Multiple sequence alignment - TraesCS3A01G512100

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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 TraesCS3A01G512100 chr3A 100.000 2417 0 0 1 2417 731894571 731892155 0.000000e+00 4464.0
1 TraesCS3A01G512100 chr3A 91.598 1452 85 10 127 1566 731844371 731842945 0.000000e+00 1971.0
2 TraesCS3A01G512100 chr3A 80.071 1400 201 46 152 1537 730851623 730850288 0.000000e+00 968.0
3 TraesCS3A01G512100 chr3A 86.013 765 63 15 1692 2417 731842955 731842196 0.000000e+00 780.0
4 TraesCS3A01G512100 chr3A 77.893 1158 175 54 513 1619 730905275 730904148 0.000000e+00 645.0
5 TraesCS3A01G512100 chr3A 89.589 365 37 1 157 521 730908439 730908076 1.690000e-126 462.0
6 TraesCS3A01G512100 chr3A 83.453 139 23 0 1770 1908 730850129 730849991 1.950000e-26 130.0
7 TraesCS3A01G512100 chr3D 94.891 1468 57 9 97 1560 602261647 602260194 0.000000e+00 2279.0
8 TraesCS3A01G512100 chr3D 94.872 702 25 3 1724 2417 602260187 602259489 0.000000e+00 1086.0
9 TraesCS3A01G512100 chr3D 78.916 1328 200 51 140 1441 602235124 602236397 0.000000e+00 828.0
10 TraesCS3A01G512100 chr3D 77.760 1223 194 46 426 1619 602210864 602212037 0.000000e+00 680.0
11 TraesCS3A01G512100 chr3D 79.954 434 80 4 1034 1467 597300787 597300361 1.800000e-81 313.0
12 TraesCS3A01G512100 chr3D 76.981 265 40 10 2157 2417 602212450 602212697 5.420000e-27 132.0
13 TraesCS3A01G512100 chr3D 88.158 76 9 0 2160 2235 597299736 597299661 9.200000e-15 91.6
14 TraesCS3A01G512100 chr3B 86.948 996 92 20 948 1913 809464312 809463325 0.000000e+00 1085.0
15 TraesCS3A01G512100 chr3B 86.858 662 72 12 157 806 809237463 809236805 0.000000e+00 726.0
16 TraesCS3A01G512100 chr3B 83.704 810 74 19 1128 1908 809509777 809508997 0.000000e+00 712.0
17 TraesCS3A01G512100 chr3B 86.922 497 59 6 127 620 809510278 809509785 9.760000e-154 553.0
18 TraesCS3A01G512100 chr3B 91.369 336 26 1 159 491 809347754 809348089 7.880000e-125 457.0
19 TraesCS3A01G512100 chr3B 83.333 492 53 21 1941 2417 809463252 809462775 6.180000e-116 427.0
20 TraesCS3A01G512100 chr3B 83.990 381 37 8 1966 2327 809503409 809503034 6.400000e-91 344.0
21 TraesCS3A01G512100 chr3B 74.903 514 72 25 1930 2406 809348972 809349465 5.310000e-42 182.0
22 TraesCS3A01G512100 chr3B 89.167 120 13 0 2298 2417 809503028 809502909 1.500000e-32 150.0
23 TraesCS3A01G512100 chr7A 78.356 1326 226 38 210 1497 11230329 11229027 0.000000e+00 802.0
24 TraesCS3A01G512100 chr7A 75.878 854 145 35 618 1441 11311819 11310997 1.750000e-101 379.0
25 TraesCS3A01G512100 chr7A 79.634 383 59 12 488 853 11346222 11345842 8.570000e-65 257.0
26 TraesCS3A01G512100 chr7D 77.159 1204 223 37 258 1441 11928845 11927674 0.000000e+00 652.0
27 TraesCS3A01G512100 chr7D 79.555 494 77 15 210 685 11727506 11727019 4.980000e-87 331.0
28 TraesCS3A01G512100 chr7D 85.816 141 16 3 1301 1441 11705731 11705595 1.940000e-31 147.0
29 TraesCS3A01G512100 chr7B 75.966 1294 248 44 240 1498 750116588 750115323 2.050000e-170 608.0
30 TraesCS3A01G512100 chr7B 82.828 99 15 2 3 99 587903704 587903606 1.190000e-13 87.9
31 TraesCS3A01G512100 chr4A 75.561 1293 228 51 238 1476 726107595 726108853 7.550000e-155 556.0
32 TraesCS3A01G512100 chr4A 76.307 861 138 43 610 1441 726073342 726074165 1.350000e-107 399.0
33 TraesCS3A01G512100 chr4A 75.775 516 98 19 932 1436 725864887 725865386 4.020000e-58 235.0
34 TraesCS3A01G512100 chr4A 78.390 236 23 19 2004 2230 726109728 726109944 7.010000e-26 128.0
35 TraesCS3A01G512100 chr5B 73.466 603 114 25 911 1497 672823195 672822623 4.100000e-43 185.0
36 TraesCS3A01G512100 chr6D 89.796 98 8 2 1 96 798285 798382 9.070000e-25 124.0
37 TraesCS3A01G512100 chr4D 82.979 94 15 1 3 95 435962504 435962411 1.540000e-12 84.2
38 TraesCS3A01G512100 chr6B 93.182 44 1 2 55 96 289303 289260 2.010000e-06 63.9


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 TraesCS3A01G512100 chr3A 731892155 731894571 2416 True 4464.0 4464 100.0000 1 2417 1 chr3A.!!$R1 2416
1 TraesCS3A01G512100 chr3A 731842196 731844371 2175 True 1375.5 1971 88.8055 127 2417 2 chr3A.!!$R4 2290
2 TraesCS3A01G512100 chr3A 730904148 730908439 4291 True 553.5 645 83.7410 157 1619 2 chr3A.!!$R3 1462
3 TraesCS3A01G512100 chr3A 730849991 730851623 1632 True 549.0 968 81.7620 152 1908 2 chr3A.!!$R2 1756
4 TraesCS3A01G512100 chr3D 602259489 602261647 2158 True 1682.5 2279 94.8815 97 2417 2 chr3D.!!$R2 2320
5 TraesCS3A01G512100 chr3D 602235124 602236397 1273 False 828.0 828 78.9160 140 1441 1 chr3D.!!$F1 1301
6 TraesCS3A01G512100 chr3D 602210864 602212697 1833 False 406.0 680 77.3705 426 2417 2 chr3D.!!$F2 1991
7 TraesCS3A01G512100 chr3D 597299661 597300787 1126 True 202.3 313 84.0560 1034 2235 2 chr3D.!!$R1 1201
8 TraesCS3A01G512100 chr3B 809462775 809464312 1537 True 756.0 1085 85.1405 948 2417 2 chr3B.!!$R2 1469
9 TraesCS3A01G512100 chr3B 809236805 809237463 658 True 726.0 726 86.8580 157 806 1 chr3B.!!$R1 649
10 TraesCS3A01G512100 chr3B 809508997 809510278 1281 True 632.5 712 85.3130 127 1908 2 chr3B.!!$R4 1781
11 TraesCS3A01G512100 chr3B 809347754 809349465 1711 False 319.5 457 83.1360 159 2406 2 chr3B.!!$F1 2247
12 TraesCS3A01G512100 chr3B 809502909 809503409 500 True 247.0 344 86.5785 1966 2417 2 chr3B.!!$R3 451
13 TraesCS3A01G512100 chr7A 11229027 11230329 1302 True 802.0 802 78.3560 210 1497 1 chr7A.!!$R1 1287
14 TraesCS3A01G512100 chr7A 11310997 11311819 822 True 379.0 379 75.8780 618 1441 1 chr7A.!!$R2 823
15 TraesCS3A01G512100 chr7D 11927674 11928845 1171 True 652.0 652 77.1590 258 1441 1 chr7D.!!$R3 1183
16 TraesCS3A01G512100 chr7B 750115323 750116588 1265 True 608.0 608 75.9660 240 1498 1 chr7B.!!$R2 1258
17 TraesCS3A01G512100 chr4A 726073342 726074165 823 False 399.0 399 76.3070 610 1441 1 chr4A.!!$F2 831
18 TraesCS3A01G512100 chr4A 726107595 726109944 2349 False 342.0 556 76.9755 238 2230 2 chr4A.!!$F3 1992

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
25 26 0.036765 GCCACGTCTGGTATGGTCAA 60.037 55.0 0.0 0.0 40.17 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1812 5161 2.157738 AGCAGAAACATGGAGCTGTTC 58.842 47.619 0.0 0.0 38.38 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
19 20 4.157120 GGGCGCCACGTCTGGTAT 62.157 66.667 30.85 0.00 40.17 2.73
20 21 2.890474 GGCGCCACGTCTGGTATG 60.890 66.667 24.80 0.00 40.17 2.39
21 22 2.890474 GCGCCACGTCTGGTATGG 60.890 66.667 0.00 0.00 40.17 2.74
22 23 2.577059 CGCCACGTCTGGTATGGT 59.423 61.111 0.00 0.00 40.17 3.55
23 24 1.518572 CGCCACGTCTGGTATGGTC 60.519 63.158 0.00 0.00 40.17 4.02
24 25 1.594833 GCCACGTCTGGTATGGTCA 59.405 57.895 0.00 0.00 40.17 4.02
25 26 0.036765 GCCACGTCTGGTATGGTCAA 60.037 55.000 0.00 0.00 40.17 3.18
26 27 1.722011 CCACGTCTGGTATGGTCAAC 58.278 55.000 0.00 0.00 32.03 3.18
27 28 1.674817 CCACGTCTGGTATGGTCAACC 60.675 57.143 0.00 0.00 37.53 3.77
28 29 0.611714 ACGTCTGGTATGGTCAACCC 59.388 55.000 0.00 0.00 36.06 4.11
29 30 0.107848 CGTCTGGTATGGTCAACCCC 60.108 60.000 0.00 0.00 36.06 4.95
30 31 0.107848 GTCTGGTATGGTCAACCCCG 60.108 60.000 0.00 0.00 36.06 5.73
31 32 0.545787 TCTGGTATGGTCAACCCCGT 60.546 55.000 0.00 0.00 36.06 5.28
32 33 0.392461 CTGGTATGGTCAACCCCGTG 60.392 60.000 0.00 0.00 36.06 4.94
33 34 0.836830 TGGTATGGTCAACCCCGTGA 60.837 55.000 0.00 0.00 36.06 4.35
34 35 0.392060 GGTATGGTCAACCCCGTGAC 60.392 60.000 0.00 0.00 45.99 3.67
38 39 2.418356 GTCAACCCCGTGACGTGA 59.582 61.111 3.64 0.00 38.68 4.35
39 40 1.227321 GTCAACCCCGTGACGTGAA 60.227 57.895 3.64 0.00 38.68 3.18
40 41 1.227321 TCAACCCCGTGACGTGAAC 60.227 57.895 3.64 0.00 0.00 3.18
41 42 1.227438 CAACCCCGTGACGTGAACT 60.227 57.895 3.64 0.00 0.00 3.01
42 43 1.227438 AACCCCGTGACGTGAACTG 60.227 57.895 3.64 0.00 0.00 3.16
43 44 1.963464 AACCCCGTGACGTGAACTGT 61.963 55.000 3.64 0.00 0.00 3.55
44 45 1.108727 ACCCCGTGACGTGAACTGTA 61.109 55.000 3.64 0.00 0.00 2.74
45 46 0.245539 CCCCGTGACGTGAACTGTAT 59.754 55.000 3.64 0.00 0.00 2.29
46 47 1.625616 CCCGTGACGTGAACTGTATC 58.374 55.000 3.64 0.00 0.00 2.24
47 48 1.625616 CCGTGACGTGAACTGTATCC 58.374 55.000 3.64 0.00 0.00 2.59
48 49 1.068125 CCGTGACGTGAACTGTATCCA 60.068 52.381 3.64 0.00 0.00 3.41
49 50 2.608506 CCGTGACGTGAACTGTATCCAA 60.609 50.000 3.64 0.00 0.00 3.53
50 51 2.407361 CGTGACGTGAACTGTATCCAAC 59.593 50.000 0.00 0.00 0.00 3.77
51 52 3.386486 GTGACGTGAACTGTATCCAACA 58.614 45.455 0.00 0.00 36.42 3.33
52 53 3.183775 GTGACGTGAACTGTATCCAACAC 59.816 47.826 0.00 0.00 33.45 3.32
53 54 3.181474 TGACGTGAACTGTATCCAACACA 60.181 43.478 0.00 0.00 33.45 3.72
54 55 3.799366 ACGTGAACTGTATCCAACACAA 58.201 40.909 0.00 0.00 33.45 3.33
55 56 4.385825 ACGTGAACTGTATCCAACACAAT 58.614 39.130 0.00 0.00 33.45 2.71
56 57 4.213270 ACGTGAACTGTATCCAACACAATG 59.787 41.667 0.00 0.00 33.45 2.82
57 58 4.213270 CGTGAACTGTATCCAACACAATGT 59.787 41.667 0.00 0.00 33.45 2.71
58 59 5.451908 GTGAACTGTATCCAACACAATGTG 58.548 41.667 12.40 12.40 39.75 3.21
59 60 4.518590 TGAACTGTATCCAACACAATGTGG 59.481 41.667 18.37 0.00 37.94 4.17
60 61 4.098914 ACTGTATCCAACACAATGTGGT 57.901 40.909 18.37 8.51 37.94 4.16
74 75 7.943413 CACAATGTGGTGTTTGATGAATAAA 57.057 32.000 5.29 0.00 34.09 1.40
75 76 8.009984 CACAATGTGGTGTTTGATGAATAAAG 57.990 34.615 5.29 0.00 34.09 1.85
76 77 7.652909 CACAATGTGGTGTTTGATGAATAAAGT 59.347 33.333 5.29 0.00 34.09 2.66
77 78 8.203485 ACAATGTGGTGTTTGATGAATAAAGTT 58.797 29.630 0.00 0.00 0.00 2.66
78 79 9.044150 CAATGTGGTGTTTGATGAATAAAGTTT 57.956 29.630 0.00 0.00 0.00 2.66
79 80 8.592105 ATGTGGTGTTTGATGAATAAAGTTTG 57.408 30.769 0.00 0.00 0.00 2.93
80 81 6.983307 TGTGGTGTTTGATGAATAAAGTTTGG 59.017 34.615 0.00 0.00 0.00 3.28
81 82 5.988561 TGGTGTTTGATGAATAAAGTTTGGC 59.011 36.000 0.00 0.00 0.00 4.52
82 83 6.183360 TGGTGTTTGATGAATAAAGTTTGGCT 60.183 34.615 0.00 0.00 0.00 4.75
83 84 6.705825 GGTGTTTGATGAATAAAGTTTGGCTT 59.294 34.615 0.00 0.00 39.52 4.35
84 85 7.870445 GGTGTTTGATGAATAAAGTTTGGCTTA 59.130 33.333 0.00 0.00 36.17 3.09
85 86 8.699749 GTGTTTGATGAATAAAGTTTGGCTTAC 58.300 33.333 0.00 0.00 36.17 2.34
86 87 7.870445 TGTTTGATGAATAAAGTTTGGCTTACC 59.130 33.333 0.00 0.00 36.17 2.85
87 88 6.524101 TGATGAATAAAGTTTGGCTTACCC 57.476 37.500 0.00 0.00 36.17 3.69
88 89 6.252995 TGATGAATAAAGTTTGGCTTACCCT 58.747 36.000 0.00 0.00 36.17 4.34
89 90 7.406916 TGATGAATAAAGTTTGGCTTACCCTA 58.593 34.615 0.00 0.00 36.17 3.53
90 91 7.891183 TGATGAATAAAGTTTGGCTTACCCTAA 59.109 33.333 0.00 0.00 36.17 2.69
91 92 8.658840 ATGAATAAAGTTTGGCTTACCCTAAA 57.341 30.769 0.00 0.00 36.17 1.85
92 93 8.480133 TGAATAAAGTTTGGCTTACCCTAAAA 57.520 30.769 0.00 0.00 36.17 1.52
93 94 8.925338 TGAATAAAGTTTGGCTTACCCTAAAAA 58.075 29.630 0.00 0.00 36.17 1.94
128 129 8.940952 TCCCCGCTCAAAAATAAAATAAAATTG 58.059 29.630 0.00 0.00 0.00 2.32
599 3454 2.510918 GCAGCTCTCATCTGCGCA 60.511 61.111 10.98 10.98 45.99 6.09
766 3638 2.127869 CGGCGAGGATGAGGAGGAA 61.128 63.158 0.00 0.00 0.00 3.36
809 3683 0.387622 CTTGGTGCAATGCAGAACGG 60.388 55.000 8.73 0.00 40.08 4.44
884 3767 1.079543 GATCTGTGGAGTGCTGCGT 60.080 57.895 0.00 0.00 0.00 5.24
886 3769 1.539560 ATCTGTGGAGTGCTGCGTCT 61.540 55.000 0.00 0.00 0.00 4.18
1104 4023 0.393402 TGCTTGGAATGCTCGCTGAT 60.393 50.000 0.00 0.00 37.94 2.90
1280 4211 4.743057 TGTACATCACATCTTCTGGAGG 57.257 45.455 0.00 0.00 30.04 4.30
1339 4270 2.198406 CGTTTCAGGTCGAGTTGTTCA 58.802 47.619 0.00 0.00 0.00 3.18
1569 4595 3.193903 ACGGTTAATTATTGTTGGTGGGC 59.806 43.478 0.00 0.00 0.00 5.36
1621 4648 2.309613 TGTGCAATTGGAAGCTCAGTT 58.690 42.857 7.72 0.00 31.49 3.16
1622 4649 2.694628 TGTGCAATTGGAAGCTCAGTTT 59.305 40.909 7.72 0.00 31.49 2.66
1623 4650 3.054878 GTGCAATTGGAAGCTCAGTTTG 58.945 45.455 7.72 0.00 0.00 2.93
1624 4651 2.957680 TGCAATTGGAAGCTCAGTTTGA 59.042 40.909 7.72 0.00 0.00 2.69
1657 4699 9.353999 GATTTGTTATCACCATTTTGAGGTTAC 57.646 33.333 0.00 0.00 37.23 2.50
1663 4705 4.040706 TCACCATTTTGAGGTTACCGTACT 59.959 41.667 0.00 0.00 37.23 2.73
1711 4753 6.936900 TGCTGATATTTTAGTAATCCAGAGCC 59.063 38.462 0.00 0.00 0.00 4.70
1734 4776 4.400567 CCCCCTTGCTCTTGAAATTTCTAG 59.599 45.833 19.69 19.69 0.00 2.43
1788 4883 8.472007 TCCTTCATTTTTATGTGTAACCTGTT 57.528 30.769 0.00 0.00 34.36 3.16
2146 5897 5.104982 ACTGAGCTTTTGAATTTGTTTCCCA 60.105 36.000 0.00 0.00 33.04 4.37
2329 6159 6.054860 ACCTCACTGTAGTGCATTCTTATT 57.945 37.500 7.14 0.00 45.25 1.40
2376 6208 8.065473 ACCATATGCACACATAGAAATTTCAA 57.935 30.769 19.99 0.00 41.97 2.69
2378 6210 7.436080 CCATATGCACACATAGAAATTTCAACC 59.564 37.037 19.99 0.00 41.97 3.77
2406 6238 1.030488 GCTGCCATGTGCTCATCAGT 61.030 55.000 15.04 0.00 42.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.674817 GGTTGACCATACCAGACGTGG 60.675 57.143 0.00 0.00 42.28 4.94
10 11 0.107848 GGGGTTGACCATACCAGACG 60.108 60.000 2.12 0.00 42.91 4.18
11 12 0.107848 CGGGGTTGACCATACCAGAC 60.108 60.000 2.12 0.00 42.91 3.51
12 13 0.545787 ACGGGGTTGACCATACCAGA 60.546 55.000 2.12 0.00 42.91 3.86
13 14 0.392461 CACGGGGTTGACCATACCAG 60.392 60.000 2.12 0.00 42.91 4.00
14 15 0.836830 TCACGGGGTTGACCATACCA 60.837 55.000 2.12 0.00 42.91 3.25
15 16 0.392060 GTCACGGGGTTGACCATACC 60.392 60.000 2.12 0.00 40.15 2.73
16 17 0.738412 CGTCACGGGGTTGACCATAC 60.738 60.000 2.12 0.00 42.63 2.39
17 18 1.186917 ACGTCACGGGGTTGACCATA 61.187 55.000 0.35 0.00 42.63 2.74
18 19 2.345991 CGTCACGGGGTTGACCAT 59.654 61.111 2.12 0.00 42.63 3.55
19 20 3.155861 ACGTCACGGGGTTGACCA 61.156 61.111 0.35 0.00 42.63 4.02
20 21 2.647680 TTCACGTCACGGGGTTGACC 62.648 60.000 0.00 0.00 42.63 4.02
21 22 1.227321 TTCACGTCACGGGGTTGAC 60.227 57.895 0.00 0.00 42.24 3.18
22 23 1.227321 GTTCACGTCACGGGGTTGA 60.227 57.895 0.00 0.00 0.00 3.18
23 24 1.227438 AGTTCACGTCACGGGGTTG 60.227 57.895 0.00 0.00 0.00 3.77
24 25 1.227438 CAGTTCACGTCACGGGGTT 60.227 57.895 0.00 0.00 0.00 4.11
25 26 1.108727 TACAGTTCACGTCACGGGGT 61.109 55.000 0.00 0.00 0.00 4.95
26 27 0.245539 ATACAGTTCACGTCACGGGG 59.754 55.000 0.00 0.00 0.00 5.73
27 28 1.625616 GATACAGTTCACGTCACGGG 58.374 55.000 0.35 0.00 0.00 5.28
28 29 1.068125 TGGATACAGTTCACGTCACGG 60.068 52.381 0.35 0.00 46.17 4.94
29 30 2.341318 TGGATACAGTTCACGTCACG 57.659 50.000 0.00 0.00 46.17 4.35
50 51 7.652909 ACTTTATTCATCAAACACCACATTGTG 59.347 33.333 9.92 9.92 42.05 3.33
51 52 7.725251 ACTTTATTCATCAAACACCACATTGT 58.275 30.769 0.00 0.00 0.00 2.71
52 53 8.592105 AACTTTATTCATCAAACACCACATTG 57.408 30.769 0.00 0.00 0.00 2.82
53 54 9.044150 CAAACTTTATTCATCAAACACCACATT 57.956 29.630 0.00 0.00 0.00 2.71
54 55 7.656948 CCAAACTTTATTCATCAAACACCACAT 59.343 33.333 0.00 0.00 0.00 3.21
55 56 6.983307 CCAAACTTTATTCATCAAACACCACA 59.017 34.615 0.00 0.00 0.00 4.17
56 57 6.073819 GCCAAACTTTATTCATCAAACACCAC 60.074 38.462 0.00 0.00 0.00 4.16
57 58 5.988561 GCCAAACTTTATTCATCAAACACCA 59.011 36.000 0.00 0.00 0.00 4.17
58 59 6.223120 AGCCAAACTTTATTCATCAAACACC 58.777 36.000 0.00 0.00 0.00 4.16
59 60 7.713764 AAGCCAAACTTTATTCATCAAACAC 57.286 32.000 0.00 0.00 33.71 3.32
60 61 7.870445 GGTAAGCCAAACTTTATTCATCAAACA 59.130 33.333 0.00 0.00 39.97 2.83
61 62 7.330946 GGGTAAGCCAAACTTTATTCATCAAAC 59.669 37.037 0.00 0.00 39.97 2.93
62 63 7.234577 AGGGTAAGCCAAACTTTATTCATCAAA 59.765 33.333 0.00 0.00 39.97 2.69
63 64 6.723977 AGGGTAAGCCAAACTTTATTCATCAA 59.276 34.615 0.00 0.00 39.97 2.57
64 65 6.252995 AGGGTAAGCCAAACTTTATTCATCA 58.747 36.000 0.00 0.00 39.97 3.07
65 66 6.775594 AGGGTAAGCCAAACTTTATTCATC 57.224 37.500 0.00 0.00 39.97 2.92
66 67 8.658840 TTTAGGGTAAGCCAAACTTTATTCAT 57.341 30.769 0.00 0.00 39.97 2.57
67 68 8.480133 TTTTAGGGTAAGCCAAACTTTATTCA 57.520 30.769 0.00 0.00 39.97 2.57
91 92 1.228862 AGCGGGGACAGGCATTTTT 60.229 52.632 0.00 0.00 0.00 1.94
92 93 1.678970 GAGCGGGGACAGGCATTTT 60.679 57.895 0.00 0.00 0.00 1.82
93 94 2.044946 GAGCGGGGACAGGCATTT 60.045 61.111 0.00 0.00 0.00 2.32
94 95 2.424842 TTTGAGCGGGGACAGGCATT 62.425 55.000 0.00 0.00 0.00 3.56
95 96 2.424842 TTTTGAGCGGGGACAGGCAT 62.425 55.000 0.00 0.00 0.00 4.40
322 338 2.748647 TCGGTGATGAGACGGCGA 60.749 61.111 16.62 0.00 0.00 5.54
599 3454 3.994931 AAAATAGCGGTACTGGAGGTT 57.005 42.857 3.34 0.00 0.00 3.50
766 3638 3.199946 ACATGACCCTGAATGATAACGGT 59.800 43.478 0.00 0.00 0.00 4.83
809 3683 4.295051 GAGAAGACGAGAAGCACCATATC 58.705 47.826 0.00 0.00 0.00 1.63
884 3767 2.983192 TGGGGTGTTTAAGTGGATCAGA 59.017 45.455 0.00 0.00 0.00 3.27
886 3769 3.499563 CCTTGGGGTGTTTAAGTGGATCA 60.500 47.826 0.00 0.00 0.00 2.92
914 3818 2.675844 ACGAACTGACGATCTGAGAGAG 59.324 50.000 0.00 0.00 37.03 3.20
915 3819 2.673862 GACGAACTGACGATCTGAGAGA 59.326 50.000 0.00 0.00 37.03 3.10
960 3870 0.251341 CCAACTTGTTCAGGAGGGGG 60.251 60.000 0.00 0.00 0.00 5.40
1104 4023 9.768215 TCATATATGTTATCCCTGTCATAGACA 57.232 33.333 12.42 0.00 40.50 3.41
1280 4211 2.963599 TAACCCAAACTTCACCTCCC 57.036 50.000 0.00 0.00 0.00 4.30
1323 4254 2.795175 GAGTGAACAACTCGACCTGA 57.205 50.000 0.00 0.00 45.76 3.86
1339 4270 2.232452 AGATGACTTTGCTACGCTGAGT 59.768 45.455 0.00 0.00 0.00 3.41
1657 4699 6.750148 AGAGGCTTCTGATTTATTAGTACGG 58.250 40.000 0.00 0.00 30.72 4.02
1663 4705 7.394359 AGCAACAAAGAGGCTTCTGATTTATTA 59.606 33.333 0.00 0.00 33.21 0.98
1711 4753 3.168292 AGAAATTTCAAGAGCAAGGGGG 58.832 45.455 19.99 0.00 0.00 5.40
1812 5161 2.157738 AGCAGAAACATGGAGCTGTTC 58.842 47.619 0.00 0.00 38.38 3.18
2121 5596 5.463392 GGGAAACAAATTCAAAAGCTCAGTC 59.537 40.000 0.00 0.00 39.98 3.51
2146 5897 4.460263 TGATACAGCAACACTTTTGACCT 58.540 39.130 0.00 0.00 0.00 3.85
2278 6072 9.952030 TGCATTCGAGGAACCAATTTATATATA 57.048 29.630 0.00 0.00 0.00 0.86
2279 6073 8.862325 TGCATTCGAGGAACCAATTTATATAT 57.138 30.769 0.00 0.00 0.00 0.86
2280 6074 8.684386 TTGCATTCGAGGAACCAATTTATATA 57.316 30.769 0.00 0.00 0.00 0.86
2281 6075 7.581213 TTGCATTCGAGGAACCAATTTATAT 57.419 32.000 0.00 0.00 0.00 0.86
2282 6076 7.254852 GTTTGCATTCGAGGAACCAATTTATA 58.745 34.615 0.00 0.00 0.00 0.98
2329 6159 7.570132 TGGTTAAGCAGCCTAGAATTTATACA 58.430 34.615 2.54 0.00 0.00 2.29
2337 6167 4.141505 TGCATATGGTTAAGCAGCCTAGAA 60.142 41.667 13.51 0.00 29.28 2.10


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

AutoCloner maintained by Alex Coulton.