Multiple sequence alignment - TraesCS7D01G491200

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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 TraesCS7D01G491200 chr7D 100.000 3846 0 0 1 3846 600704646 600700801 0.000000e+00 7103.0
1 TraesCS7D01G491200 chr7D 84.507 710 96 5 2275 2970 600755570 600756279 0.000000e+00 689.0
2 TraesCS7D01G491200 chr7D 81.908 807 112 24 2034 2818 600874707 600875501 0.000000e+00 651.0
3 TraesCS7D01G491200 chr7D 88.753 489 41 7 991 1476 600748471 600748948 1.540000e-163 586.0
4 TraesCS7D01G491200 chr7D 92.105 228 18 0 1314 1541 600873917 600874144 4.790000e-84 322.0
5 TraesCS7D01G491200 chr7D 93.651 189 12 0 2044 2232 600754025 600754213 2.260000e-72 283.0
6 TraesCS7D01G491200 chr7D 84.191 272 35 5 1604 1873 600753691 600753956 1.370000e-64 257.0
7 TraesCS7D01G491200 chr7D 84.706 170 24 2 2051 2219 17760415 17760247 6.610000e-38 169.0
8 TraesCS7D01G491200 chr7D 88.889 126 14 0 1084 1209 600873691 600873816 5.140000e-34 156.0
9 TraesCS7D01G491200 chr7B 89.099 1908 104 43 1 1851 679932013 679930153 0.000000e+00 2276.0
10 TraesCS7D01G491200 chr7B 92.491 1172 82 5 1984 3149 679930088 679928917 0.000000e+00 1672.0
11 TraesCS7D01G491200 chr7B 88.047 686 81 1 2275 2959 679998371 679997686 0.000000e+00 811.0
12 TraesCS7D01G491200 chr7B 82.353 816 108 24 2027 2819 680096622 680097424 0.000000e+00 676.0
13 TraesCS7D01G491200 chr7B 89.643 280 20 4 990 1265 679986838 679987112 7.910000e-92 348.0
14 TraesCS7D01G491200 chr7B 90.000 260 17 7 1288 1545 679987233 679987485 1.030000e-85 327.0
15 TraesCS7D01G491200 chr7B 88.846 260 25 3 1600 1859 680004263 680004008 2.230000e-82 316.0
16 TraesCS7D01G491200 chr7B 94.146 205 12 0 1314 1518 680095795 680095999 2.880000e-81 313.0
17 TraesCS7D01G491200 chr7B 92.632 190 13 1 2044 2232 679987819 679988008 4.900000e-69 272.0
18 TraesCS7D01G491200 chr7B 83.395 271 36 5 1604 1871 679987488 679987752 3.840000e-60 243.0
19 TraesCS7D01G491200 chr7B 89.683 126 13 0 1084 1209 680095603 680095728 1.110000e-35 161.0
20 TraesCS7D01G491200 chr7B 78.947 209 41 3 3213 3420 15930314 15930108 5.180000e-29 139.0
21 TraesCS7D01G491200 chr7A 96.734 1194 30 6 1938 3125 692522400 692521210 0.000000e+00 1980.0
22 TraesCS7D01G491200 chr7A 85.909 1611 97 73 378 1919 692524031 692522482 0.000000e+00 1598.0
23 TraesCS7D01G491200 chr7A 93.690 729 35 5 3129 3846 692520448 692519720 0.000000e+00 1081.0
24 TraesCS7D01G491200 chr7A 87.172 686 87 1 2275 2959 692615694 692615009 0.000000e+00 778.0
25 TraesCS7D01G491200 chr7A 83.231 817 115 10 2275 3076 692613514 692614323 0.000000e+00 730.0
26 TraesCS7D01G491200 chr7A 82.536 418 45 11 841 1239 692617335 692616927 3.680000e-90 342.0
27 TraesCS7D01G491200 chr7A 86.293 321 29 8 1965 2274 692616054 692615738 6.160000e-88 335.0
28 TraesCS7D01G491200 chr7A 86.129 310 31 7 1 300 692524496 692524189 1.330000e-84 324.0
29 TraesCS7D01G491200 chr7A 93.909 197 12 0 1315 1511 692616817 692616621 8.080000e-77 298.0
30 TraesCS7D01G491200 chr7A 86.090 266 32 3 1607 1871 692612919 692613180 8.130000e-72 281.0
31 TraesCS7D01G491200 chr7A 90.865 208 16 1 1314 1518 692762408 692762615 3.780000e-70 276.0
32 TraesCS7D01G491200 chr7A 92.147 191 13 1 2044 2232 692613248 692613438 6.330000e-68 268.0
33 TraesCS7D01G491200 chr7A 93.007 143 10 0 1717 1859 692616259 692616117 3.890000e-50 209.0
34 TraesCS7D01G491200 chr7A 83.051 177 27 3 2044 2219 17267892 17267718 1.430000e-34 158.0
35 TraesCS7D01G491200 chr7A 89.516 124 13 0 1086 1209 692796878 692797001 1.430000e-34 158.0
36 TraesCS7D01G491200 chr4A 82.081 519 88 5 2304 2818 715639159 715638642 4.560000e-119 438.0
37 TraesCS7D01G491200 chr4A 92.174 115 7 2 1100 1213 715912711 715912824 1.110000e-35 161.0
38 TraesCS7D01G491200 chr4D 89.730 185 19 0 1319 1503 456047318 456047502 1.790000e-58 237.0
39 TraesCS7D01G491200 chr1B 79.608 255 43 8 3207 3459 657500957 657501204 1.420000e-39 174.0
40 TraesCS7D01G491200 chr1B 93.878 49 2 1 3684 3731 357412798 357412750 5.330000e-09 73.1
41 TraesCS7D01G491200 chr2D 86.441 118 16 0 3129 3246 647402950 647403067 3.120000e-26 130.0
42 TraesCS7D01G491200 chr2A 85.593 118 17 0 3129 3246 773109065 773108948 1.450000e-24 124.0
43 TraesCS7D01G491200 chr6B 81.250 144 23 4 3216 3358 699088683 699088543 3.140000e-21 113.0
44 TraesCS7D01G491200 chr4B 78.519 135 24 4 3313 3445 200651681 200651550 2.460000e-12 84.2


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 TraesCS7D01G491200 chr7D 600700801 600704646 3845 True 7103.000000 7103 100.000000 1 3846 1 chr7D.!!$R2 3845
1 TraesCS7D01G491200 chr7D 600753691 600756279 2588 False 409.666667 689 87.449667 1604 2970 3 chr7D.!!$F2 1366
2 TraesCS7D01G491200 chr7D 600873691 600875501 1810 False 376.333333 651 87.634000 1084 2818 3 chr7D.!!$F3 1734
3 TraesCS7D01G491200 chr7B 679928917 679932013 3096 True 1974.000000 2276 90.795000 1 3149 2 chr7B.!!$R4 3148
4 TraesCS7D01G491200 chr7B 679997686 679998371 685 True 811.000000 811 88.047000 2275 2959 1 chr7B.!!$R2 684
5 TraesCS7D01G491200 chr7B 680095603 680097424 1821 False 383.333333 676 88.727333 1084 2819 3 chr7B.!!$F2 1735
6 TraesCS7D01G491200 chr7B 679986838 679988008 1170 False 297.500000 348 88.917500 990 2232 4 chr7B.!!$F1 1242
7 TraesCS7D01G491200 chr7A 692519720 692524496 4776 True 1245.750000 1980 90.615500 1 3846 4 chr7A.!!$R2 3845
8 TraesCS7D01G491200 chr7A 692612919 692614323 1404 False 426.333333 730 87.156000 1607 3076 3 chr7A.!!$F3 1469
9 TraesCS7D01G491200 chr7A 692615009 692617335 2326 True 392.400000 778 88.583400 841 2959 5 chr7A.!!$R3 2118
10 TraesCS7D01G491200 chr4A 715638642 715639159 517 True 438.000000 438 82.081000 2304 2818 1 chr4A.!!$R1 514

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
698 836 0.384725 CTGCCGCTCGTGTTTTCTTG 60.385 55.000 0.00 0.0 0.0 3.02 F
1369 1725 1.202177 GCGGATTACTTCGACGTGGTA 60.202 52.381 4.57 0.0 0.0 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 3232 0.040067 CTTGCCGTCTTTGTCCTTGC 60.040 55.0 0.0 0.0 0.0 4.01 R
3150 6359 0.616679 ACCATGTACGGCACCCTACT 60.617 55.0 0.0 0.0 0.0 2.57 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
53 54 1.645034 CGTGAGTGCCGATTCTGATT 58.355 50.000 0.00 0.00 0.00 2.57
154 168 3.312421 CACGGCGTTTCTTATGATTGGAT 59.688 43.478 11.19 0.00 0.00 3.41
182 196 3.285484 GGACTCATCCACATGAAGCAAT 58.715 45.455 0.00 0.00 45.47 3.56
262 281 1.781786 ATGTGCCTCGTCATACTCCT 58.218 50.000 0.00 0.00 0.00 3.69
331 387 9.842775 ATGATATATACTTCCTCCGTCGTATAA 57.157 33.333 0.00 0.00 31.07 0.98
332 388 9.842775 TGATATATACTTCCTCCGTCGTATAAT 57.157 33.333 0.00 0.00 31.07 1.28
375 477 6.624423 ACACCTACGAAGATTATACAAACGT 58.376 36.000 0.00 0.00 36.52 3.99
388 490 8.948631 ATTATACAAACGTGATCTCACTGAAT 57.051 30.769 8.57 0.00 44.34 2.57
389 491 8.771920 TTATACAAACGTGATCTCACTGAATT 57.228 30.769 8.57 0.00 44.34 2.17
421 523 9.284968 CTATAAAAAGGAACCAAAACTCTCTCA 57.715 33.333 0.00 0.00 0.00 3.27
484 590 0.393673 GCTCTTTGGGGGAGAAGCTC 60.394 60.000 0.00 0.00 33.03 4.09
499 613 1.143183 GCTCCCCAAATACGAGCGA 59.857 57.895 0.00 0.00 39.64 4.93
522 636 1.067565 GCTCATCCGATATTCCAGCGA 60.068 52.381 0.00 0.00 38.68 4.93
530 644 0.736636 ATATTCCAGCGACGACGACA 59.263 50.000 12.29 0.00 42.66 4.35
558 674 2.699073 TCGAATACCGACGAGAGGG 58.301 57.895 0.00 0.00 43.23 4.30
567 683 2.167900 ACCGACGAGAGGGAAAAATAGG 59.832 50.000 0.00 0.00 0.00 2.57
631 747 4.559704 CGAAGACTGAAGAAAGCTAGTGGT 60.560 45.833 0.00 0.00 0.00 4.16
640 756 2.182516 AAGCTAGTGGTAGGCAGGAT 57.817 50.000 0.00 0.00 0.00 3.24
657 773 1.485066 GGATAGGACTGGAAAAGCGGA 59.515 52.381 0.00 0.00 0.00 5.54
659 775 3.606687 GATAGGACTGGAAAAGCGGAAA 58.393 45.455 0.00 0.00 0.00 3.13
660 776 1.897560 AGGACTGGAAAAGCGGAAAG 58.102 50.000 0.00 0.00 0.00 2.62
664 780 0.890683 CTGGAAAAGCGGAAAGGCAT 59.109 50.000 0.00 0.00 34.64 4.40
696 834 2.607892 GCTGCCGCTCGTGTTTTCT 61.608 57.895 0.00 0.00 0.00 2.52
698 836 0.384725 CTGCCGCTCGTGTTTTCTTG 60.385 55.000 0.00 0.00 0.00 3.02
745 883 2.667318 CGTGCACGATGCTTTCCGT 61.667 57.895 34.93 0.00 45.31 4.69
757 895 1.361668 CTTTCCGTGGCCATCGTCAG 61.362 60.000 9.72 6.23 0.00 3.51
773 911 4.050934 AGGTCGATGACGTGCGCA 62.051 61.111 5.66 5.66 40.69 6.09
822 960 6.564709 TCCATGATTTCAACTTCTTCAGTG 57.435 37.500 0.00 0.00 35.12 3.66
829 967 2.092968 TCAACTTCTTCAGTGGCACTGT 60.093 45.455 38.27 21.26 46.03 3.55
830 968 2.246719 ACTTCTTCAGTGGCACTGTC 57.753 50.000 38.27 6.11 46.03 3.51
839 977 2.113986 GGCACTGTCCCACTTGCT 59.886 61.111 0.00 0.00 35.24 3.91
875 1039 4.415332 GGCGACCGAAGAGCACGA 62.415 66.667 0.00 0.00 0.00 4.35
876 1040 3.173240 GCGACCGAAGAGCACGAC 61.173 66.667 0.00 0.00 0.00 4.34
885 1049 2.955402 GAGCACGACTCGGACAGT 59.045 61.111 2.98 0.00 38.45 3.55
886 1050 1.442857 GAGCACGACTCGGACAGTG 60.443 63.158 2.98 0.00 34.41 3.66
887 1051 2.131294 GAGCACGACTCGGACAGTGT 62.131 60.000 0.00 0.00 34.41 3.55
888 1052 1.729838 GCACGACTCGGACAGTGTC 60.730 63.158 15.24 15.24 39.32 3.67
912 1076 2.600792 CGAGCGCATCCATTTAAAGCTC 60.601 50.000 11.47 11.39 44.14 4.09
1306 1649 3.311322 TCGGTACAAATCGGCAATGAATC 59.689 43.478 0.00 0.00 0.00 2.52
1310 1653 3.758300 ACAAATCGGCAATGAATCGTTC 58.242 40.909 0.00 0.00 0.00 3.95
1312 1655 1.651987 ATCGGCAATGAATCGTTCGT 58.348 45.000 0.00 0.00 0.00 3.85
1369 1725 1.202177 GCGGATTACTTCGACGTGGTA 60.202 52.381 4.57 0.00 0.00 3.25
1519 2109 3.553096 CCGTCTGGTGAGGATTACATAGC 60.553 52.174 0.00 0.00 0.00 2.97
1897 2902 1.468054 GGCATGTCATCCGCTTGTTTC 60.468 52.381 0.00 0.00 0.00 2.78
1920 2925 9.613957 TTTCGCTTGTCATTATTTTTCGATAAA 57.386 25.926 3.47 3.47 0.00 1.40
1921 2926 9.613957 TTCGCTTGTCATTATTTTTCGATAAAA 57.386 25.926 5.13 6.56 32.75 1.52
1922 2927 9.272901 TCGCTTGTCATTATTTTTCGATAAAAG 57.727 29.630 5.13 0.00 36.02 2.27
1923 2928 9.061610 CGCTTGTCATTATTTTTCGATAAAAGT 57.938 29.630 5.13 0.00 36.02 2.66
1973 3040 8.554870 ACGGAGGGAGTAGTATATATGATTGTA 58.445 37.037 0.00 0.00 0.00 2.41
1974 3041 9.058174 CGGAGGGAGTAGTATATATGATTGTAG 57.942 40.741 0.00 0.00 0.00 2.74
1992 3062 2.001812 AGTCAAGCTATGCAGTGACG 57.998 50.000 15.53 0.00 44.69 4.35
2149 3232 1.815421 CCGGCCACCATTTCGAGAG 60.815 63.158 2.24 0.00 0.00 3.20
2186 3271 1.971695 GACCCGGGCTTTCAACCTG 60.972 63.158 24.08 0.00 0.00 4.00
2416 4839 2.601240 TGATCCTTTCATTGGGCACA 57.399 45.000 0.00 0.00 0.00 4.57
2580 5009 0.322008 GTGCTCTTTCAGGTCCTGGG 60.322 60.000 19.11 9.60 31.51 4.45
2608 5037 2.630098 CAAGAGCTATCTCCGGATCCAA 59.370 50.000 13.41 0.00 40.22 3.53
2716 5145 2.564771 CTGAAGAGACAGGTGTGCAAA 58.435 47.619 0.00 0.00 34.64 3.68
2771 5203 3.991536 GAGAGGGGCACGAACGAGC 62.992 68.421 7.97 7.97 0.00 5.03
3101 5551 5.006746 GGATGTCCGCTCTACTGTAATTTTG 59.993 44.000 0.00 0.00 0.00 2.44
3127 6336 1.337821 CTCCGTTTCTACGTGACAGC 58.662 55.000 0.00 0.00 46.20 4.40
3150 6359 2.230508 CGCAAAGTAGTCAGTACCCTCA 59.769 50.000 0.00 0.00 31.06 3.86
3211 6420 0.307760 GCACGCACAATATACCCAGC 59.692 55.000 0.00 0.00 0.00 4.85
3284 6493 3.572642 TCATGGTGGGTATATCTCGTGT 58.427 45.455 0.00 0.00 0.00 4.49
3336 6545 4.562963 GCTACCGGGAGTTTATTCTATGGG 60.563 50.000 17.06 0.00 0.00 4.00
3365 6574 1.403687 GGATGAGAGCCCGTTAGCCT 61.404 60.000 0.00 0.00 0.00 4.58
3366 6575 0.032815 GATGAGAGCCCGTTAGCCTC 59.967 60.000 0.00 0.00 33.34 4.70
3367 6576 1.739338 ATGAGAGCCCGTTAGCCTCG 61.739 60.000 0.00 0.00 34.62 4.63
3379 6589 5.388944 CCGTTAGCCTCGTCTTATATACAC 58.611 45.833 0.00 0.00 0.00 2.90
3461 6671 1.602771 GGGGCCAAGGTAGTCTCAC 59.397 63.158 4.39 0.00 0.00 3.51
3480 6690 7.068839 AGTCTCACGGATGTATGTCTATTCTTT 59.931 37.037 0.00 0.00 0.00 2.52
3484 6694 5.130477 ACGGATGTATGTCTATTCTTTGGGT 59.870 40.000 0.00 0.00 0.00 4.51
3610 6830 1.113517 GTAGCCCCCGAGCATGTCTA 61.114 60.000 0.00 0.00 34.23 2.59
3613 6833 1.742768 CCCCCGAGCATGTCTAGAC 59.257 63.158 16.32 16.32 0.00 2.59
3645 6865 1.479323 TCGATTTTCGAGAACCCGGAT 59.521 47.619 0.73 0.00 44.82 4.18
3647 6867 1.940613 GATTTTCGAGAACCCGGATGG 59.059 52.381 0.73 0.00 41.37 3.51
3659 6879 0.820891 CCGGATGGGCTCCTGATTTG 60.821 60.000 0.00 0.00 42.47 2.32
3665 6885 1.452108 GGCTCCTGATTTGGGACCG 60.452 63.158 0.00 0.00 0.00 4.79
3680 6900 4.924019 CCGGTTGAATCGGCACTA 57.076 55.556 3.02 0.00 41.07 2.74
3736 6956 5.183331 GGTAGGAATTTTGAGGGTTTGAGTC 59.817 44.000 0.00 0.00 0.00 3.36
3754 6974 8.623030 GTTTGAGTCTAGACGGTAAATCTCTAT 58.377 37.037 17.07 0.00 36.20 1.98
3770 6990 7.763172 AATCTCTATTTCAAGCTTGTAGTCG 57.237 36.000 25.19 9.71 0.00 4.18
3818 7038 1.915769 AGGCTGAGAAACCCTCGCT 60.916 57.895 0.00 0.00 44.92 4.93
3833 7053 0.106708 TCGCTACCATCTCCAATGCC 59.893 55.000 0.00 0.00 0.00 4.40
3835 7055 1.602311 GCTACCATCTCCAATGCCTG 58.398 55.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 9.308000 ACAATTCATTACCCACTTTTGATCTTA 57.692 29.630 0.00 0.00 0.00 2.10
95 96 7.451255 TCACAATTCATTACCCACTTTTGATCT 59.549 33.333 0.00 0.00 0.00 2.75
118 121 2.358737 CGTGCTCCCCCAAGTCAC 60.359 66.667 0.00 0.00 0.00 3.67
138 144 9.788960 GTCCACTTAAATCCAATCATAAGAAAC 57.211 33.333 0.00 0.00 0.00 2.78
262 281 3.376540 GGCACGCATGAACTTTGTAAAA 58.623 40.909 0.00 0.00 0.00 1.52
389 491 9.674068 AGTTTTGGTTCCTTTTTATAGCAAAAA 57.326 25.926 11.18 0.00 44.47 1.94
421 523 6.353323 TGATGATATTCCCACGTAATTGTGT 58.647 36.000 0.00 0.00 38.20 3.72
484 590 2.237751 CGCTCGCTCGTATTTGGGG 61.238 63.158 0.00 0.00 0.00 4.96
499 613 0.969149 TGGAATATCGGATGAGCGCT 59.031 50.000 11.27 11.27 0.00 5.92
522 636 3.435030 AACCCGTTGCTGTCGTCGT 62.435 57.895 0.00 0.00 0.00 4.34
530 644 0.738412 CGGTATTCGAACCCGTTGCT 60.738 55.000 23.22 0.03 42.43 3.91
551 665 3.532542 GACACCCTATTTTTCCCTCTCG 58.467 50.000 0.00 0.00 0.00 4.04
552 666 3.532542 CGACACCCTATTTTTCCCTCTC 58.467 50.000 0.00 0.00 0.00 3.20
553 667 2.355818 GCGACACCCTATTTTTCCCTCT 60.356 50.000 0.00 0.00 0.00 3.69
558 674 3.062234 CGAGAAGCGACACCCTATTTTTC 59.938 47.826 0.00 0.00 44.57 2.29
567 683 1.513586 CGTACCGAGAAGCGACACC 60.514 63.158 0.00 0.00 44.57 4.16
631 747 3.414759 TTTCCAGTCCTATCCTGCCTA 57.585 47.619 0.00 0.00 0.00 3.93
640 756 2.290071 CCTTTCCGCTTTTCCAGTCCTA 60.290 50.000 0.00 0.00 0.00 2.94
696 834 1.201414 CACTGATGCTGATGCTTGCAA 59.799 47.619 0.00 0.00 42.74 4.08
698 836 3.624305 CACTGATGCTGATGCTTGC 57.376 52.632 0.00 0.00 40.48 4.01
745 883 2.678580 TCGACCTGACGATGGCCA 60.679 61.111 8.56 8.56 37.37 5.36
757 895 3.545481 CTGCGCACGTCATCGACC 61.545 66.667 5.66 0.00 40.62 4.79
866 1030 1.173444 ACTGTCCGAGTCGTGCTCTT 61.173 55.000 12.31 0.00 41.98 2.85
887 1051 2.636778 TAAATGGATGCGCTCGCGGA 62.637 55.000 9.73 11.00 45.51 5.54
888 1052 1.771073 TTAAATGGATGCGCTCGCGG 61.771 55.000 9.73 0.00 45.51 6.46
889 1053 0.027455 TTTAAATGGATGCGCTCGCG 59.973 50.000 9.73 6.98 45.51 5.87
890 1054 1.746760 CTTTAAATGGATGCGCTCGC 58.253 50.000 9.73 7.38 42.35 5.03
891 1055 1.331756 AGCTTTAAATGGATGCGCTCG 59.668 47.619 9.73 0.00 0.00 5.03
892 1056 2.287248 GGAGCTTTAAATGGATGCGCTC 60.287 50.000 9.73 12.52 41.07 5.03
893 1057 1.678101 GGAGCTTTAAATGGATGCGCT 59.322 47.619 9.73 0.00 0.00 5.92
894 1058 1.678101 AGGAGCTTTAAATGGATGCGC 59.322 47.619 0.00 0.00 0.00 6.09
895 1059 2.542411 GCAGGAGCTTTAAATGGATGCG 60.542 50.000 0.00 0.00 37.91 4.73
896 1060 2.542411 CGCAGGAGCTTTAAATGGATGC 60.542 50.000 0.00 0.00 39.10 3.91
899 1063 2.290008 TGACGCAGGAGCTTTAAATGGA 60.290 45.455 0.00 0.00 39.10 3.41
912 1076 4.758251 TGCACCGGATGACGCAGG 62.758 66.667 9.46 0.00 42.52 4.85
1275 1520 2.806745 CGATTTGTACCGATGGAGGCAT 60.807 50.000 0.00 0.00 33.69 4.40
1312 1655 0.108186 CATCAAGCTCCTACGCACCA 60.108 55.000 0.00 0.00 0.00 4.17
1627 2621 6.314018 TGCTGCTCAAAAGATTTTACATACG 58.686 36.000 0.00 0.00 0.00 3.06
1876 2873 1.315257 AACAAGCGGATGACATGCCC 61.315 55.000 0.86 0.00 0.00 5.36
1897 2902 9.061610 ACTTTTATCGAAAAATAATGACAAGCG 57.938 29.630 0.00 0.00 34.16 4.68
1948 3015 7.883391 ACAATCATATATACTACTCCCTCCG 57.117 40.000 0.00 0.00 0.00 4.63
1973 3040 1.404717 CCGTCACTGCATAGCTTGACT 60.405 52.381 11.18 0.00 38.87 3.41
1974 3041 1.002366 CCGTCACTGCATAGCTTGAC 58.998 55.000 0.00 0.00 38.21 3.18
1981 3051 0.981183 AAACCTCCCGTCACTGCATA 59.019 50.000 0.00 0.00 0.00 3.14
1992 3062 6.572509 GCTTTTGAAAGAAGGATAAACCTCCC 60.573 42.308 7.63 0.00 40.70 4.30
2149 3232 0.040067 CTTGCCGTCTTTGTCCTTGC 60.040 55.000 0.00 0.00 0.00 4.01
2580 5009 1.939255 GGAGATAGCTCTTGTTGCAGC 59.061 52.381 8.10 0.00 41.06 5.25
2608 5037 2.194212 ACCAGTGAGCTCGTCGTGT 61.194 57.895 9.64 5.05 0.00 4.49
2716 5145 1.286260 GCCTGTCTCGACGTTCACT 59.714 57.895 0.00 0.00 0.00 3.41
2771 5203 2.325082 CGAAACGGGCCAGTTCCTG 61.325 63.158 21.96 10.63 38.47 3.86
3127 6336 0.989890 GGTACTGACTACTTTGCGCG 59.010 55.000 0.00 0.00 0.00 6.86
3150 6359 0.616679 ACCATGTACGGCACCCTACT 60.617 55.000 0.00 0.00 0.00 2.57
3221 6430 2.083628 AGGGTATTACTCCTCACCGG 57.916 55.000 0.00 0.00 31.47 5.28
3284 6493 3.114606 TGCTCCCCATTGTAATCTCTCA 58.885 45.455 0.00 0.00 0.00 3.27
3336 6545 1.899142 GGCTCTCATCCCCATCTACTC 59.101 57.143 0.00 0.00 0.00 2.59
3358 6567 6.233430 TCGTGTATATAAGACGAGGCTAAC 57.767 41.667 12.15 0.00 37.21 2.34
3359 6568 6.128090 CCATCGTGTATATAAGACGAGGCTAA 60.128 42.308 18.10 1.81 44.64 3.09
3365 6574 3.760151 CCCCCATCGTGTATATAAGACGA 59.240 47.826 16.49 16.49 45.42 4.20
3366 6575 4.106029 CCCCCATCGTGTATATAAGACG 57.894 50.000 8.59 8.59 34.38 4.18
3412 6622 1.143183 GGCGGCGACCTTAGATTGA 59.857 57.895 12.98 0.00 0.00 2.57
3423 6633 3.390521 AAGTCATCCTGGCGGCGA 61.391 61.111 12.98 0.00 0.00 5.54
3461 6671 5.611374 ACCCAAAGAATAGACATACATCCG 58.389 41.667 0.00 0.00 0.00 4.18
3484 6694 3.995636 AGTAGCCAACATAAGAGGGAGA 58.004 45.455 0.00 0.00 0.00 3.71
3532 6751 1.775385 CCCGACAAAAGGCCCATATT 58.225 50.000 0.00 0.00 0.00 1.28
3548 6767 1.519719 CTTCTCTCAAGGGAGCCCG 59.480 63.158 0.00 0.00 41.13 6.13
3610 6830 6.479001 TCGAAAATCGAAGAAACTCAAAGTCT 59.521 34.615 0.00 0.00 46.90 3.24
3645 6865 1.691219 GTCCCAAATCAGGAGCCCA 59.309 57.895 0.00 0.00 32.84 5.36
3647 6867 1.452108 CGGTCCCAAATCAGGAGCC 60.452 63.158 3.59 0.00 46.94 4.70
3665 6885 3.564225 CCCTAATTAGTGCCGATTCAACC 59.436 47.826 11.50 0.00 0.00 3.77
3680 6900 6.014584 GTGTGAAAACCCTCAAATCCCTAATT 60.015 38.462 0.00 0.00 0.00 1.40
3736 6956 8.138712 AGCTTGAAATAGAGATTTACCGTCTAG 58.861 37.037 0.00 0.00 35.33 2.43
3754 6974 3.128349 GTGGACGACTACAAGCTTGAAA 58.872 45.455 32.50 18.09 0.00 2.69
3770 6990 0.107654 CATTTCCCCTCGAGGTGGAC 60.108 60.000 30.38 0.00 35.29 4.02


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

AutoCloner maintained by Alex Coulton.