Multiple sequence alignment - TraesCS7D01G229500

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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 TraesCS7D01G229500 chr7D 100.000 3374 0 0 1 3374 189911806 189915179 0.000000e+00 6231.0
1 TraesCS7D01G229500 chr7D 97.791 498 10 1 1 498 579794614 579795110 0.000000e+00 857.0
2 TraesCS7D01G229500 chr7D 82.531 727 112 15 2474 3191 5326657 5327377 2.860000e-175 625.0
3 TraesCS7D01G229500 chr7D 86.643 554 48 13 47 598 108184615 108185144 1.040000e-164 590.0
4 TraesCS7D01G229500 chr7A 91.542 2199 147 17 603 2794 194289602 194287436 0.000000e+00 2994.0
5 TraesCS7D01G229500 chr7A 80.246 896 144 26 2472 3345 660144416 660145300 0.000000e+00 643.0
6 TraesCS7D01G229500 chr7B 90.990 1920 127 15 623 2534 334454960 334456841 0.000000e+00 2545.0
7 TraesCS7D01G229500 chr7B 94.239 486 24 4 2890 3374 334460419 334460901 0.000000e+00 739.0
8 TraesCS7D01G229500 chr7B 87.336 608 62 4 1 598 602401134 602400532 0.000000e+00 682.0
9 TraesCS7D01G229500 chr2D 95.819 598 24 1 1 598 124318540 124319136 0.000000e+00 965.0
10 TraesCS7D01G229500 chr2D 89.270 466 42 4 134 599 389696325 389696782 8.120000e-161 577.0
11 TraesCS7D01G229500 chr2D 74.775 888 155 44 2422 3287 125682285 125681445 5.390000e-88 335.0
12 TraesCS7D01G229500 chr4D 94.482 598 31 2 1 598 46680337 46679742 0.000000e+00 920.0
13 TraesCS7D01G229500 chr4D 95.070 284 14 0 1 284 7875746 7876029 6.640000e-122 448.0
14 TraesCS7D01G229500 chr1A 83.240 895 132 14 2475 3355 89589034 89589924 0.000000e+00 806.0
15 TraesCS7D01G229500 chr1A 84.746 118 17 1 2422 2538 586277597 586277480 2.130000e-22 117.0
16 TraesCS7D01G229500 chr2B 82.286 875 134 15 2514 3374 21541591 21540724 0.000000e+00 737.0
17 TraesCS7D01G229500 chr2B 84.753 223 27 5 1 218 712628735 712628515 2.040000e-52 217.0
18 TraesCS7D01G229500 chr2B 90.698 43 3 1 3329 3371 93159285 93159326 4.700000e-04 56.5
19 TraesCS7D01G229500 chr3A 80.696 948 152 24 2422 3350 526853473 526854408 0.000000e+00 708.0
20 TraesCS7D01G229500 chr3A 73.094 223 60 0 2019 2241 702492314 702492536 2.790000e-11 80.5
21 TraesCS7D01G229500 chr4B 89.873 553 50 5 47 598 395907945 395908492 0.000000e+00 706.0
22 TraesCS7D01G229500 chr3B 80.659 910 146 17 2474 3374 750131906 750131018 0.000000e+00 678.0
23 TraesCS7D01G229500 chr3B 72.321 224 60 2 2019 2241 756590015 756590237 6.040000e-08 69.4
24 TraesCS7D01G229500 chr3B 71.875 224 61 2 2019 2241 756603399 756603621 2.810000e-06 63.9
25 TraesCS7D01G229500 chr3D 80.379 897 143 24 2474 3351 63169543 63170425 0.000000e+00 651.0
26 TraesCS7D01G229500 chr3D 79.641 948 154 32 2422 3350 404393486 404394413 0.000000e+00 645.0
27 TraesCS7D01G229500 chr3D 79.786 653 100 13 2614 3260 562693412 562692786 2.390000e-121 446.0
28 TraesCS7D01G229500 chr3D 79.447 253 32 6 2406 2656 291175495 291175729 9.690000e-36 161.0
29 TraesCS7D01G229500 chr3D 73.451 226 58 2 2017 2241 568087352 568087128 2.160000e-12 84.2
30 TraesCS7D01G229500 chr4A 89.703 505 46 4 94 598 698331523 698331025 1.020000e-179 640.0
31 TraesCS7D01G229500 chr6A 89.165 443 42 3 162 598 6887269 6886827 6.360000e-152 547.0
32 TraesCS7D01G229500 chr6A 78.242 455 88 10 2418 2864 302782645 302783096 7.130000e-72 281.0
33 TraesCS7D01G229500 chr6D 81.212 165 29 2 2476 2638 341389955 341390119 7.600000e-27 132.0
34 TraesCS7D01G229500 chr1D 79.213 178 33 3 1646 1821 12249299 12249124 1.640000e-23 121.0


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 TraesCS7D01G229500 chr7D 189911806 189915179 3373 False 6231 6231 100.0000 1 3374 1 chr7D.!!$F3 3373
1 TraesCS7D01G229500 chr7D 5326657 5327377 720 False 625 625 82.5310 2474 3191 1 chr7D.!!$F1 717
2 TraesCS7D01G229500 chr7D 108184615 108185144 529 False 590 590 86.6430 47 598 1 chr7D.!!$F2 551
3 TraesCS7D01G229500 chr7A 194287436 194289602 2166 True 2994 2994 91.5420 603 2794 1 chr7A.!!$R1 2191
4 TraesCS7D01G229500 chr7A 660144416 660145300 884 False 643 643 80.2460 2472 3345 1 chr7A.!!$F1 873
5 TraesCS7D01G229500 chr7B 334454960 334460901 5941 False 1642 2545 92.6145 623 3374 2 chr7B.!!$F1 2751
6 TraesCS7D01G229500 chr7B 602400532 602401134 602 True 682 682 87.3360 1 598 1 chr7B.!!$R1 597
7 TraesCS7D01G229500 chr2D 124318540 124319136 596 False 965 965 95.8190 1 598 1 chr2D.!!$F1 597
8 TraesCS7D01G229500 chr2D 125681445 125682285 840 True 335 335 74.7750 2422 3287 1 chr2D.!!$R1 865
9 TraesCS7D01G229500 chr4D 46679742 46680337 595 True 920 920 94.4820 1 598 1 chr4D.!!$R1 597
10 TraesCS7D01G229500 chr1A 89589034 89589924 890 False 806 806 83.2400 2475 3355 1 chr1A.!!$F1 880
11 TraesCS7D01G229500 chr2B 21540724 21541591 867 True 737 737 82.2860 2514 3374 1 chr2B.!!$R1 860
12 TraesCS7D01G229500 chr3A 526853473 526854408 935 False 708 708 80.6960 2422 3350 1 chr3A.!!$F1 928
13 TraesCS7D01G229500 chr4B 395907945 395908492 547 False 706 706 89.8730 47 598 1 chr4B.!!$F1 551
14 TraesCS7D01G229500 chr3B 750131018 750131906 888 True 678 678 80.6590 2474 3374 1 chr3B.!!$R1 900
15 TraesCS7D01G229500 chr3D 63169543 63170425 882 False 651 651 80.3790 2474 3351 1 chr3D.!!$F1 877
16 TraesCS7D01G229500 chr3D 404393486 404394413 927 False 645 645 79.6410 2422 3350 1 chr3D.!!$F3 928
17 TraesCS7D01G229500 chr3D 562692786 562693412 626 True 446 446 79.7860 2614 3260 1 chr3D.!!$R1 646

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
599 616 0.458716 AAAACCGTGTTGCCAAACCG 60.459 50.0 0.00 0.0 35.25 4.44 F
1714 1740 0.103755 GATGAGCATGTCAGGCGAGA 59.896 55.0 3.45 0.0 39.07 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2140 2169 0.530744 ACATTGCTTGCAGGCTCATG 59.469 50.0 22.31 22.82 33.16 3.07 R
2784 4561 0.107654 GGAGGGCGCTAAGATGTTGT 60.108 55.0 7.64 0.00 0.00 3.32 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
91 102 0.950555 TAGTGCAACAGGAAGCAGCG 60.951 55.000 0.00 0.00 42.14 5.18
328 343 1.151668 GACAAGGCTATAGGCATGCG 58.848 55.000 26.01 14.61 42.04 4.73
346 361 0.881118 CGGCGGCCATTAATTAGCAT 59.119 50.000 20.71 0.00 0.00 3.79
385 402 8.264347 TCATTGTATAACTCCTTTGATGTAGCA 58.736 33.333 0.00 0.00 0.00 3.49
470 487 2.877043 AGAAAAACTGCACTTGCCAG 57.123 45.000 0.00 0.00 41.18 4.85
508 525 9.349145 GTTTTGCTAAAACTGAGAAAAACTGTA 57.651 29.630 10.45 0.00 44.25 2.74
549 566 4.782019 TTCATTGCCTACACATTGGAAC 57.218 40.909 0.00 0.00 0.00 3.62
598 615 1.728068 AAAAACCGTGTTGCCAAACC 58.272 45.000 0.00 0.00 35.25 3.27
599 616 0.458716 AAAACCGTGTTGCCAAACCG 60.459 50.000 0.00 0.00 35.25 4.44
600 617 2.286127 AAACCGTGTTGCCAAACCGG 62.286 55.000 12.87 12.87 46.69 5.28
601 618 3.972276 CCGTGTTGCCAAACCGGG 61.972 66.667 6.32 0.00 42.04 5.73
617 634 1.803289 GGGAACGATTGCTTCTGGC 59.197 57.895 0.00 0.00 42.22 4.85
849 871 3.631250 ACAGTGGCCTAATTATTGGTGG 58.369 45.455 3.32 0.00 0.00 4.61
869 891 2.222027 GCAATAAGCCGCCAGAATAGT 58.778 47.619 0.00 0.00 37.23 2.12
872 894 4.319549 GCAATAAGCCGCCAGAATAGTTAC 60.320 45.833 0.00 0.00 37.23 2.50
875 897 1.413077 AGCCGCCAGAATAGTTACCTC 59.587 52.381 0.00 0.00 0.00 3.85
877 899 1.070289 CCGCCAGAATAGTTACCTCCC 59.930 57.143 0.00 0.00 0.00 4.30
935 961 3.529533 CCAGAGACTTTACCAGCATCTG 58.470 50.000 0.00 0.00 34.00 2.90
939 965 2.826128 AGACTTTACCAGCATCTGTCGA 59.174 45.455 0.00 0.00 0.00 4.20
944 970 0.969149 ACCAGCATCTGTCGACTTCA 59.031 50.000 17.92 0.29 0.00 3.02
958 984 7.502561 TCTGTCGACTTCATAATCTGGATCTTA 59.497 37.037 17.92 0.00 0.00 2.10
1056 1082 0.995024 AAGGGGACACAAGCTATGCT 59.005 50.000 0.00 0.00 42.56 3.79
1093 1119 3.069443 GCAGGTATCTTCTCCTCTCTTGG 59.931 52.174 0.00 0.00 30.91 3.61
1106 1132 3.558746 CCTCTCTTGGTTGATTCACAGCT 60.559 47.826 0.00 0.00 0.00 4.24
1108 1134 1.881973 TCTTGGTTGATTCACAGCTGC 59.118 47.619 15.27 0.00 0.00 5.25
1109 1135 1.884579 CTTGGTTGATTCACAGCTGCT 59.115 47.619 15.27 0.00 0.00 4.24
1111 1137 1.242076 GGTTGATTCACAGCTGCTGT 58.758 50.000 28.49 28.49 46.51 4.40
1131 1157 4.780815 TGTGTTTCTGATGTCTTGTTCCT 58.219 39.130 0.00 0.00 0.00 3.36
1133 1159 4.058124 TGTTTCTGATGTCTTGTTCCTCG 58.942 43.478 0.00 0.00 0.00 4.63
1192 1218 1.220529 CAGAACGCTGAGCAGAACAA 58.779 50.000 4.88 0.00 45.17 2.83
1235 1261 0.387878 CCATCGCCGATCTACTCAGC 60.388 60.000 0.00 0.00 0.00 4.26
1236 1262 0.312102 CATCGCCGATCTACTCAGCA 59.688 55.000 0.00 0.00 0.00 4.41
1239 1265 1.299468 GCCGATCTACTCAGCACCG 60.299 63.158 0.00 0.00 0.00 4.94
1321 1347 1.468908 GCTCACTCTGGTGTCGATCTG 60.469 57.143 0.00 0.00 43.41 2.90
1328 1354 0.246360 TGGTGTCGATCTGCGTTGAT 59.754 50.000 0.00 0.00 41.80 2.57
1400 1426 2.735762 CGTCTTCCTCAACGATCTTCCC 60.736 54.545 0.00 0.00 41.29 3.97
1460 1486 1.529010 CCAGCAAAGCCACAGGTCA 60.529 57.895 0.00 0.00 0.00 4.02
1478 1504 1.068125 TCAGTCGTCACCGGTGTTATG 60.068 52.381 32.74 23.11 33.95 1.90
1563 1589 2.363018 TCCACTGGCTCTCCGAGG 60.363 66.667 0.00 0.00 34.14 4.63
1564 1590 2.681778 CCACTGGCTCTCCGAGGT 60.682 66.667 0.00 0.00 34.14 3.85
1565 1591 1.379977 CCACTGGCTCTCCGAGGTA 60.380 63.158 0.00 0.00 34.14 3.08
1587 1613 3.869246 AGTATGAATTTTACACGGCTCGG 59.131 43.478 0.00 0.00 0.00 4.63
1589 1615 0.247537 GAATTTTACACGGCTCGGCG 60.248 55.000 11.46 11.46 0.00 6.46
1622 1648 4.908601 TCAGTTATCCCTTCTTGAGCAA 57.091 40.909 0.00 0.00 0.00 3.91
1624 1650 5.188434 TCAGTTATCCCTTCTTGAGCAATG 58.812 41.667 0.00 0.00 0.00 2.82
1625 1651 3.950395 AGTTATCCCTTCTTGAGCAATGC 59.050 43.478 0.00 0.00 0.00 3.56
1626 1652 2.519771 ATCCCTTCTTGAGCAATGCA 57.480 45.000 8.35 0.00 0.00 3.96
1643 1669 4.806640 ATGCATTTAACTTTGGAGGTGG 57.193 40.909 0.00 0.00 0.00 4.61
1646 1672 3.761752 GCATTTAACTTTGGAGGTGGCTA 59.238 43.478 0.00 0.00 0.00 3.93
1706 1732 1.845266 ACGACATCGATGAGCATGTC 58.155 50.000 31.33 17.36 43.75 3.06
1714 1740 0.103755 GATGAGCATGTCAGGCGAGA 59.896 55.000 3.45 0.00 39.07 4.04
1768 1794 3.365364 CGGCAGTTCAGGAAAGATTTCAC 60.365 47.826 7.56 0.00 38.92 3.18
1769 1795 3.057245 GGCAGTTCAGGAAAGATTTCACC 60.057 47.826 7.56 0.00 38.92 4.02
1775 1801 6.040955 AGTTCAGGAAAGATTTCACCCTTTTC 59.959 38.462 7.56 0.00 38.92 2.29
1792 1818 1.283347 TTCCTTGAGCTGAGAGCCAT 58.717 50.000 0.00 0.00 43.77 4.40
1822 1848 1.648467 GCAGGAGGTCGATTGGTTGC 61.648 60.000 0.00 0.00 0.00 4.17
1823 1849 1.026718 CAGGAGGTCGATTGGTTGCC 61.027 60.000 0.00 0.00 0.00 4.52
1893 1919 0.745845 CTGGGAATCAGTCGCCCTTG 60.746 60.000 0.00 0.00 42.52 3.61
2037 2066 6.455647 TCAATAGGGTATGATTAACAGAGCG 58.544 40.000 0.00 0.00 38.83 5.03
2118 2147 4.473444 TCATTCAAGCAGAGGGTTCTTTT 58.527 39.130 0.00 0.00 30.99 2.27
2140 2169 3.282021 TCAATAAGGGAGATGCAAGTGC 58.718 45.455 0.00 0.00 42.50 4.40
2195 2224 2.045045 CCCGAGCAAGATGGCCAA 60.045 61.111 10.96 0.00 0.00 4.52
2232 2261 4.058817 GGTTTGAGCCGATAATAGTCCAG 58.941 47.826 0.00 0.00 0.00 3.86
2251 2280 0.608035 GCATTTTGGGTCGTCTGGGA 60.608 55.000 0.00 0.00 0.00 4.37
2334 2363 1.153349 CGAGCTGGCTAGAAACCCC 60.153 63.158 0.00 0.00 0.00 4.95
2343 2372 3.454812 TGGCTAGAAACCCCAGAGTTATC 59.545 47.826 0.00 0.00 0.00 1.75
2624 4381 1.002134 CCAACCCTCATCCACGCTT 60.002 57.895 0.00 0.00 0.00 4.68
2691 4465 0.543883 TCTCCTCCTTGTCTGCTGCT 60.544 55.000 0.00 0.00 0.00 4.24
2701 4475 1.134128 TGTCTGCTGCTTCCAACTTCA 60.134 47.619 0.00 0.00 0.00 3.02
2703 4477 2.095364 GTCTGCTGCTTCCAACTTCATG 60.095 50.000 0.00 0.00 0.00 3.07
2781 4558 4.022068 GCATCCAAAGACTCCACATTCAAA 60.022 41.667 0.00 0.00 0.00 2.69
2840 5115 7.095017 CGATCTTAACCTTCTTTTCTTTGAGCT 60.095 37.037 0.00 0.00 0.00 4.09
2841 5116 7.497925 TCTTAACCTTCTTTTCTTTGAGCTC 57.502 36.000 6.82 6.82 0.00 4.09
2860 5135 0.610687 CCGCCTTCTTCTCCTTGAGT 59.389 55.000 0.00 0.00 0.00 3.41
2887 6169 3.118811 CCTTCTTCTCTTCGATCAAGGCT 60.119 47.826 0.00 0.00 32.22 4.58
2888 6170 4.502962 CTTCTTCTCTTCGATCAAGGCTT 58.497 43.478 0.00 0.00 32.22 4.35
2962 6246 6.043706 TGAACCTCTTCATCTTTTTCTCCTCT 59.956 38.462 0.00 0.00 31.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 6.773976 TCCCATGTGGTAATCTTGATTTTC 57.226 37.500 0.95 0.00 34.77 2.29
12 13 7.235399 AGTTTCCCATGTGGTAATCTTGATTTT 59.765 33.333 0.95 0.00 34.77 1.82
91 102 5.176590 ACGTCTAGTACTAGCTAATGTACGC 59.823 44.000 25.68 8.04 42.53 4.42
328 343 3.673323 GCTTATGCTAATTAATGGCCGCC 60.673 47.826 1.04 1.04 36.03 6.13
346 361 8.023021 AGTTATACAATGACCTGATCAGCTTA 57.977 34.615 17.76 0.57 41.91 3.09
357 372 7.865706 ACATCAAAGGAGTTATACAATGACC 57.134 36.000 0.00 0.00 0.00 4.02
385 402 7.512992 AGATATAGCTAGCTGAACCAAATTGT 58.487 34.615 27.68 3.45 0.00 2.71
508 525 9.893305 CAATGAATACTTCGGTTTCTAAAAACT 57.107 29.630 1.53 0.00 43.55 2.66
537 554 1.141254 ACCACGGTGTTCCAATGTGTA 59.859 47.619 7.45 0.00 0.00 2.90
549 566 1.002659 TGGTATCTGGAAACCACGGTG 59.997 52.381 0.00 0.00 40.84 4.94
598 615 1.982073 GCCAGAAGCAATCGTTCCCG 61.982 60.000 0.00 0.00 42.97 5.14
599 616 1.803289 GCCAGAAGCAATCGTTCCC 59.197 57.895 0.00 0.00 42.97 3.97
617 634 1.740585 TGTTCAACCGTTGGTTCAGTG 59.259 47.619 11.35 0.00 43.05 3.66
806 823 8.035394 ACTGTTCTTTCTTTTCTTTTCCCTTTC 58.965 33.333 0.00 0.00 0.00 2.62
849 871 2.222027 ACTATTCTGGCGGCTTATTGC 58.778 47.619 11.43 0.00 41.94 3.56
869 891 1.367346 TGCCAATCACAGGGAGGTAA 58.633 50.000 0.00 0.00 0.00 2.85
872 894 1.212688 TGTATGCCAATCACAGGGAGG 59.787 52.381 0.00 0.00 0.00 4.30
875 897 4.533919 TTTTTGTATGCCAATCACAGGG 57.466 40.909 0.00 0.00 31.81 4.45
877 899 8.531622 TTACAATTTTTGTATGCCAATCACAG 57.468 30.769 1.28 0.00 44.85 3.66
935 961 7.426410 TGTAAGATCCAGATTATGAAGTCGAC 58.574 38.462 7.70 7.70 0.00 4.20
939 965 6.529220 GCCTGTAAGATCCAGATTATGAAGT 58.471 40.000 0.00 0.00 34.07 3.01
944 970 3.615110 CGCGCCTGTAAGATCCAGATTAT 60.615 47.826 0.00 0.00 34.07 1.28
958 984 3.417275 CTTCCGATCTCGCGCCTGT 62.417 63.158 0.00 0.00 38.18 4.00
1056 1082 1.005748 CTGCAGACTGGAGTTGCGA 60.006 57.895 15.39 0.00 40.62 5.10
1106 1132 3.544684 ACAAGACATCAGAAACACAGCA 58.455 40.909 0.00 0.00 0.00 4.41
1108 1134 4.818546 AGGAACAAGACATCAGAAACACAG 59.181 41.667 0.00 0.00 0.00 3.66
1109 1135 4.780815 AGGAACAAGACATCAGAAACACA 58.219 39.130 0.00 0.00 0.00 3.72
1111 1137 4.058124 CGAGGAACAAGACATCAGAAACA 58.942 43.478 0.00 0.00 0.00 2.83
1131 1157 4.705507 ACAGCTAGGTGAATAAGTTCTCGA 59.294 41.667 27.87 0.00 35.33 4.04
1133 1159 6.757478 GGTAACAGCTAGGTGAATAAGTTCTC 59.243 42.308 27.87 7.76 35.33 2.87
1338 1364 1.371558 GGGAACGAAGACACTGGCT 59.628 57.895 0.00 0.00 0.00 4.75
1373 1399 1.009389 CGTTGAGGAAGACGCAGACC 61.009 60.000 0.00 0.00 32.11 3.85
1400 1426 1.864711 ACCATGTTGAAGTCGTTGTCG 59.135 47.619 0.00 0.00 38.55 4.35
1478 1504 1.146263 CCCGTAGAATGACCCTGGC 59.854 63.158 0.00 0.00 0.00 4.85
1563 1589 5.051240 CCGAGCCGTGTAAAATTCATACTAC 60.051 44.000 0.00 0.00 0.00 2.73
1564 1590 5.045215 CCGAGCCGTGTAAAATTCATACTA 58.955 41.667 0.00 0.00 0.00 1.82
1565 1591 3.869246 CCGAGCCGTGTAAAATTCATACT 59.131 43.478 0.00 0.00 0.00 2.12
1587 1613 3.869272 CTGATGCAGTTCGGCCGC 61.869 66.667 23.51 7.63 0.00 6.53
1600 1626 5.441718 TTGCTCAAGAAGGGATAACTGAT 57.558 39.130 0.00 0.00 0.00 2.90
1601 1627 4.908601 TTGCTCAAGAAGGGATAACTGA 57.091 40.909 0.00 0.00 0.00 3.41
1602 1628 4.201990 GCATTGCTCAAGAAGGGATAACTG 60.202 45.833 0.16 0.00 0.00 3.16
1603 1629 3.950395 GCATTGCTCAAGAAGGGATAACT 59.050 43.478 0.16 0.00 0.00 2.24
1604 1630 3.696051 TGCATTGCTCAAGAAGGGATAAC 59.304 43.478 10.49 0.00 0.00 1.89
1607 1633 2.519771 TGCATTGCTCAAGAAGGGAT 57.480 45.000 10.49 0.00 0.00 3.85
1609 1635 3.604875 AAATGCATTGCTCAAGAAGGG 57.395 42.857 13.82 0.00 0.00 3.95
1610 1636 5.717119 AGTTAAATGCATTGCTCAAGAAGG 58.283 37.500 13.82 0.00 0.00 3.46
1614 1640 5.927689 TCCAAAGTTAAATGCATTGCTCAAG 59.072 36.000 13.82 1.11 0.00 3.02
1622 1648 3.055891 GCCACCTCCAAAGTTAAATGCAT 60.056 43.478 0.00 0.00 0.00 3.96
1624 1650 2.562738 AGCCACCTCCAAAGTTAAATGC 59.437 45.455 0.00 0.00 0.00 3.56
1625 1651 4.764823 TGTAGCCACCTCCAAAGTTAAATG 59.235 41.667 0.00 0.00 0.00 2.32
1626 1652 4.993028 TGTAGCCACCTCCAAAGTTAAAT 58.007 39.130 0.00 0.00 0.00 1.40
1643 1669 1.552792 AGTTCTTCAGGAGCCTGTAGC 59.447 52.381 15.67 4.89 43.96 3.58
1646 1672 1.622811 CTCAGTTCTTCAGGAGCCTGT 59.377 52.381 15.67 0.00 43.96 4.00
1706 1732 3.181967 CGCCGTCTTTCTCGCCTG 61.182 66.667 0.00 0.00 0.00 4.85
1714 1740 0.949105 GATGACCACACGCCGTCTTT 60.949 55.000 0.00 0.00 0.00 2.52
1768 1794 2.709213 CTCTCAGCTCAAGGAAAAGGG 58.291 52.381 0.00 0.00 0.00 3.95
1769 1795 2.083002 GCTCTCAGCTCAAGGAAAAGG 58.917 52.381 0.00 0.00 38.45 3.11
1775 1801 2.037901 TCTATGGCTCTCAGCTCAAGG 58.962 52.381 0.00 0.00 41.99 3.61
1792 1818 1.271840 ACCTCCTGCGGCCAATTCTA 61.272 55.000 2.24 0.00 0.00 2.10
1801 1827 2.202932 CCAATCGACCTCCTGCGG 60.203 66.667 0.00 0.00 0.00 5.69
2023 2051 6.992063 ATCAAACTTCGCTCTGTTAATCAT 57.008 33.333 0.00 0.00 0.00 2.45
2079 2108 1.397672 TGATCTCCCTCAGCTCTTCG 58.602 55.000 0.00 0.00 0.00 3.79
2118 2147 3.696051 GCACTTGCATCTCCCTTATTGAA 59.304 43.478 0.00 0.00 41.59 2.69
2140 2169 0.530744 ACATTGCTTGCAGGCTCATG 59.469 50.000 22.31 22.82 33.16 3.07
2149 2178 1.142474 GTGCTTTCCACATTGCTTGC 58.858 50.000 0.00 0.00 44.06 4.01
2208 2237 3.071167 GGACTATTATCGGCTCAAACCCT 59.929 47.826 0.00 0.00 0.00 4.34
2211 2240 3.495001 GCTGGACTATTATCGGCTCAAAC 59.505 47.826 0.00 0.00 0.00 2.93
2232 2261 0.608035 TCCCAGACGACCCAAAATGC 60.608 55.000 0.00 0.00 0.00 3.56
2251 2280 6.320672 GTCCTCACAAATTCATCCATGATCTT 59.679 38.462 0.00 0.00 36.56 2.40
2316 2345 1.153349 GGGGTTTCTAGCCAGCTCG 60.153 63.158 0.00 0.00 43.97 5.03
2334 2363 3.123621 GCGACACAACCAAGATAACTCTG 59.876 47.826 0.00 0.00 0.00 3.35
2691 4465 1.336440 CGGCAACACATGAAGTTGGAA 59.664 47.619 25.61 0.00 44.88 3.53
2781 4558 2.488153 GAGGGCGCTAAGATGTTGTTTT 59.512 45.455 7.64 0.00 0.00 2.43
2784 4561 0.107654 GGAGGGCGCTAAGATGTTGT 60.108 55.000 7.64 0.00 0.00 3.32
2840 5115 0.898320 CTCAAGGAGAAGAAGGCGGA 59.102 55.000 0.00 0.00 0.00 5.54
2841 5116 0.610687 ACTCAAGGAGAAGAAGGCGG 59.389 55.000 0.00 0.00 33.32 6.13
2860 5135 6.183360 CCTTGATCGAAGAGAAGAAGGTCATA 60.183 42.308 0.00 0.00 43.63 2.15
2962 6246 2.546778 GTCAAGCGGTCCGATATCAAA 58.453 47.619 17.49 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.