGTGTAGTGT 59.412 45.833 0.00 0.00 0.00 3.55
2518 3368 5.771666 GCCTATATGTACCCAGTGTAGTGTA 59.228 44.000 0.00 0.00 0.00 2.90
2655 3508 7.491682 ACATTTGTATAAAGCAGCAAATAGGG 58.508 34.615 0.00 0.00 38.86 3.53
2713 3566 6.183360 GGTCTGTTAAGATGAAGATGTGTTCG 60.183 42.308 0.00 0.00 34.13 3.95
2894 3748 6.485830 AGTGAGTTAGCTTTAGATATGGCA 57.514 37.500 0.00 0.00 0.00 4.92
3135 3989 9.276590 TGCAGACTATATTTTGTATCTGAATGG 57.723 33.333 3.32 0.00 36.50 3.16
3509 4364 6.331845 TCACATTTTGAAATCGATGGGATTG 58.668 36.000 0.00 0.00 44.59 2.67
3807 4662 3.953612 TGAATGGCATTCTTACCCACATC 59.046 43.478 33.21 10.47 39.96 3.06
3932 4787 7.840931 TCTCTATTGATTTGAGCTGTCAGTTA 58.159 34.615 0.93 0.00 32.98 2.24
4276 5131 6.883756 TGCTGTTGACTTGGAATATGTATTGA 59.116 34.615 0.00 0.00 0.00 2.57
4634 7237 6.488006 AGTGAAGCATGTTCTGTGTCTTAATT 59.512 34.615 0.00 0.00 0.00 1.40
4994 7597 5.649395 CCAGACACATATGAGGAACATGTTT 59.351 40.000 13.36 0.00 39.77 2.83
5037 7640 7.207383 TCTACCTACATATTATGTGTGTGTGC 58.793 38.462 17.68 0.00 44.60 4.57
5076 7679 6.348786 GCGGTGTTTATATGCATTCATCTGAT 60.349 38.462 3.54 0.00 34.22 2.90
5490 8094 2.806434 TCAGATTGTTTGTGGGATGGG 58.194 47.619 0.00 0.00 0.00 4.00
5491 8095 2.378208 TCAGATTGTTTGTGGGATGGGA 59.622 45.455 0.00 0.00 0.00 4.37
5492 8096 3.011595 TCAGATTGTTTGTGGGATGGGAT 59.988 43.478 0.00 0.00 0.00 3.85
5493 8097 3.131577 CAGATTGTTTGTGGGATGGGATG 59.868 47.826 0.00 0.00 0.00 3.51
5494 8098 1.935799 TTGTTTGTGGGATGGGATGG 58.064 50.000 0.00 0.00 0.00 3.51
5582 8186 4.572389 GCTCGATTGTTCATGGACTACATT 59.428 41.667 5.55 0.00 37.84 2.71
5717 8321 5.877564 AGTCTCAGCTTGTTATTCTTTAGGC 59.122 40.000 0.00 0.00 0.00 3.93
5812 9891 4.697352 ACAGCACATGTGGATTCTCTTTAC 59.303 41.667 26.55 5.83 41.91 2.01
5990 10069 5.987347 TCCGAAGTCTAAAGGTACAAAAGTG 59.013 40.000 0.00 0.00 0.00 3.16
6125 10204 0.731514 CACGCGTACACTCCAACGAT 60.732 55.000 13.44 0.00 41.55 3.73
6129 10208 2.096614 CGCGTACACTCCAACGATTTTT 60.097 45.455 0.00 0.00 41.55 1.94
6263 10342 4.077108 TGCAAACAGAAGAGCATCAGAAT 58.923 39.130 0.00 0.00 37.82 2.40
6296 10375 9.424659 GCAACAAAACATAAAAATGAAGAACAG 57.575 29.630 0.00 0.00 0.00 3.16
6473 10552 2.426024 GCATTGTGCAGTGAATCAGGAT 59.574 45.455 0.00 0.00 44.26 3.24
6606 10685 4.868172 AAATTGGAGGATGATGGACTCA 57.132 40.909 0.00 0.00 38.53 3.41
6699 10778 2.688507 CAAGACGAACACTGCCAGTAT 58.311 47.619 0.00 0.00 0.00 2.12
6782 10861 3.806949 TGTCTCCCTGCCTGTAATTTT 57.193 42.857 0.00 0.00 0.00 1.82
6856 10935 4.342665 CCTTTGGAGGCCTAGTTCTAGTAG 59.657 50.000 4.42 0.00 35.94 2.57
6890 10969 2.322355 AATGGATGGCAAGAGAGACG 57.678 50.000 0.00 0.00 0.00 4.18
6903 10982 5.742546 GCAAGAGAGACGACCTATCTACCTA 60.743 48.000 7.04 0.00 42.25 3.08
6912 10991 5.071370 CGACCTATCTACCTACTTCATGGT 58.929 45.833 0.00 0.00 40.12 3.55
6934 11014 7.008941 TGGTTATAATAGAGTAGTGGGGTCTC 58.991 42.308 0.00 0.00 0.00 3.36
6972 11059 1.410153 CCAAGGAATATTGGCAGCCAC 59.590 52.381 15.89 1.18 43.12 5.01
7018 11105 8.528917 AAAAAGTACAGTTGGTTTTCAAGTTC 57.471 30.769 0.00 0.00 36.93 3.01
7179 11266 6.486657 TCTTGCTTCTATTACCATGCATAACC 59.513 38.462 0.00 0.00 0.00 2.85
7180 11267 5.940617 TGCTTCTATTACCATGCATAACCT 58.059 37.500 0.00 0.00 0.00 3.50
7517 11606 3.157087 ACTGTGGTAATGCTTTCCCTTG 58.843 45.455 0.00 0.00 0.00 3.61
7697 11786 5.719173 AGAAGCTTTACTACTCTTGAGCTG 58.281 41.667 0.00 0.00 40.10 4.24
7877 11966 5.999044 AGGACATTGAGATATGAGCAACTT 58.001 37.500 0.00 0.00 0.00 2.66
7924 12013 4.608948 AACTTCTCTCACTCGGTCAATT 57.391 40.909 0.00 0.00 0.00 2.32
8140 12229 7.389607 TCTTTTGGCTCAATACCTGTAACTTAC 59.610 37.037 0.00 0.00 0.00 2.34
8161 12250 2.035342 CGAACGAGTTGCATCGAGATTC 60.035 50.000 16.17 8.63 45.56 2.52
8428 13558 5.047306 ACAAAGATTGTAGTCTGATGGTCGA 60.047 40.000 0.00 0.00 43.27 4.20
8431 13561 6.227298 AGATTGTAGTCTGATGGTCGATTT 57.773 37.500 0.00 0.00 0.00 2.17
8503 13633 1.073199 GTGGGCTTGTGCTAGGTGT 59.927 57.895 0.00 0.00 39.59 4.16
8602 13733 3.683365 AATTTGGCTTTGCTAACTGGG 57.317 42.857 0.00 0.00 0.00 4.45
8681 13812 3.380004 AGAGAGGCAAGAGTTATCAGTCG 59.620 47.826 0.00 0.00 0.00 4.18
8736 13867 0.381801 AGCTGCAGTTTTCACCAACG 59.618 50.000 16.64 0.00 0.00 4.10
8792 14084 6.710744 CAGTTTCTCAACAGTGTTAGGGTTAT 59.289 38.462 8.49 0.00 35.05 1.89
8793 14085 7.228706 CAGTTTCTCAACAGTGTTAGGGTTATT 59.771 37.037 8.49 0.00 35.05 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
139 140 4.594062 TGCCCTGGTTACTTAGTTTACTGA 59.406 41.667 0.00 0.00 0.00 3.41
199 201 3.998913 TGTTCAGTGGCCATGAATCTA 57.001 42.857 24.20 15.38 38.81 1.98
211 213 7.542890 CCCTACTAGCTGATATATGTTCAGTG 58.457 42.308 15.12 10.20 42.12 3.66
254 258 8.043113 ACAATGTAAGCTATCTTGATCTGTTCA 58.957 33.333 0.00 0.00 33.85 3.18
344 348 2.727392 CCCGATTGTGGCGACCCTA 61.727 63.158 0.00 0.00 0.00 3.53
422 426 1.003928 ACATGTCATCTGCAAGCTCCA 59.996 47.619 0.00 0.00 0.00 3.86
429 433 0.525761 TCGTCGACATGTCATCTGCA 59.474 50.000 24.93 1.17 0.00 4.41
467 471 2.728817 CCGTCGCCTGGATCTACC 59.271 66.667 0.00 0.00 39.54 3.18
529 576 2.349755 CCACAAATCCCCCGTCGT 59.650 61.111 0.00 0.00 0.00 4.34
533 580 0.616371 TAGTCACCACAAATCCCCCG 59.384 55.000 0.00 0.00 0.00 5.73
624 688 4.557205 CTCCTAAACTAACGAGCAACACT 58.443 43.478 0.00 0.00 0.00 3.55
633 699 2.159881 GCACGTTGCTCCTAAACTAACG 60.160 50.000 0.00 0.00 46.62 3.18
651 717 3.357079 CGCCTGGTTGGACTGCAC 61.357 66.667 0.00 0.00 38.35 4.57
660 726 4.995058 TCCTTCCCCCGCCTGGTT 62.995 66.667 0.00 0.00 0.00 3.67
665 731 2.467993 TTTACGTTCCTTCCCCCGCC 62.468 60.000 0.00 0.00 0.00 6.13
667 733 2.093553 TGTATTTACGTTCCTTCCCCCG 60.094 50.000 0.00 0.00 0.00 5.73
673 739 7.334921 TCCAAAATCGATGTATTTACGTTCCTT 59.665 33.333 0.00 0.00 0.00 3.36
712 781 1.595382 GGTCTGGGCCGATCGATTG 60.595 63.158 18.66 5.59 0.00 2.67
756 825 2.969806 CTGGCATGTCCACGTGTGC 61.970 63.158 17.79 17.79 40.72 4.57
758 827 1.301716 GACTGGCATGTCCACGTGT 60.302 57.895 15.65 2.84 40.72 4.49
760 829 0.036732 ATTGACTGGCATGTCCACGT 59.963 50.000 12.45 7.54 40.72 4.49
779 848 3.120321 ACGTACAGGCTGATTTGACAA 57.880 42.857 23.66 0.00 0.00 3.18
780 849 2.831685 ACGTACAGGCTGATTTGACA 57.168 45.000 23.66 0.00 0.00 3.58
804 873 5.302568 TCATATACGGTCCAATCTACGGTTT 59.697 40.000 0.00 0.00 33.18 3.27
830 900 6.997655 ACAGTCACTGAATTTGTCTCAGATA 58.002 36.000 13.14 0.00 42.51 1.98
832 902 5.282055 ACAGTCACTGAATTTGTCTCAGA 57.718 39.130 13.14 0.00 42.51 3.27
879 951 0.671163 TCGCGTTGGCCGATTTAGTT 60.671 50.000 5.77 0.00 39.56 2.24
903 978 7.554959 AGAGAAAAATTCACTGGAGGTACTA 57.445 36.000 0.00 0.00 41.55 1.82
1452 1528 1.914764 GGTCTACCACGACCCCCAA 60.915 63.158 0.00 0.00 46.19 4.12
1654 1814 5.637810 GTCGTAACACCTCAAGAATCATCAA 59.362 40.000 0.00 0.00 0.00 2.57
1986 2558 9.386010 GAATATCCTACTTATCTCGAGCTTCTA 57.614 37.037 7.81 0.00 0.00 2.10
2155 3005 4.100189 ACAAACTGTGTCTTAGCAGAGAGT 59.900 41.667 7.53 0.00 34.38 3.24
2177 3027 6.150976 TCACAACTATGAAATGACAATGGGAC 59.849 38.462 0.00 0.00 0.00 4.46
2288 3138 7.217636 CGATGCTGAAGAAAATTCAGTTACATG 59.782 37.037 16.54 0.00 45.66 3.21
2453 3303 6.189859 ACACAAGTATCATTTCCATCATGGT 58.810 36.000 2.79 0.00 39.03 3.55
2482 3332 6.315393 GGGTACATATAGGCAAATATTCCACG 59.685 42.308 0.00 0.00 0.00 4.94
2506 3356 8.771920 TTGAAAGAACATATACACTACACTGG 57.228 34.615 0.00 0.00 0.00 4.00
2517 3367 7.828717 TGGCAGACAGAATTGAAAGAACATATA 59.171 33.333 0.00 0.00 0.00 0.86
2518 3368 6.660521 TGGCAGACAGAATTGAAAGAACATAT 59.339 34.615 0.00 0.00 0.00 1.78
2894 3748 5.500234 AGTGGTGTATGAATGCACAATAGT 58.500 37.500 12.61 0.72 43.87 2.12
2911 3765 3.629398 GGGCAAATCAAGATAGAGTGGTG 59.371 47.826 0.00 0.00 0.00 4.17
3135 3989 4.158394 TGCCTGCAATTGGAAGACTTAATC 59.842 41.667 7.72 0.00 0.00 1.75
3807 4662 8.327941 TCATTTCTCCTTCAGAATTGTTAGTG 57.672 34.615 6.27 0.00 41.02 2.74
4252 5107 7.148255 TGTCAATACATATTCCAAGTCAACAGC 60.148 37.037 0.00 0.00 0.00 4.40
4276 5131 6.548622 ACAATAATCAGCTATCCAATGCTTGT 59.451 34.615 0.00 0.00 37.44 3.16
4294 5149 5.664294 TGAATGCTCAGCCAAACAATAAT 57.336 34.783 0.00 0.00 0.00 1.28
4549 7152 8.303876 TCAGACCCAAGCAAGAAATATTAAAAC 58.696 33.333 0.00 0.00 0.00 2.43
4557 7160 4.670765 AGAATCAGACCCAAGCAAGAAAT 58.329 39.130 0.00 0.00 0.00 2.17
4756 7359 9.502091 AATTAGTTAGCACAGACAACTTTATCA 57.498 29.630 0.00 0.00 34.48 2.15
4994 7597 9.871238 GTAGGTAGAAATCTTGTGATTAACTCA 57.129 33.333 0.00 0.00 41.62 3.41
5052 7655 6.544038 TCAGATGAATGCATATAAACACCG 57.456 37.500 0.00 0.00 34.11 4.94
5076 7679 8.445361 AAGGTACCTGAAGATAAAAGGTCTTA 57.555 34.615 17.14 0.00 43.33 2.10
5278 7882 7.120579 GCAAACAATAAAGGAATTTTAAGGGGG 59.879 37.037 0.00 0.00 35.03 5.40
5812 9891 6.403636 GCATATAGAGCCCAATAATGTTTCCG 60.404 42.308 0.00 0.00 0.00 4.30
5852 9931 6.862209 AGAGGCTGAAGAATATAGCTAATCG 58.138 40.000 0.00 0.00 37.58 3.34
5990 10069 3.257127 AGTCAACAGAGGAACAGACTAGC 59.743 47.826 0.00 0.00 34.83 3.42
6268 10347 9.766277 GTTCTTCATTTTTATGTTTTGTTGCAA 57.234 25.926 0.00 0.00 0.00 4.08
6296 10375 6.972901 CAGGAAAGTTTGTTTTCTCCAAGTAC 59.027 38.462 0.00 0.00 37.26 2.73
6473 10552 1.138069 TGACGAACTGCAAGACTTCCA 59.862 47.619 0.00 0.00 37.43 3.53
6699 10778 3.138304 CGTCACCTTGAGAATTGGTCAA 58.862 45.455 0.00 0.00 32.93 3.18
6856 10935 8.039603 TGCCATCCATTAATTCATACGTAATC 57.960 34.615 0.00 0.00 0.00 1.75
6869 10948 3.450817 TCGTCTCTCTTGCCATCCATTAA 59.549 43.478 0.00 0.00 0.00 1.40
6890 10969 6.980416 AACCATGAAGTAGGTAGATAGGTC 57.020 41.667 0.00 0.00 37.07 3.85
6903 10982 8.871125 CCCACTACTCTATTATAACCATGAAGT 58.129 37.037 0.00 0.00 0.00 3.01
6912 10991 6.845908 ACGAGACCCCACTACTCTATTATAA 58.154 40.000 0.00 0.00 0.00 0.98
6934 11014 0.233848 GGAGCAACCGTGTTTGTACG 59.766 55.000 0.00 0.00 43.35 3.67
7018 11105 5.707298 ACATTCAACTATTCTGGTTCCACAG 59.293 40.000 0.00 0.00 39.84 3.66
7179 11266 7.672983 TGGAGCTACTGAATTTTCTGTTAAG 57.327 36.000 0.00 2.99 39.57 1.85
7180 11267 7.882791 TCATGGAGCTACTGAATTTTCTGTTAA 59.117 33.333 0.00 0.00 39.57 2.01
7335 11422 0.239347 CAAGAAAGCTGCCTTCACCG 59.761 55.000 13.05 0.00 0.00 4.94
7517 11606 7.014808 AGCTAATGGATGGTCTCTTAGAGTAAC 59.985 40.741 9.25 0.91 0.00 2.50
7656 11745 3.216187 TCTTTGACCGAAATTGACCCA 57.784 42.857 0.00 0.00 0.00 4.51
8129 12218 3.120782 GCAACTCGTTCGTAAGTTACAGG 59.879 47.826 13.33 0.98 34.05 4.00
8140 12229 1.550065 ATCTCGATGCAACTCGTTCG 58.450 50.000 9.37 4.28 39.62 3.95
8161 12250 1.882912 TGTAGCTCTTGCACACCTTG 58.117 50.000 0.00 0.00 42.74 3.61
8428 13558 2.238521 ACCTGAACCGCATTCACAAAT 58.761 42.857 0.00 0.00 42.62 2.32
8431 13561 0.950836 CAACCTGAACCGCATTCACA 59.049 50.000 0.00 0.00 42.62 3.58
8503 13633 1.003580 GACAGTGGCTTCATCCCAGAA 59.996 52.381 0.00 0.00 31.89 3.02
8570 13701 3.356529 AGCCAAATTACCTCCTCAGTG 57.643 47.619 0.00 0.00 0.00 3.66
8681 13812 7.227512 CCCATGACATTTAGTTGAGTAGAATCC 59.772 40.741 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.