Multiple sequence alignment - TraesCS5D01G267500

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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 TraesCS5D01G267500 chr5D 100.000 3131 0 0 1 3131 371017889 371021019 0.000000e+00 5782
1 TraesCS5D01G267500 chr5D 98.525 1627 12 1 581 2207 371273728 371272114 0.000000e+00 2861
2 TraesCS5D01G267500 chr5D 91.693 313 17 4 129 441 371278716 371278413 2.890000e-115 425
3 TraesCS5D01G267500 chr5D 99.324 148 1 0 581 728 507877162 507877309 5.150000e-68 268
4 TraesCS5D01G267500 chr5D 76.285 506 100 15 1597 2089 52365626 52366124 5.180000e-63 252
5 TraesCS5D01G267500 chr5D 94.000 150 7 1 581 728 443888399 443888548 3.140000e-55 226
6 TraesCS5D01G267500 chr5D 92.903 155 2 4 581 728 507875227 507875075 1.890000e-52 217
7 TraesCS5D01G267500 chr5D 94.574 129 6 1 1 129 371279828 371279701 6.850000e-47 198
8 TraesCS5D01G267500 chr5D 93.701 127 8 0 441 567 230416830 230416956 1.150000e-44 191
9 TraesCS5D01G267500 chr5D 95.413 109 5 0 2409 2517 371271311 371271203 1.150000e-39 174
10 TraesCS5D01G267500 chr5A 94.233 1474 71 7 744 2207 474025344 474026813 0.000000e+00 2239
11 TraesCS5D01G267500 chr5A 94.233 1474 71 7 744 2207 474290979 474292448 0.000000e+00 2239
12 TraesCS5D01G267500 chr5A 94.166 1474 72 7 744 2207 474158671 474160140 0.000000e+00 2233
13 TraesCS5D01G267500 chr5A 91.772 316 22 3 127 441 474024120 474024432 1.330000e-118 436
14 TraesCS5D01G267500 chr5A 91.772 316 22 3 127 441 474157447 474157759 1.330000e-118 436
15 TraesCS5D01G267500 chr5A 91.456 316 23 3 127 441 474289668 474289980 6.200000e-117 431
16 TraesCS5D01G267500 chr5A 95.413 109 5 0 2409 2517 474050732 474050840 1.150000e-39 174
17 TraesCS5D01G267500 chr5A 95.413 109 5 0 2409 2517 474316155 474316263 1.150000e-39 174
18 TraesCS5D01G267500 chr5A 93.578 109 7 0 2409 2517 474184208 474184316 2.500000e-36 163
19 TraesCS5D01G267500 chrUn 94.086 1471 57 11 744 2207 272189556 272191003 0.000000e+00 2207
20 TraesCS5D01G267500 chrUn 94.086 1471 57 11 744 2207 281134716 281136163 0.000000e+00 2207
21 TraesCS5D01G267500 chrUn 84.640 625 53 18 2526 3127 272195086 272195690 1.620000e-162 582
22 TraesCS5D01G267500 chrUn 93.987 316 16 2 127 441 340768783 340769096 2.830000e-130 475
23 TraesCS5D01G267500 chrUn 83.621 232 24 8 2526 2745 281140246 281140475 4.090000e-49 206
24 TraesCS5D01G267500 chrUn 91.729 133 6 2 1 129 340768280 340768411 2.480000e-41 180
25 TraesCS5D01G267500 chrUn 93.578 109 7 0 2409 2517 272191788 272191896 2.500000e-36 163
26 TraesCS5D01G267500 chrUn 93.578 109 7 0 2409 2517 281136948 281137056 2.500000e-36 163
27 TraesCS5D01G267500 chrUn 94.366 71 4 0 3057 3127 465606731 465606801 3.300000e-20 110
28 TraesCS5D01G267500 chrUn 88.636 88 2 1 2213 2300 272190966 272191045 1.990000e-17 100
29 TraesCS5D01G267500 chrUn 88.636 88 2 1 2213 2300 281136126 281136205 1.990000e-17 100
30 TraesCS5D01G267500 chr5B 93.950 1471 59 11 744 2207 440546615 440545168 0.000000e+00 2196
31 TraesCS5D01G267500 chr5B 93.821 1327 52 11 744 2063 440557424 440556121 0.000000e+00 1969
32 TraesCS5D01G267500 chr5B 84.640 625 53 18 2526 3127 440516684 440516080 1.620000e-162 582
33 TraesCS5D01G267500 chr5B 84.160 625 56 18 2526 3127 440536352 440535748 1.630000e-157 566
34 TraesCS5D01G267500 chr5B 93.987 316 16 2 127 441 440559437 440559124 2.830000e-130 475
35 TraesCS5D01G267500 chr5B 93.038 316 19 3 127 441 440548628 440548315 2.850000e-125 459
36 TraesCS5D01G267500 chr5B 91.729 133 6 2 1 129 440549130 440548999 2.480000e-41 180
37 TraesCS5D01G267500 chr5B 91.729 133 6 2 1 129 440559939 440559808 2.480000e-41 180
38 TraesCS5D01G267500 chr5B 92.661 109 8 0 2409 2517 440540108 440540000 1.160000e-34 158
39 TraesCS5D01G267500 chr5B 88.636 88 2 1 2213 2300 440545205 440545126 1.990000e-17 100
40 TraesCS5D01G267500 chr7D 98.649 148 2 0 581 728 171753632 171753779 2.390000e-66 263
41 TraesCS5D01G267500 chr7D 92.308 143 2 4 581 716 171751121 171750981 8.860000e-46 195
42 TraesCS5D01G267500 chr2B 95.745 141 6 0 581 721 96969997 96970137 8.740000e-56 228
43 TraesCS5D01G267500 chr2B 94.000 150 5 2 581 728 96964095 96963948 1.130000e-54 224
44 TraesCS5D01G267500 chr2B 88.710 62 5 2 72 132 736855744 736855684 1.200000e-09 75
45 TraesCS5D01G267500 chr2D 93.750 128 8 0 440 567 578600901 578600774 3.190000e-45 193
46 TraesCS5D01G267500 chr3B 93.701 127 8 0 441 567 56981567 56981441 1.150000e-44 191
47 TraesCS5D01G267500 chr3B 92.913 127 9 0 441 567 714729265 714729391 5.330000e-43 185
48 TraesCS5D01G267500 chr6B 91.852 135 9 2 435 567 172585437 172585303 1.480000e-43 187
49 TraesCS5D01G267500 chr3D 92.969 128 9 0 440 567 38253232 38253105 1.480000e-43 187
50 TraesCS5D01G267500 chr2A 89.262 149 14 1 581 727 342643710 342643562 5.330000e-43 185
51 TraesCS5D01G267500 chr1B 92.913 127 9 0 441 567 651170648 651170774 5.330000e-43 185
52 TraesCS5D01G267500 chr6D 92.857 126 9 0 442 567 141446536 141446411 1.920000e-42 183
53 TraesCS5D01G267500 chr4D 92.188 128 10 0 440 567 437295763 437295890 6.900000e-42 182
54 TraesCS5D01G267500 chr7B 87.097 124 13 3 4 127 680353207 680353327 1.510000e-28 137


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 TraesCS5D01G267500 chr5D 371017889 371021019 3130 False 5782.000000 5782 100.00000 1 3131 1 chr5D.!!$F3 3130
1 TraesCS5D01G267500 chr5D 371271203 371273728 2525 True 1517.500000 2861 96.96900 581 2517 2 chr5D.!!$R2 1936
2 TraesCS5D01G267500 chr5D 371278413 371279828 1415 True 311.500000 425 93.13350 1 441 2 chr5D.!!$R3 440
3 TraesCS5D01G267500 chr5A 474024120 474026813 2693 False 1337.500000 2239 93.00250 127 2207 2 chr5A.!!$F4 2080
4 TraesCS5D01G267500 chr5A 474289668 474292448 2780 False 1335.000000 2239 92.84450 127 2207 2 chr5A.!!$F6 2080
5 TraesCS5D01G267500 chr5A 474157447 474160140 2693 False 1334.500000 2233 92.96900 127 2207 2 chr5A.!!$F5 2080
6 TraesCS5D01G267500 chrUn 272189556 272195690 6134 False 763.000000 2207 90.23500 744 3127 4 chrUn.!!$F2 2383
7 TraesCS5D01G267500 chrUn 281134716 281140475 5759 False 669.000000 2207 89.98025 744 2745 4 chrUn.!!$F3 2001
8 TraesCS5D01G267500 chrUn 340768280 340769096 816 False 327.500000 475 92.85800 1 441 2 chrUn.!!$F4 440
9 TraesCS5D01G267500 chr5B 440556121 440559939 3818 True 874.666667 1969 93.17900 1 2063 3 chr5B.!!$R4 2062
10 TraesCS5D01G267500 chr5B 440545126 440549130 4004 True 733.750000 2196 91.83825 1 2300 4 chr5B.!!$R3 2299
11 TraesCS5D01G267500 chr5B 440516080 440516684 604 True 582.000000 582 84.64000 2526 3127 1 chr5B.!!$R1 601
12 TraesCS5D01G267500 chr5B 440535748 440540108 4360 True 362.000000 566 88.41050 2409 3127 2 chr5B.!!$R2 718

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
499 1590 0.03213 ACGCTATGGACTGCATACGG 59.968 55.0 13.13 1.71 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2272 4866 0.039256 TGCGCATCCTGCAAAGTTTC 60.039 50.0 5.66 0.0 45.36 2.78 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
45 46 8.504815 CATTCATCAATGTTTGCCACAAAAATA 58.495 29.630 0.00 0.00 39.50 1.40
49 50 9.680315 CATCAATGTTTGCCACAAAAATAATTT 57.320 25.926 0.00 0.00 39.50 1.82
158 1151 7.392494 AAAGAAAGAAAAGAAAACTCGACCT 57.608 32.000 0.00 0.00 0.00 3.85
167 1160 4.642429 AGAAAACTCGACCTGCAAATAGT 58.358 39.130 0.00 0.00 0.00 2.12
365 1360 2.490115 AGAACACTCGGTGATCAGAGAC 59.510 50.000 16.58 6.91 37.72 3.36
385 1380 2.158813 ACCAGTTCACCGATTTGACAGT 60.159 45.455 0.00 0.00 0.00 3.55
404 1399 1.003652 GTGGACCGGTTAACAACAACG 60.004 52.381 9.42 1.05 0.00 4.10
441 1436 2.100749 CGGTTTTGGGAAGCTTTTGACT 59.899 45.455 0.00 0.00 0.00 3.41
443 1438 4.617959 GGTTTTGGGAAGCTTTTGACTAC 58.382 43.478 0.00 0.00 0.00 2.73
445 1440 5.507482 GGTTTTGGGAAGCTTTTGACTACTC 60.507 44.000 0.00 0.00 0.00 2.59
446 1441 3.418684 TGGGAAGCTTTTGACTACTCC 57.581 47.619 0.00 0.00 0.00 3.85
447 1442 2.039879 TGGGAAGCTTTTGACTACTCCC 59.960 50.000 0.00 3.62 35.56 4.30
449 1444 3.601435 GGAAGCTTTTGACTACTCCCTC 58.399 50.000 0.00 0.00 0.00 4.30
450 1445 3.262151 GGAAGCTTTTGACTACTCCCTCT 59.738 47.826 0.00 0.00 0.00 3.69
451 1446 4.466726 GGAAGCTTTTGACTACTCCCTCTA 59.533 45.833 0.00 0.00 0.00 2.43
454 1449 6.228616 AGCTTTTGACTACTCCCTCTATTC 57.771 41.667 0.00 0.00 0.00 1.75
455 1450 5.129650 AGCTTTTGACTACTCCCTCTATTCC 59.870 44.000 0.00 0.00 0.00 3.01
457 1452 6.324254 GCTTTTGACTACTCCCTCTATTCCTA 59.676 42.308 0.00 0.00 0.00 2.94
458 1453 7.147707 GCTTTTGACTACTCCCTCTATTCCTAA 60.148 40.741 0.00 0.00 0.00 2.69
459 1454 8.674925 TTTTGACTACTCCCTCTATTCCTAAA 57.325 34.615 0.00 0.00 0.00 1.85
483 1574 8.421673 AATATAAGTCTTTCAAGAGGTTACGC 57.578 34.615 0.00 0.00 35.32 4.42
484 1575 4.338379 AAGTCTTTCAAGAGGTTACGCT 57.662 40.909 0.00 0.00 35.32 5.07
486 1577 5.662674 AGTCTTTCAAGAGGTTACGCTAT 57.337 39.130 0.00 0.00 35.32 2.97
487 1578 5.411781 AGTCTTTCAAGAGGTTACGCTATG 58.588 41.667 0.00 0.00 35.32 2.23
488 1579 4.567159 GTCTTTCAAGAGGTTACGCTATGG 59.433 45.833 0.00 0.00 35.32 2.74
489 1580 4.464951 TCTTTCAAGAGGTTACGCTATGGA 59.535 41.667 0.00 0.00 0.00 3.41
490 1581 3.795623 TCAAGAGGTTACGCTATGGAC 57.204 47.619 0.00 0.00 0.00 4.02
492 1583 3.130516 TCAAGAGGTTACGCTATGGACTG 59.869 47.826 0.00 0.00 0.00 3.51
493 1584 1.409427 AGAGGTTACGCTATGGACTGC 59.591 52.381 0.00 0.00 0.00 4.40
494 1585 1.136305 GAGGTTACGCTATGGACTGCA 59.864 52.381 0.00 0.00 0.00 4.41
495 1586 1.762957 AGGTTACGCTATGGACTGCAT 59.237 47.619 0.00 0.00 0.00 3.96
497 1588 3.057734 GGTTACGCTATGGACTGCATAC 58.942 50.000 0.00 0.00 0.00 2.39
498 1589 2.699251 TACGCTATGGACTGCATACG 57.301 50.000 0.00 9.39 0.00 3.06
499 1590 0.032130 ACGCTATGGACTGCATACGG 59.968 55.000 13.13 1.71 0.00 4.02
500 1591 0.313987 CGCTATGGACTGCATACGGA 59.686 55.000 0.00 0.00 0.00 4.69
502 1593 1.937108 GCTATGGACTGCATACGGAGC 60.937 57.143 0.00 0.00 32.91 4.70
503 1594 1.341209 CTATGGACTGCATACGGAGCA 59.659 52.381 0.00 0.00 40.19 4.26
506 1597 1.271108 TGGACTGCATACGGAGCAAAA 60.271 47.619 0.00 0.00 42.17 2.44
507 1598 2.017049 GGACTGCATACGGAGCAAAAT 58.983 47.619 0.00 0.00 42.17 1.82
508 1599 2.223340 GGACTGCATACGGAGCAAAATG 60.223 50.000 0.00 0.00 42.17 2.32
509 1600 2.677836 GACTGCATACGGAGCAAAATGA 59.322 45.455 0.00 0.00 42.17 2.57
510 1601 2.679837 ACTGCATACGGAGCAAAATGAG 59.320 45.455 0.00 0.00 42.17 2.90
512 1603 2.419673 TGCATACGGAGCAAAATGAGTG 59.580 45.455 0.00 0.00 39.39 3.51
513 1604 2.677836 GCATACGGAGCAAAATGAGTGA 59.322 45.455 0.00 0.00 0.00 3.41
515 1606 4.651994 CATACGGAGCAAAATGAGTGAAC 58.348 43.478 0.00 0.00 0.00 3.18
516 1607 1.880027 ACGGAGCAAAATGAGTGAACC 59.120 47.619 0.00 0.00 0.00 3.62
519 1872 3.125316 CGGAGCAAAATGAGTGAACCTAC 59.875 47.826 0.00 0.00 0.00 3.18
521 1874 4.083271 GGAGCAAAATGAGTGAACCTACAC 60.083 45.833 0.00 0.00 40.60 2.90
535 1888 9.036980 AGTGAACCTACACTCTAAAATATGTCT 57.963 33.333 0.00 0.00 46.36 3.41
574 2608 9.667107 ATGTAGTTTGTAGTGCAATATGTAGTT 57.333 29.630 0.00 0.00 36.89 2.24
576 2610 9.755064 GTAGTTTGTAGTGCAATATGTAGTTTG 57.245 33.333 0.00 0.00 36.89 2.93
578 2612 9.496873 AGTTTGTAGTGCAATATGTAGTTTGTA 57.503 29.630 0.00 0.00 36.89 2.41
1407 4001 2.126031 GGGAGCCAAGACGACGAC 60.126 66.667 0.00 0.00 0.00 4.34
1408 4002 2.504244 GGAGCCAAGACGACGACG 60.504 66.667 5.58 5.58 45.75 5.12
1409 4003 2.559840 GAGCCAAGACGACGACGA 59.440 61.111 15.32 0.00 42.66 4.20
2065 4659 2.820037 TTGTGCGTTGTGGCGACA 60.820 55.556 0.00 0.00 35.06 4.35
2096 4690 6.533730 AGATGATCAACCACAAGTCTAAACA 58.466 36.000 0.00 0.00 0.00 2.83
2168 4762 1.476891 TCTTCGGGACTAGATGTGTGC 59.523 52.381 0.00 0.00 0.00 4.57
2169 4763 0.172578 TTCGGGACTAGATGTGTGCG 59.827 55.000 0.00 0.00 0.00 5.34
2170 4764 1.226974 CGGGACTAGATGTGTGCGG 60.227 63.158 0.00 0.00 0.00 5.69
2171 4765 1.144057 GGGACTAGATGTGTGCGGG 59.856 63.158 0.00 0.00 0.00 6.13
2172 4766 1.144057 GGACTAGATGTGTGCGGGG 59.856 63.158 0.00 0.00 0.00 5.73
2173 4767 1.614241 GGACTAGATGTGTGCGGGGT 61.614 60.000 0.00 0.00 0.00 4.95
2174 4768 0.249398 GACTAGATGTGTGCGGGGTT 59.751 55.000 0.00 0.00 0.00 4.11
2175 4769 0.249398 ACTAGATGTGTGCGGGGTTC 59.751 55.000 0.00 0.00 0.00 3.62
2176 4770 0.249120 CTAGATGTGTGCGGGGTTCA 59.751 55.000 0.00 0.00 0.00 3.18
2177 4771 0.908910 TAGATGTGTGCGGGGTTCAT 59.091 50.000 0.00 0.00 0.00 2.57
2178 4772 0.038166 AGATGTGTGCGGGGTTCATT 59.962 50.000 0.00 0.00 0.00 2.57
2179 4773 0.887933 GATGTGTGCGGGGTTCATTT 59.112 50.000 0.00 0.00 0.00 2.32
2180 4774 0.887933 ATGTGTGCGGGGTTCATTTC 59.112 50.000 0.00 0.00 0.00 2.17
2181 4775 0.179004 TGTGTGCGGGGTTCATTTCT 60.179 50.000 0.00 0.00 0.00 2.52
2182 4776 0.958822 GTGTGCGGGGTTCATTTCTT 59.041 50.000 0.00 0.00 0.00 2.52
2183 4777 1.068541 GTGTGCGGGGTTCATTTCTTC 60.069 52.381 0.00 0.00 0.00 2.87
2184 4778 1.202879 TGTGCGGGGTTCATTTCTTCT 60.203 47.619 0.00 0.00 0.00 2.85
2185 4779 1.886542 GTGCGGGGTTCATTTCTTCTT 59.113 47.619 0.00 0.00 0.00 2.52
2186 4780 1.885887 TGCGGGGTTCATTTCTTCTTG 59.114 47.619 0.00 0.00 0.00 3.02
2187 4781 1.202348 GCGGGGTTCATTTCTTCTTGG 59.798 52.381 0.00 0.00 0.00 3.61
2188 4782 2.790433 CGGGGTTCATTTCTTCTTGGA 58.210 47.619 0.00 0.00 0.00 3.53
2189 4783 3.356290 CGGGGTTCATTTCTTCTTGGAT 58.644 45.455 0.00 0.00 0.00 3.41
2190 4784 3.378427 CGGGGTTCATTTCTTCTTGGATC 59.622 47.826 0.00 0.00 0.00 3.36
2191 4785 3.378427 GGGGTTCATTTCTTCTTGGATCG 59.622 47.826 0.00 0.00 0.00 3.69
2192 4786 4.010349 GGGTTCATTTCTTCTTGGATCGT 58.990 43.478 0.00 0.00 0.00 3.73
2193 4787 5.183228 GGGTTCATTTCTTCTTGGATCGTA 58.817 41.667 0.00 0.00 0.00 3.43
2194 4788 5.294552 GGGTTCATTTCTTCTTGGATCGTAG 59.705 44.000 0.00 0.00 0.00 3.51
2195 4789 5.875359 GGTTCATTTCTTCTTGGATCGTAGT 59.125 40.000 0.00 0.00 0.00 2.73
2196 4790 6.183360 GGTTCATTTCTTCTTGGATCGTAGTG 60.183 42.308 0.00 0.00 0.00 2.74
2197 4791 6.280855 TCATTTCTTCTTGGATCGTAGTGA 57.719 37.500 0.00 0.00 0.00 3.41
2198 4792 6.697395 TCATTTCTTCTTGGATCGTAGTGAA 58.303 36.000 0.00 0.00 0.00 3.18
2199 4793 7.158697 TCATTTCTTCTTGGATCGTAGTGAAA 58.841 34.615 13.13 13.13 0.00 2.69
2200 4794 7.824289 TCATTTCTTCTTGGATCGTAGTGAAAT 59.176 33.333 14.99 14.99 33.61 2.17
2201 4795 7.979444 TTTCTTCTTGGATCGTAGTGAAATT 57.021 32.000 0.00 0.00 0.00 1.82
2202 4796 9.667107 ATTTCTTCTTGGATCGTAGTGAAATTA 57.333 29.630 14.99 3.10 30.53 1.40
2203 4797 9.667107 TTTCTTCTTGGATCGTAGTGAAATTAT 57.333 29.630 0.00 0.00 0.00 1.28
2208 4802 9.476202 TCTTGGATCGTAGTGAAATTATATGTG 57.524 33.333 0.00 0.00 0.00 3.21
2209 4803 7.652300 TGGATCGTAGTGAAATTATATGTGC 57.348 36.000 0.00 0.00 0.00 4.57
2210 4804 7.213678 TGGATCGTAGTGAAATTATATGTGCA 58.786 34.615 0.00 0.00 0.00 4.57
2211 4805 7.713073 TGGATCGTAGTGAAATTATATGTGCAA 59.287 33.333 0.00 0.00 0.00 4.08
2252 4846 8.771920 TCGGATCGTAATGAAATTATATGCTT 57.228 30.769 0.00 0.00 41.51 3.91
2253 4847 8.869897 TCGGATCGTAATGAAATTATATGCTTC 58.130 33.333 0.00 0.00 41.51 3.86
2254 4848 8.873830 CGGATCGTAATGAAATTATATGCTTCT 58.126 33.333 0.00 0.00 41.51 2.85
2300 4894 1.145598 AGGATGCGCATCTGTCCTG 59.854 57.895 40.32 0.00 39.54 3.86
2301 4895 1.144716 GGATGCGCATCTGTCCTGA 59.855 57.895 40.32 4.65 37.92 3.86
2302 4896 0.250209 GGATGCGCATCTGTCCTGAT 60.250 55.000 40.32 11.52 37.92 2.90
2303 4897 1.590932 GATGCGCATCTGTCCTGATT 58.409 50.000 36.92 7.33 35.04 2.57
2304 4898 1.263484 GATGCGCATCTGTCCTGATTG 59.737 52.381 36.92 0.00 35.04 2.67
2305 4899 0.036105 TGCGCATCTGTCCTGATTGT 60.036 50.000 5.66 0.00 0.00 2.71
2306 4900 1.089920 GCGCATCTGTCCTGATTGTT 58.910 50.000 0.30 0.00 0.00 2.83
2307 4901 1.470098 GCGCATCTGTCCTGATTGTTT 59.530 47.619 0.30 0.00 0.00 2.83
2308 4902 2.095059 GCGCATCTGTCCTGATTGTTTT 60.095 45.455 0.30 0.00 0.00 2.43
2309 4903 3.751621 CGCATCTGTCCTGATTGTTTTC 58.248 45.455 0.00 0.00 0.00 2.29
2310 4904 3.438087 CGCATCTGTCCTGATTGTTTTCT 59.562 43.478 0.00 0.00 0.00 2.52
2311 4905 4.436584 CGCATCTGTCCTGATTGTTTTCTC 60.437 45.833 0.00 0.00 0.00 2.87
2312 4906 4.436584 GCATCTGTCCTGATTGTTTTCTCG 60.437 45.833 0.00 0.00 0.00 4.04
2313 4907 4.336889 TCTGTCCTGATTGTTTTCTCGT 57.663 40.909 0.00 0.00 0.00 4.18
2314 4908 4.703897 TCTGTCCTGATTGTTTTCTCGTT 58.296 39.130 0.00 0.00 0.00 3.85
2315 4909 4.511454 TCTGTCCTGATTGTTTTCTCGTTG 59.489 41.667 0.00 0.00 0.00 4.10
2316 4910 3.563808 TGTCCTGATTGTTTTCTCGTTGG 59.436 43.478 0.00 0.00 0.00 3.77
2317 4911 3.813166 GTCCTGATTGTTTTCTCGTTGGA 59.187 43.478 0.00 0.00 0.00 3.53
2318 4912 4.065088 TCCTGATTGTTTTCTCGTTGGAG 58.935 43.478 0.00 0.00 41.89 3.86
2319 4913 3.815401 CCTGATTGTTTTCTCGTTGGAGT 59.185 43.478 0.00 0.00 41.26 3.85
2320 4914 4.275936 CCTGATTGTTTTCTCGTTGGAGTT 59.724 41.667 0.00 0.00 41.26 3.01
2321 4915 5.221048 CCTGATTGTTTTCTCGTTGGAGTTT 60.221 40.000 0.00 0.00 41.26 2.66
2322 4916 6.017440 CCTGATTGTTTTCTCGTTGGAGTTTA 60.017 38.462 0.00 0.00 41.26 2.01
2323 4917 6.954944 TGATTGTTTTCTCGTTGGAGTTTAG 58.045 36.000 0.00 0.00 41.26 1.85
2324 4918 6.764085 TGATTGTTTTCTCGTTGGAGTTTAGA 59.236 34.615 0.00 0.00 41.26 2.10
2325 4919 7.444183 TGATTGTTTTCTCGTTGGAGTTTAGAT 59.556 33.333 0.00 0.00 41.26 1.98
2326 4920 6.780706 TGTTTTCTCGTTGGAGTTTAGATC 57.219 37.500 0.00 0.00 41.26 2.75
2327 4921 6.285224 TGTTTTCTCGTTGGAGTTTAGATCA 58.715 36.000 0.00 0.00 41.26 2.92
2328 4922 6.202188 TGTTTTCTCGTTGGAGTTTAGATCAC 59.798 38.462 0.00 0.00 41.26 3.06
2329 4923 5.723672 TTCTCGTTGGAGTTTAGATCACT 57.276 39.130 0.00 0.00 41.26 3.41
2330 4924 5.060662 TCTCGTTGGAGTTTAGATCACTG 57.939 43.478 0.00 0.00 41.26 3.66
2331 4925 4.523173 TCTCGTTGGAGTTTAGATCACTGT 59.477 41.667 0.00 0.00 41.26 3.55
2332 4926 5.708697 TCTCGTTGGAGTTTAGATCACTGTA 59.291 40.000 0.00 0.00 41.26 2.74
2333 4927 5.950883 TCGTTGGAGTTTAGATCACTGTAG 58.049 41.667 0.00 0.00 0.00 2.74
2334 4928 5.708697 TCGTTGGAGTTTAGATCACTGTAGA 59.291 40.000 0.00 0.00 0.00 2.59
2335 4929 6.377429 TCGTTGGAGTTTAGATCACTGTAGAT 59.623 38.462 0.00 0.00 0.00 1.98
2336 4930 7.555195 TCGTTGGAGTTTAGATCACTGTAGATA 59.445 37.037 0.00 0.00 0.00 1.98
2337 4931 7.644551 CGTTGGAGTTTAGATCACTGTAGATAC 59.355 40.741 0.00 0.00 0.00 2.24
2338 4932 8.688151 GTTGGAGTTTAGATCACTGTAGATACT 58.312 37.037 0.00 0.00 0.00 2.12
2339 4933 8.453238 TGGAGTTTAGATCACTGTAGATACTC 57.547 38.462 0.00 0.00 0.00 2.59
2340 4934 7.502895 TGGAGTTTAGATCACTGTAGATACTCC 59.497 40.741 19.60 19.60 38.29 3.85
2341 4935 7.040271 GGAGTTTAGATCACTGTAGATACTCCC 60.040 44.444 17.77 8.87 33.45 4.30
2342 4936 7.588169 AGTTTAGATCACTGTAGATACTCCCT 58.412 38.462 0.00 0.00 0.00 4.20
2359 4953 9.616156 GATACTCCCTCGTATATAAGATTCTCA 57.384 37.037 0.00 0.00 30.57 3.27
2364 4958 9.535170 TCCCTCGTATATAAGATTCTCAATTCT 57.465 33.333 0.00 0.00 0.00 2.40
2377 4971 8.547173 AGATTCTCAATTCTAGACCTGTTTGAT 58.453 33.333 0.00 0.00 0.00 2.57
2379 4973 8.924511 TTCTCAATTCTAGACCTGTTTGATTT 57.075 30.769 0.00 0.00 0.00 2.17
2380 4974 8.924511 TCTCAATTCTAGACCTGTTTGATTTT 57.075 30.769 0.00 0.00 0.00 1.82
2381 4975 9.354673 TCTCAATTCTAGACCTGTTTGATTTTT 57.645 29.630 0.00 0.00 0.00 1.94
2382 4976 9.403110 CTCAATTCTAGACCTGTTTGATTTTTG 57.597 33.333 0.00 0.00 0.00 2.44
2383 4977 8.912988 TCAATTCTAGACCTGTTTGATTTTTGT 58.087 29.630 0.00 0.00 0.00 2.83
2384 4978 8.971321 CAATTCTAGACCTGTTTGATTTTTGTG 58.029 33.333 0.00 0.00 0.00 3.33
2457 5771 6.051074 TCAGCTCAAACACACAGGATATATG 58.949 40.000 0.00 0.00 0.00 1.78
2465 5779 9.330063 CAAACACACAGGATATATGTTAGTCAT 57.670 33.333 0.00 0.00 40.25 3.06
2471 5785 8.703336 CACAGGATATATGTTAGTCATGTTTCG 58.297 37.037 0.00 0.00 33.87 3.46
2496 5810 2.401766 GCTGTGCCGACCATCCTTG 61.402 63.158 0.00 0.00 0.00 3.61
2520 5834 6.611381 GCATCAGCAAAGTTAATACTTCACA 58.389 36.000 0.00 0.00 43.74 3.58
2522 5836 7.430502 GCATCAGCAAAGTTAATACTTCACATC 59.569 37.037 0.00 0.00 43.74 3.06
2524 5838 9.890629 ATCAGCAAAGTTAATACTTCACATCTA 57.109 29.630 0.00 0.00 43.74 1.98
2552 9541 5.069648 TCATTGATCTATCACACCTGTCTCC 59.930 44.000 0.00 0.00 36.36 3.71
2559 9548 1.691976 TCACACCTGTCTCCGTTTCAT 59.308 47.619 0.00 0.00 0.00 2.57
2565 9554 3.260884 ACCTGTCTCCGTTTCATGTATGT 59.739 43.478 0.00 0.00 0.00 2.29
2570 9559 2.521996 TCCGTTTCATGTATGTCGTCG 58.478 47.619 0.00 0.00 0.00 5.12
2579 9568 5.329493 TCATGTATGTCGTCGTTCTACTTG 58.671 41.667 0.00 2.23 0.00 3.16
2586 9575 6.726258 TGTCGTCGTTCTACTTGTATCTTA 57.274 37.500 0.00 0.00 0.00 2.10
2621 9610 3.707102 ACTAGGCTCACTCCAAATCCTAC 59.293 47.826 0.00 0.00 0.00 3.18
2625 9614 2.911484 CTCACTCCAAATCCTACAGGC 58.089 52.381 0.00 0.00 34.44 4.85
2628 9617 1.066143 ACTCCAAATCCTACAGGCGTG 60.066 52.381 4.53 4.53 34.44 5.34
2630 9619 1.066430 TCCAAATCCTACAGGCGTGTC 60.066 52.381 16.53 0.00 38.19 3.67
2631 9620 1.066143 CCAAATCCTACAGGCGTGTCT 60.066 52.381 16.53 0.00 38.19 3.41
2633 9622 2.386661 AATCCTACAGGCGTGTCTTG 57.613 50.000 16.53 7.63 38.19 3.02
2634 9623 0.108138 ATCCTACAGGCGTGTCTTGC 60.108 55.000 16.53 0.00 38.19 4.01
2635 9624 1.185618 TCCTACAGGCGTGTCTTGCT 61.186 55.000 16.53 0.00 38.19 3.91
2638 9627 2.196749 CTACAGGCGTGTCTTGCTATG 58.803 52.381 16.53 0.00 38.19 2.23
2639 9628 0.608130 ACAGGCGTGTCTTGCTATGA 59.392 50.000 6.15 0.00 26.76 2.15
2651 9651 1.347243 TGCTATGATGAGGCCCTGCA 61.347 55.000 0.00 0.00 0.00 4.41
2654 9654 0.471191 TATGATGAGGCCCTGCACAG 59.529 55.000 0.00 0.00 0.00 3.66
2669 9669 1.946768 GCACAGGTAAGTTGTCTGCAA 59.053 47.619 7.06 0.00 32.19 4.08
2678 9678 6.491403 AGGTAAGTTGTCTGCAAAATGAAGAT 59.509 34.615 0.00 0.00 33.91 2.40
2679 9679 7.665559 AGGTAAGTTGTCTGCAAAATGAAGATA 59.334 33.333 0.00 0.00 33.91 1.98
2680 9680 7.965107 GGTAAGTTGTCTGCAAAATGAAGATAG 59.035 37.037 0.00 0.00 33.91 2.08
2681 9681 5.947443 AGTTGTCTGCAAAATGAAGATAGC 58.053 37.500 0.00 0.00 33.91 2.97
2682 9682 5.474532 AGTTGTCTGCAAAATGAAGATAGCA 59.525 36.000 2.69 0.00 33.91 3.49
2717 9717 7.420214 GGGATTCCTGTAAATTATCACTCTGGA 60.420 40.741 2.01 0.00 0.00 3.86
2718 9718 7.659390 GGATTCCTGTAAATTATCACTCTGGAG 59.341 40.741 0.00 0.00 0.00 3.86
2721 9721 7.730084 TCCTGTAAATTATCACTCTGGAGATG 58.270 38.462 4.49 0.20 0.00 2.90
2752 9752 2.190981 GAACACTGTATTACCGCTCCG 58.809 52.381 0.00 0.00 0.00 4.63
2784 9784 4.330250 GCCCATACACGTATAGTAGAGGA 58.670 47.826 0.00 0.00 0.00 3.71
2805 9805 9.214962 AGAGGATATTAACTAGCTAAAACAGGT 57.785 33.333 0.00 0.00 38.84 4.00
2842 9842 7.653767 ACAGTTCTATTAATTGCCTATACGC 57.346 36.000 0.00 0.00 0.00 4.42
2843 9843 6.649557 ACAGTTCTATTAATTGCCTATACGCC 59.350 38.462 0.00 0.00 0.00 5.68
2844 9844 6.649141 CAGTTCTATTAATTGCCTATACGCCA 59.351 38.462 0.00 0.00 0.00 5.69
2848 9848 2.411628 AATTGCCTATACGCCACACA 57.588 45.000 0.00 0.00 0.00 3.72
2857 9857 1.292061 TACGCCACACACTGAACAAC 58.708 50.000 0.00 0.00 0.00 3.32
2873 9873 9.731819 CACTGAACAACGTATAGATACTACAAT 57.268 33.333 0.00 0.00 0.00 2.71
2907 9909 4.566987 ACGATAAGAGTCAAGGACCAAAC 58.433 43.478 0.00 0.00 32.18 2.93
2911 9913 7.042335 CGATAAGAGTCAAGGACCAAACTTAT 58.958 38.462 0.00 0.00 33.22 1.73
2919 9921 4.993705 AGGACCAAACTTATCACCAGAA 57.006 40.909 0.00 0.00 0.00 3.02
2935 9937 2.533318 GAAGGATTCATAGCGGCCG 58.467 57.895 24.05 24.05 46.62 6.13
2936 9938 0.951040 GAAGGATTCATAGCGGCCGG 60.951 60.000 29.38 10.44 46.62 6.13
2937 9939 1.407656 AAGGATTCATAGCGGCCGGA 61.408 55.000 29.38 13.05 0.00 5.14
2959 9961 3.689649 AGGCCTCATAACACGATGAAAAC 59.310 43.478 0.00 0.00 35.44 2.43
2960 9962 3.438781 GGCCTCATAACACGATGAAAACA 59.561 43.478 0.00 0.00 35.44 2.83
2961 9963 4.096382 GGCCTCATAACACGATGAAAACAT 59.904 41.667 0.00 0.00 35.44 2.71
2962 9964 5.030295 GCCTCATAACACGATGAAAACATG 58.970 41.667 0.00 0.00 35.44 3.21
2963 9965 5.163764 GCCTCATAACACGATGAAAACATGA 60.164 40.000 0.00 0.00 35.44 3.07
2964 9966 6.622679 GCCTCATAACACGATGAAAACATGAA 60.623 38.462 0.00 0.00 35.44 2.57
2965 9967 6.742718 CCTCATAACACGATGAAAACATGAAC 59.257 38.462 0.00 0.00 35.44 3.18
2966 9968 6.303370 TCATAACACGATGAAAACATGAACG 58.697 36.000 0.00 0.00 32.84 3.95
2967 9969 2.916111 ACACGATGAAAACATGAACGC 58.084 42.857 0.00 0.00 0.00 4.84
2968 9970 1.898079 CACGATGAAAACATGAACGCG 59.102 47.619 3.53 3.53 0.00 6.01
2997 9999 2.936498 CGGCGAGATAAACTCACCAAAT 59.064 45.455 0.00 0.00 45.24 2.32
3004 10006 7.360946 GCGAGATAAACTCACCAAATAACAAGT 60.361 37.037 0.00 0.00 45.14 3.16
3031 10033 7.959651 GCATCAAAGCAGGATAATTAATACTCG 59.040 37.037 0.00 0.00 0.00 4.18
3039 10041 5.475909 AGGATAATTAATACTCGCTCGGTCA 59.524 40.000 0.00 0.00 0.00 4.02
3051 10053 2.007608 GCTCGGTCAGGGTTTATTGAC 58.992 52.381 0.00 0.00 42.25 3.18
3079 10087 6.463331 CCCCTGTACTGTAGTGTCAAACTTTA 60.463 42.308 0.00 0.00 40.56 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 96 5.121811 AGCTCATATGACCTCAACATGAAC 58.878 41.667 0.00 2.14 0.00 3.18
97 102 6.317140 TCAATTTGAGCTCATATGACCTCAAC 59.683 38.462 30.32 9.61 42.90 3.18
142 1135 4.712122 TTTGCAGGTCGAGTTTTCTTTT 57.288 36.364 0.00 0.00 0.00 2.27
158 1151 6.576662 TTTATCCGGTTTTCACTATTTGCA 57.423 33.333 0.00 0.00 0.00 4.08
214 1208 3.810373 AGCACGCTTATTTGTTTCTTCG 58.190 40.909 0.00 0.00 0.00 3.79
365 1360 2.224079 CACTGTCAAATCGGTGAACTGG 59.776 50.000 0.01 0.00 44.64 4.00
385 1380 1.297664 CGTTGTTGTTAACCGGTCCA 58.702 50.000 8.04 1.84 0.00 4.02
404 1399 5.399013 CAAAACCGGACATCTGATAAAACC 58.601 41.667 9.46 0.00 0.00 3.27
457 1452 8.880750 GCGTAACCTCTTGAAAGACTTATATTT 58.119 33.333 0.00 0.00 0.00 1.40
458 1453 8.258708 AGCGTAACCTCTTGAAAGACTTATATT 58.741 33.333 0.00 0.00 0.00 1.28
459 1454 7.783042 AGCGTAACCTCTTGAAAGACTTATAT 58.217 34.615 0.00 0.00 0.00 0.86
465 1556 4.567159 CCATAGCGTAACCTCTTGAAAGAC 59.433 45.833 0.00 0.00 0.00 3.01
469 1560 3.767673 AGTCCATAGCGTAACCTCTTGAA 59.232 43.478 0.00 0.00 0.00 2.69
474 1565 1.136305 TGCAGTCCATAGCGTAACCTC 59.864 52.381 0.00 0.00 0.00 3.85
476 1567 2.240493 ATGCAGTCCATAGCGTAACC 57.760 50.000 0.00 0.00 30.69 2.85
477 1568 2.724690 CGTATGCAGTCCATAGCGTAAC 59.275 50.000 0.00 0.00 37.10 2.50
478 1569 2.287970 CCGTATGCAGTCCATAGCGTAA 60.288 50.000 0.00 0.00 37.10 3.18
480 1571 0.032130 CCGTATGCAGTCCATAGCGT 59.968 55.000 0.00 0.00 37.10 5.07
482 1573 1.937108 GCTCCGTATGCAGTCCATAGC 60.937 57.143 0.00 0.00 37.10 2.97
483 1574 1.341209 TGCTCCGTATGCAGTCCATAG 59.659 52.381 0.00 0.00 37.10 2.23
484 1575 1.408969 TGCTCCGTATGCAGTCCATA 58.591 50.000 0.00 0.00 35.31 2.74
486 1577 0.323302 TTTGCTCCGTATGCAGTCCA 59.677 50.000 0.00 0.00 41.71 4.02
487 1578 1.448985 TTTTGCTCCGTATGCAGTCC 58.551 50.000 0.00 0.00 41.71 3.85
488 1579 2.677836 TCATTTTGCTCCGTATGCAGTC 59.322 45.455 0.00 0.00 41.71 3.51
489 1580 2.679837 CTCATTTTGCTCCGTATGCAGT 59.320 45.455 0.00 0.00 41.71 4.40
490 1581 2.679837 ACTCATTTTGCTCCGTATGCAG 59.320 45.455 0.00 0.00 41.71 4.41
492 1583 2.677836 TCACTCATTTTGCTCCGTATGC 59.322 45.455 0.00 0.00 0.00 3.14
493 1584 4.437390 GGTTCACTCATTTTGCTCCGTATG 60.437 45.833 0.00 0.00 0.00 2.39
494 1585 3.689649 GGTTCACTCATTTTGCTCCGTAT 59.310 43.478 0.00 0.00 0.00 3.06
495 1586 3.071479 GGTTCACTCATTTTGCTCCGTA 58.929 45.455 0.00 0.00 0.00 4.02
497 1588 2.154462 AGGTTCACTCATTTTGCTCCG 58.846 47.619 0.00 0.00 0.00 4.63
498 1589 4.072131 TGTAGGTTCACTCATTTTGCTCC 58.928 43.478 0.00 0.00 0.00 4.70
499 1590 4.757149 AGTGTAGGTTCACTCATTTTGCTC 59.243 41.667 0.00 0.00 44.07 4.26
500 1591 4.718961 AGTGTAGGTTCACTCATTTTGCT 58.281 39.130 0.00 0.00 44.07 3.91
537 1890 9.961265 GCACTACAAACTACATACAGATGTATA 57.039 33.333 5.21 0.00 45.42 1.47
539 1892 7.832769 TGCACTACAAACTACATACAGATGTA 58.167 34.615 0.00 0.00 44.77 2.29
540 1893 7.158697 TTGCACTACAAACTACATACAGATGT 58.841 34.615 0.00 0.00 41.55 3.06
541 1894 7.595311 TTGCACTACAAACTACATACAGATG 57.405 36.000 0.00 0.00 35.66 2.90
543 1896 9.313118 CATATTGCACTACAAACTACATACAGA 57.687 33.333 0.00 0.00 42.86 3.41
544 1897 9.098355 ACATATTGCACTACAAACTACATACAG 57.902 33.333 0.00 0.00 42.86 2.74
548 1901 9.667107 AACTACATATTGCACTACAAACTACAT 57.333 29.630 0.00 0.00 42.86 2.29
549 1902 9.496873 AAACTACATATTGCACTACAAACTACA 57.503 29.630 0.00 0.00 42.86 2.74
550 1903 9.755064 CAAACTACATATTGCACTACAAACTAC 57.245 33.333 0.00 0.00 42.86 2.73
552 1905 8.391075 ACAAACTACATATTGCACTACAAACT 57.609 30.769 0.00 0.00 42.86 2.66
556 1909 7.011950 GGCATACAAACTACATATTGCACTACA 59.988 37.037 0.00 0.00 0.00 2.74
557 1910 7.352739 GGCATACAAACTACATATTGCACTAC 58.647 38.462 0.00 0.00 0.00 2.73
558 1911 6.201997 CGGCATACAAACTACATATTGCACTA 59.798 38.462 0.00 0.00 0.00 2.74
559 1912 5.007626 CGGCATACAAACTACATATTGCACT 59.992 40.000 0.00 0.00 0.00 4.40
560 1913 5.007234 TCGGCATACAAACTACATATTGCAC 59.993 40.000 0.00 0.00 0.00 4.57
561 1914 5.119694 TCGGCATACAAACTACATATTGCA 58.880 37.500 0.00 0.00 0.00 4.08
562 1915 5.666969 TCGGCATACAAACTACATATTGC 57.333 39.130 0.00 0.00 0.00 3.56
1407 4001 2.346847 GCTCAAGACATAGTGCTGTTCG 59.653 50.000 0.00 0.00 0.00 3.95
1408 4002 3.329386 TGCTCAAGACATAGTGCTGTTC 58.671 45.455 0.00 0.00 0.00 3.18
1409 4003 3.407424 TGCTCAAGACATAGTGCTGTT 57.593 42.857 0.00 0.00 0.00 3.16
2027 4621 2.180769 CGACGCCCGTCAAGATGA 59.819 61.111 19.28 0.00 44.77 2.92
2065 4659 2.306805 TGTGGTTGATCATCTTGAGCCT 59.693 45.455 0.00 0.00 30.48 4.58
2096 4690 3.259123 GTGGATTTCAATGCCTTCAAGGT 59.741 43.478 5.03 0.00 37.80 3.50
2168 4762 2.790433 TCCAAGAAGAAATGAACCCCG 58.210 47.619 0.00 0.00 0.00 5.73
2169 4763 3.378427 CGATCCAAGAAGAAATGAACCCC 59.622 47.826 0.00 0.00 0.00 4.95
2170 4764 4.010349 ACGATCCAAGAAGAAATGAACCC 58.990 43.478 0.00 0.00 0.00 4.11
2171 4765 5.875359 ACTACGATCCAAGAAGAAATGAACC 59.125 40.000 0.00 0.00 0.00 3.62
2172 4766 6.590292 TCACTACGATCCAAGAAGAAATGAAC 59.410 38.462 0.00 0.00 0.00 3.18
2173 4767 6.697395 TCACTACGATCCAAGAAGAAATGAA 58.303 36.000 0.00 0.00 0.00 2.57
2174 4768 6.280855 TCACTACGATCCAAGAAGAAATGA 57.719 37.500 0.00 0.00 0.00 2.57
2175 4769 6.968131 TTCACTACGATCCAAGAAGAAATG 57.032 37.500 0.00 0.00 0.00 2.32
2176 4770 8.567285 AATTTCACTACGATCCAAGAAGAAAT 57.433 30.769 14.24 14.24 35.07 2.17
2177 4771 7.979444 AATTTCACTACGATCCAAGAAGAAA 57.021 32.000 0.00 12.23 0.00 2.52
2182 4776 9.476202 CACATATAATTTCACTACGATCCAAGA 57.524 33.333 0.00 0.00 0.00 3.02
2183 4777 8.223769 GCACATATAATTTCACTACGATCCAAG 58.776 37.037 0.00 0.00 0.00 3.61
2184 4778 7.713073 TGCACATATAATTTCACTACGATCCAA 59.287 33.333 0.00 0.00 0.00 3.53
2185 4779 7.213678 TGCACATATAATTTCACTACGATCCA 58.786 34.615 0.00 0.00 0.00 3.41
2186 4780 7.652300 TGCACATATAATTTCACTACGATCC 57.348 36.000 0.00 0.00 0.00 3.36
2187 4781 8.223769 CCTTGCACATATAATTTCACTACGATC 58.776 37.037 0.00 0.00 0.00 3.69
2188 4782 7.173218 CCCTTGCACATATAATTTCACTACGAT 59.827 37.037 0.00 0.00 0.00 3.73
2189 4783 6.481976 CCCTTGCACATATAATTTCACTACGA 59.518 38.462 0.00 0.00 0.00 3.43
2190 4784 6.293407 CCCCTTGCACATATAATTTCACTACG 60.293 42.308 0.00 0.00 0.00 3.51
2191 4785 6.546034 ACCCCTTGCACATATAATTTCACTAC 59.454 38.462 0.00 0.00 0.00 2.73
2192 4786 6.668645 ACCCCTTGCACATATAATTTCACTA 58.331 36.000 0.00 0.00 0.00 2.74
2193 4787 5.518865 ACCCCTTGCACATATAATTTCACT 58.481 37.500 0.00 0.00 0.00 3.41
2194 4788 5.852282 ACCCCTTGCACATATAATTTCAC 57.148 39.130 0.00 0.00 0.00 3.18
2195 4789 5.954752 TGAACCCCTTGCACATATAATTTCA 59.045 36.000 0.00 0.00 0.00 2.69
2196 4790 6.463995 TGAACCCCTTGCACATATAATTTC 57.536 37.500 0.00 0.00 0.00 2.17
2197 4791 7.436320 AATGAACCCCTTGCACATATAATTT 57.564 32.000 0.00 0.00 0.00 1.82
2198 4792 7.345392 AGAAATGAACCCCTTGCACATATAATT 59.655 33.333 0.00 0.00 0.00 1.40
2199 4793 6.840705 AGAAATGAACCCCTTGCACATATAAT 59.159 34.615 0.00 0.00 0.00 1.28
2200 4794 6.194235 AGAAATGAACCCCTTGCACATATAA 58.806 36.000 0.00 0.00 0.00 0.98
2201 4795 5.765510 AGAAATGAACCCCTTGCACATATA 58.234 37.500 0.00 0.00 0.00 0.86
2202 4796 4.613437 AGAAATGAACCCCTTGCACATAT 58.387 39.130 0.00 0.00 0.00 1.78
2203 4797 4.046286 AGAAATGAACCCCTTGCACATA 57.954 40.909 0.00 0.00 0.00 2.29
2204 4798 2.893424 AGAAATGAACCCCTTGCACAT 58.107 42.857 0.00 0.00 0.00 3.21
2205 4799 2.380064 AGAAATGAACCCCTTGCACA 57.620 45.000 0.00 0.00 0.00 4.57
2206 4800 2.893489 AGAAGAAATGAACCCCTTGCAC 59.107 45.455 0.00 0.00 0.00 4.57
2207 4801 3.157087 GAGAAGAAATGAACCCCTTGCA 58.843 45.455 0.00 0.00 0.00 4.08
2208 4802 2.162408 CGAGAAGAAATGAACCCCTTGC 59.838 50.000 0.00 0.00 0.00 4.01
2209 4803 2.749621 CCGAGAAGAAATGAACCCCTTG 59.250 50.000 0.00 0.00 0.00 3.61
2210 4804 2.642807 TCCGAGAAGAAATGAACCCCTT 59.357 45.455 0.00 0.00 0.00 3.95
2211 4805 2.266279 TCCGAGAAGAAATGAACCCCT 58.734 47.619 0.00 0.00 0.00 4.79
2258 4852 2.905415 AGTTTCCTTCATGGCCATGA 57.095 45.000 38.91 38.91 45.30 3.07
2259 4853 3.592059 CAAAGTTTCCTTCATGGCCATG 58.408 45.455 35.76 35.76 40.09 3.66
2271 4865 0.733909 GCGCATCCTGCAAAGTTTCC 60.734 55.000 0.30 0.00 45.36 3.13
2272 4866 0.039256 TGCGCATCCTGCAAAGTTTC 60.039 50.000 5.66 0.00 45.36 2.78
2300 4894 7.186021 TCTAAACTCCAACGAGAAAACAATC 57.814 36.000 0.00 0.00 38.52 2.67
2301 4895 7.444183 TGATCTAAACTCCAACGAGAAAACAAT 59.556 33.333 0.00 0.00 38.52 2.71
2302 4896 6.764085 TGATCTAAACTCCAACGAGAAAACAA 59.236 34.615 0.00 0.00 38.52 2.83
2303 4897 6.202188 GTGATCTAAACTCCAACGAGAAAACA 59.798 38.462 0.00 0.00 38.52 2.83
2304 4898 6.424207 AGTGATCTAAACTCCAACGAGAAAAC 59.576 38.462 0.00 0.00 38.52 2.43
2305 4899 6.423905 CAGTGATCTAAACTCCAACGAGAAAA 59.576 38.462 0.00 0.00 38.52 2.29
2306 4900 5.926542 CAGTGATCTAAACTCCAACGAGAAA 59.073 40.000 0.00 0.00 38.52 2.52
2307 4901 5.010719 ACAGTGATCTAAACTCCAACGAGAA 59.989 40.000 0.00 0.00 38.52 2.87
2308 4902 4.523173 ACAGTGATCTAAACTCCAACGAGA 59.477 41.667 0.00 0.00 38.52 4.04
2309 4903 4.810790 ACAGTGATCTAAACTCCAACGAG 58.189 43.478 0.00 0.00 42.32 4.18
2310 4904 4.866508 ACAGTGATCTAAACTCCAACGA 57.133 40.909 0.00 0.00 0.00 3.85
2311 4905 5.950883 TCTACAGTGATCTAAACTCCAACG 58.049 41.667 0.00 0.00 0.00 4.10
2312 4906 8.688151 AGTATCTACAGTGATCTAAACTCCAAC 58.312 37.037 0.00 0.00 0.00 3.77
2313 4907 8.824756 AGTATCTACAGTGATCTAAACTCCAA 57.175 34.615 0.00 0.00 0.00 3.53
2314 4908 7.502895 GGAGTATCTACAGTGATCTAAACTCCA 59.497 40.741 20.30 0.00 42.41 3.86
2315 4909 7.040271 GGGAGTATCTACAGTGATCTAAACTCC 60.040 44.444 18.52 18.52 42.28 3.85
2316 4910 7.722285 AGGGAGTATCTACAGTGATCTAAACTC 59.278 40.741 0.00 2.74 32.10 3.01
2317 4911 7.588169 AGGGAGTATCTACAGTGATCTAAACT 58.412 38.462 0.00 0.00 33.73 2.66
2318 4912 7.308109 CGAGGGAGTATCTACAGTGATCTAAAC 60.308 44.444 0.00 0.00 33.73 2.01
2319 4913 6.711194 CGAGGGAGTATCTACAGTGATCTAAA 59.289 42.308 0.00 0.00 33.73 1.85
2320 4914 6.183361 ACGAGGGAGTATCTACAGTGATCTAA 60.183 42.308 0.00 0.00 33.73 2.10
2321 4915 5.307456 ACGAGGGAGTATCTACAGTGATCTA 59.693 44.000 0.00 0.00 33.73 1.98
2322 4916 4.103469 ACGAGGGAGTATCTACAGTGATCT 59.897 45.833 0.00 0.00 33.73 2.75
2323 4917 4.391155 ACGAGGGAGTATCTACAGTGATC 58.609 47.826 0.00 0.00 33.73 2.92
2324 4918 4.440826 ACGAGGGAGTATCTACAGTGAT 57.559 45.455 0.00 0.00 33.73 3.06
2325 4919 3.928005 ACGAGGGAGTATCTACAGTGA 57.072 47.619 0.00 0.00 33.73 3.41
2326 4920 9.100554 CTTATATACGAGGGAGTATCTACAGTG 57.899 40.741 0.00 0.00 38.23 3.66
2327 4921 9.044646 TCTTATATACGAGGGAGTATCTACAGT 57.955 37.037 0.00 0.00 38.23 3.55
2332 4926 9.841295 GAGAATCTTATATACGAGGGAGTATCT 57.159 37.037 0.00 0.00 38.23 1.98
2333 4927 9.616156 TGAGAATCTTATATACGAGGGAGTATC 57.384 37.037 0.00 0.00 35.91 2.24
2334 4928 9.976776 TTGAGAATCTTATATACGAGGGAGTAT 57.023 33.333 0.00 0.00 37.26 2.12
2335 4929 9.976776 ATTGAGAATCTTATATACGAGGGAGTA 57.023 33.333 0.00 0.00 34.92 2.59
2336 4930 8.887264 ATTGAGAATCTTATATACGAGGGAGT 57.113 34.615 0.00 0.00 34.92 3.85
2337 4931 9.796120 GAATTGAGAATCTTATATACGAGGGAG 57.204 37.037 0.00 0.00 34.92 4.30
2338 4932 9.535170 AGAATTGAGAATCTTATATACGAGGGA 57.465 33.333 0.00 0.00 34.92 4.20
2359 4953 8.912988 TCACAAAAATCAAACAGGTCTAGAATT 58.087 29.630 0.00 0.00 0.00 2.17
2364 4958 9.883142 AAAATTCACAAAAATCAAACAGGTCTA 57.117 25.926 0.00 0.00 0.00 2.59
2397 5001 3.055675 TCCGTTATTGGTCGATTCAGGTT 60.056 43.478 0.00 0.00 0.00 3.50
2398 5002 2.498481 TCCGTTATTGGTCGATTCAGGT 59.502 45.455 0.00 0.00 0.00 4.00
2399 5003 3.123804 CTCCGTTATTGGTCGATTCAGG 58.876 50.000 0.00 0.00 0.00 3.86
2400 5004 2.540101 GCTCCGTTATTGGTCGATTCAG 59.460 50.000 0.00 0.00 0.00 3.02
2401 5005 2.093921 TGCTCCGTTATTGGTCGATTCA 60.094 45.455 0.00 0.00 0.00 2.57
2402 5006 2.546778 TGCTCCGTTATTGGTCGATTC 58.453 47.619 0.00 0.00 0.00 2.52
2403 5007 2.684001 TGCTCCGTTATTGGTCGATT 57.316 45.000 0.00 0.00 0.00 3.34
2404 5008 2.550978 CTTGCTCCGTTATTGGTCGAT 58.449 47.619 0.00 0.00 0.00 3.59
2405 5009 1.404986 CCTTGCTCCGTTATTGGTCGA 60.405 52.381 0.00 0.00 0.00 4.20
2406 5010 1.006832 CCTTGCTCCGTTATTGGTCG 58.993 55.000 0.00 0.00 0.00 4.79
2407 5011 1.737793 CACCTTGCTCCGTTATTGGTC 59.262 52.381 0.00 0.00 0.00 4.02
2457 5771 0.096454 GCGGGCGAAACATGACTAAC 59.904 55.000 0.00 0.00 0.00 2.34
2496 5810 6.611381 TGTGAAGTATTAACTTTGCTGATGC 58.389 36.000 0.00 0.00 46.09 3.91
2522 5836 9.334947 ACAGGTGTGATAGATCAATGAAATTAG 57.665 33.333 0.00 0.00 38.75 1.73
2524 5838 8.051535 AGACAGGTGTGATAGATCAATGAAATT 58.948 33.333 0.00 0.00 38.75 1.82
2545 9534 3.547868 CGACATACATGAAACGGAGACAG 59.452 47.826 0.00 0.00 0.00 3.51
2552 9541 3.606777 AGAACGACGACATACATGAAACG 59.393 43.478 0.00 0.42 0.00 3.60
2559 9548 4.754372 ACAAGTAGAACGACGACATACA 57.246 40.909 0.00 0.00 0.00 2.29
2579 9568 9.145865 GCCTAGTCTTGCTCAATAATAAGATAC 57.854 37.037 0.00 0.00 32.44 2.24
2595 9584 3.685139 TTTGGAGTGAGCCTAGTCTTG 57.315 47.619 0.00 0.00 0.00 3.02
2609 9598 1.066143 ACACGCCTGTAGGATTTGGAG 60.066 52.381 1.17 0.00 37.39 3.86
2621 9610 1.596260 CATCATAGCAAGACACGCCTG 59.404 52.381 0.00 0.00 0.00 4.85
2625 9614 1.863454 GCCTCATCATAGCAAGACACG 59.137 52.381 0.00 0.00 0.00 4.49
2628 9617 1.419387 AGGGCCTCATCATAGCAAGAC 59.581 52.381 0.00 0.00 0.00 3.01
2630 9619 1.893544 CAGGGCCTCATCATAGCAAG 58.106 55.000 0.95 0.00 0.00 4.01
2631 9620 0.179009 GCAGGGCCTCATCATAGCAA 60.179 55.000 0.95 0.00 0.00 3.91
2633 9622 0.888285 GTGCAGGGCCTCATCATAGC 60.888 60.000 0.95 2.23 0.00 2.97
2634 9623 0.471191 TGTGCAGGGCCTCATCATAG 59.529 55.000 0.95 0.00 0.00 2.23
2635 9624 0.471191 CTGTGCAGGGCCTCATCATA 59.529 55.000 0.95 0.00 0.00 2.15
2638 9627 2.124403 CCTGTGCAGGGCCTCATC 60.124 66.667 0.95 0.00 44.87 2.92
2651 9651 4.887071 TCATTTTGCAGACAACTTACCTGT 59.113 37.500 0.00 0.00 34.87 4.00
2654 9654 6.072112 TCTTCATTTTGCAGACAACTTACC 57.928 37.500 0.00 0.00 34.87 2.85
2659 9659 5.702865 TGCTATCTTCATTTTGCAGACAAC 58.297 37.500 0.00 0.00 34.87 3.32
2669 9669 4.946157 CCAGGACACTTGCTATCTTCATTT 59.054 41.667 0.00 0.00 0.00 2.32
2678 9678 1.559682 GGAATCCCAGGACACTTGCTA 59.440 52.381 0.00 0.00 0.00 3.49
2679 9679 0.329596 GGAATCCCAGGACACTTGCT 59.670 55.000 0.00 0.00 0.00 3.91
2680 9680 0.329596 AGGAATCCCAGGACACTTGC 59.670 55.000 0.00 0.00 33.88 4.01
2681 9681 1.352352 ACAGGAATCCCAGGACACTTG 59.648 52.381 0.00 0.00 33.88 3.16
2682 9682 1.747444 ACAGGAATCCCAGGACACTT 58.253 50.000 0.00 0.00 33.88 3.16
2721 9721 9.910511 CGGTAATACAGTGTTCACATAATTTAC 57.089 33.333 0.00 6.53 0.00 2.01
2752 9752 1.001887 TGTATGGGCCGTTGGTTCC 60.002 57.895 2.17 0.00 0.00 3.62
2761 9761 3.442977 CCTCTACTATACGTGTATGGGCC 59.557 52.174 0.00 0.00 0.00 5.80
2791 9791 9.959749 TTTTTGTTCATTACCTGTTTTAGCTAG 57.040 29.630 0.00 0.00 0.00 3.42
2833 9833 0.174845 TCAGTGTGTGGCGTATAGGC 59.825 55.000 8.93 8.93 46.95 3.93
2836 9836 3.061322 GTTGTTCAGTGTGTGGCGTATA 58.939 45.455 0.00 0.00 0.00 1.47
2837 9837 1.871039 GTTGTTCAGTGTGTGGCGTAT 59.129 47.619 0.00 0.00 0.00 3.06
2841 9841 1.292061 TACGTTGTTCAGTGTGTGGC 58.708 50.000 0.00 0.00 0.00 5.01
2842 9842 4.552355 TCTATACGTTGTTCAGTGTGTGG 58.448 43.478 0.00 0.00 0.00 4.17
2843 9843 7.027760 AGTATCTATACGTTGTTCAGTGTGTG 58.972 38.462 0.00 0.00 38.28 3.82
2844 9844 7.154435 AGTATCTATACGTTGTTCAGTGTGT 57.846 36.000 0.00 0.00 38.28 3.72
2873 9873 9.140286 CTTGACTCTTATCGTTCTTGTTCATTA 57.860 33.333 0.00 0.00 0.00 1.90
2875 9875 6.591834 CCTTGACTCTTATCGTTCTTGTTCAT 59.408 38.462 0.00 0.00 0.00 2.57
2876 9876 5.926542 CCTTGACTCTTATCGTTCTTGTTCA 59.073 40.000 0.00 0.00 0.00 3.18
2877 9877 6.089685 GTCCTTGACTCTTATCGTTCTTGTTC 59.910 42.308 0.00 0.00 0.00 3.18
2890 9892 5.998363 GTGATAAGTTTGGTCCTTGACTCTT 59.002 40.000 0.00 0.00 32.47 2.85
2907 9909 5.636965 CGCTATGAATCCTTCTGGTGATAAG 59.363 44.000 0.00 0.00 34.23 1.73
2911 9913 2.103094 CCGCTATGAATCCTTCTGGTGA 59.897 50.000 0.00 0.00 34.23 4.02
2919 9921 1.821061 CTCCGGCCGCTATGAATCCT 61.821 60.000 22.85 0.00 0.00 3.24
2934 9936 0.389391 ATCGTGTTATGAGGCCTCCG 59.611 55.000 29.95 23.10 0.00 4.63
2935 9937 1.412710 TCATCGTGTTATGAGGCCTCC 59.587 52.381 29.95 14.80 32.18 4.30
2936 9938 2.890808 TCATCGTGTTATGAGGCCTC 57.109 50.000 26.78 26.78 32.18 4.70
2937 9939 3.627395 TTTCATCGTGTTATGAGGCCT 57.373 42.857 3.86 3.86 37.20 5.19
2968 9970 1.931841 GTTTATCTCGCCGGTTCTTCC 59.068 52.381 1.90 0.00 0.00 3.46
2979 9981 7.957484 CACTTGTTATTTGGTGAGTTTATCTCG 59.043 37.037 0.00 0.00 45.46 4.04
2982 9984 7.367285 TGCACTTGTTATTTGGTGAGTTTATC 58.633 34.615 0.00 0.00 32.12 1.75
2997 9999 3.485394 TCCTGCTTTGATGCACTTGTTA 58.515 40.909 0.00 0.00 38.12 2.41
3004 10006 8.696043 AGTATTAATTATCCTGCTTTGATGCA 57.304 30.769 0.00 0.00 41.05 3.96
3031 10033 2.007608 GTCAATAAACCCTGACCGAGC 58.992 52.381 0.00 0.00 36.72 5.03


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

AutoCloner maintained by Alex Coulton.