Multiple sequence alignment - TraesCS3B01G037900

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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 TraesCS3B01G037900 chr3B 100.000 2714 0 0 1 2714 18392763 18395476 0.000000e+00 5012.0
1 TraesCS3B01G037900 chr3B 87.592 2321 179 48 111 2406 18468526 18470762 0.000000e+00 2590.0
2 TraesCS3B01G037900 chr3B 85.906 1710 171 25 183 1870 18431015 18432676 0.000000e+00 1759.0
3 TraesCS3B01G037900 chr3B 82.803 1570 195 42 857 2392 18426599 18428127 0.000000e+00 1334.0
4 TraesCS3B01G037900 chr3B 81.045 1588 228 49 859 2406 18305804 18307358 0.000000e+00 1197.0
5 TraesCS3B01G037900 chr3B 88.106 866 70 16 721 1564 18484273 18485127 0.000000e+00 998.0
6 TraesCS3B01G037900 chr3B 83.333 858 89 24 46 898 18551390 18552198 0.000000e+00 743.0
7 TraesCS3B01G037900 chr3B 91.507 365 23 3 2046 2406 18432668 18433028 1.880000e-136 496.0
8 TraesCS3B01G037900 chr3B 87.356 261 30 3 321 578 18472146 18472406 2.040000e-76 296.0
9 TraesCS3B01G037900 chr3B 91.469 211 13 2 2200 2406 18459210 18459419 4.420000e-73 285.0
10 TraesCS3B01G037900 chr3B 86.920 237 28 2 571 805 18452661 18452896 2.070000e-66 263.0
11 TraesCS3B01G037900 chr3B 84.436 257 33 6 324 578 18460769 18461020 2.090000e-61 246.0
12 TraesCS3B01G037900 chr3D 88.984 2460 177 37 1 2406 12740208 12742627 0.000000e+00 2955.0
13 TraesCS3B01G037900 chr3D 91.357 1481 100 12 939 2404 12841094 12842561 0.000000e+00 2001.0
14 TraesCS3B01G037900 chr3D 86.235 1867 182 36 571 2406 12835224 12837046 0.000000e+00 1954.0
15 TraesCS3B01G037900 chr3D 89.376 1346 103 16 1072 2406 12828830 12830146 0.000000e+00 1657.0
16 TraesCS3B01G037900 chr3D 95.506 890 32 6 1 888 12827949 12828832 0.000000e+00 1415.0
17 TraesCS3B01G037900 chr3D 85.672 1012 111 16 574 1564 12847971 12848969 0.000000e+00 1035.0
18 TraesCS3B01G037900 chr3D 83.142 261 34 3 939 1193 12824918 12825174 2.100000e-56 230.0
19 TraesCS3B01G037900 chr3A 89.411 1086 87 16 986 2049 24559896 24558817 0.000000e+00 1343.0
20 TraesCS3B01G037900 chr3A 85.155 1226 164 12 1191 2406 24529448 24528231 0.000000e+00 1240.0
21 TraesCS3B01G037900 chr3A 87.671 949 91 12 14 954 24560819 24559889 0.000000e+00 1081.0
22 TraesCS3B01G037900 chr3A 96.644 298 9 1 2416 2712 619071523 619071226 6.750000e-136 494.0
23 TraesCS3B01G037900 chr5B 97.643 297 7 0 2418 2714 335543896 335544192 6.700000e-141 510.0
24 TraesCS3B01G037900 chr1B 97.306 297 8 0 2418 2714 483123187 483122891 3.120000e-139 505.0
25 TraesCS3B01G037900 chr1B 96.970 297 9 0 2418 2714 589974027 589974323 1.450000e-137 499.0
26 TraesCS3B01G037900 chr1B 96.633 297 10 0 2418 2714 186185198 186184902 6.750000e-136 494.0
27 TraesCS3B01G037900 chr1B 82.178 202 33 3 208 408 308336512 308336711 1.290000e-38 171.0
28 TraesCS3B01G037900 chr7B 96.970 297 9 0 2418 2714 85811419 85811715 1.450000e-137 499.0
29 TraesCS3B01G037900 chr7B 85.484 62 9 0 208 269 507145646 507145585 6.270000e-07 65.8
30 TraesCS3B01G037900 chr6B 96.633 297 10 0 2418 2714 125378047 125378343 6.750000e-136 494.0
31 TraesCS3B01G037900 chr1A 96.644 298 9 1 2416 2712 554556283 554556580 6.750000e-136 494.0
32 TraesCS3B01G037900 chr4B 96.296 297 11 0 2418 2714 653536695 653536991 3.140000e-134 488.0
33 TraesCS3B01G037900 chr6D 84.896 192 28 1 203 394 144486661 144486851 2.760000e-45 193.0
34 TraesCS3B01G037900 chr1D 82.500 200 34 1 208 407 214871605 214871803 9.990000e-40 174.0


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 TraesCS3B01G037900 chr3B 18392763 18395476 2713 False 5012.000000 5012 100.000000 1 2714 1 chr3B.!!$F2 2713
1 TraesCS3B01G037900 chr3B 18468526 18472406 3880 False 1443.000000 2590 87.474000 111 2406 2 chr3B.!!$F8 2295
2 TraesCS3B01G037900 chr3B 18305804 18307358 1554 False 1197.000000 1197 81.045000 859 2406 1 chr3B.!!$F1 1547
3 TraesCS3B01G037900 chr3B 18426599 18433028 6429 False 1196.333333 1759 86.738667 183 2406 3 chr3B.!!$F6 2223
4 TraesCS3B01G037900 chr3B 18484273 18485127 854 False 998.000000 998 88.106000 721 1564 1 chr3B.!!$F4 843
5 TraesCS3B01G037900 chr3B 18551390 18552198 808 False 743.000000 743 83.333000 46 898 1 chr3B.!!$F5 852
6 TraesCS3B01G037900 chr3B 18459210 18461020 1810 False 265.500000 285 87.952500 324 2406 2 chr3B.!!$F7 2082
7 TraesCS3B01G037900 chr3D 12740208 12742627 2419 False 2955.000000 2955 88.984000 1 2406 1 chr3D.!!$F1 2405
8 TraesCS3B01G037900 chr3D 12841094 12842561 1467 False 2001.000000 2001 91.357000 939 2404 1 chr3D.!!$F3 1465
9 TraesCS3B01G037900 chr3D 12835224 12837046 1822 False 1954.000000 1954 86.235000 571 2406 1 chr3D.!!$F2 1835
10 TraesCS3B01G037900 chr3D 12824918 12830146 5228 False 1100.666667 1657 89.341333 1 2406 3 chr3D.!!$F5 2405
11 TraesCS3B01G037900 chr3D 12847971 12848969 998 False 1035.000000 1035 85.672000 574 1564 1 chr3D.!!$F4 990
12 TraesCS3B01G037900 chr3A 24528231 24529448 1217 True 1240.000000 1240 85.155000 1191 2406 1 chr3A.!!$R1 1215
13 TraesCS3B01G037900 chr3A 24558817 24560819 2002 True 1212.000000 1343 88.541000 14 2049 2 chr3A.!!$R3 2035

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
170 3218 0.550914 ATGTGTTGTGGACCTGTGGT 59.449 50.0 0.0 0.0 39.44 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1845 6235 0.032678 CCCTAGGTATGCAGTGCTCG 59.967 60.0 17.6 0.0 0.0 5.03 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
54 3086 4.901197 TTCTTGGGTTAGATGCACTACA 57.099 40.909 0.00 0.00 0.00 2.74
81 3113 3.902261 TCGTTGTAAAGTCGCAGAGTA 57.098 42.857 0.00 0.00 40.67 2.59
162 3210 6.707440 ATTTCTTGTGTTATGTGTTGTGGA 57.293 33.333 0.00 0.00 0.00 4.02
166 3214 3.210227 TGTGTTATGTGTTGTGGACCTG 58.790 45.455 0.00 0.00 0.00 4.00
167 3215 3.211045 GTGTTATGTGTTGTGGACCTGT 58.789 45.455 0.00 0.00 0.00 4.00
168 3216 3.003275 GTGTTATGTGTTGTGGACCTGTG 59.997 47.826 0.00 0.00 0.00 3.66
169 3217 2.552315 GTTATGTGTTGTGGACCTGTGG 59.448 50.000 0.00 0.00 0.00 4.17
170 3218 0.550914 ATGTGTTGTGGACCTGTGGT 59.449 50.000 0.00 0.00 39.44 4.16
182 3233 4.595781 TGGACCTGTGGTAAGTGTTCTAAT 59.404 41.667 0.00 0.00 35.25 1.73
183 3234 5.072600 TGGACCTGTGGTAAGTGTTCTAATT 59.927 40.000 0.00 0.00 35.25 1.40
184 3235 5.642491 GGACCTGTGGTAAGTGTTCTAATTC 59.358 44.000 0.00 0.00 35.25 2.17
186 3237 6.465084 ACCTGTGGTAAGTGTTCTAATTCTC 58.535 40.000 0.00 0.00 32.11 2.87
340 4589 7.066766 CCATCTCTGAGGAAGAAATTAGGTTTG 59.933 40.741 4.59 0.00 33.37 2.93
388 4637 6.671614 TGTGAATCGAACACTACTTTGTTT 57.328 33.333 20.79 0.00 39.88 2.83
404 4655 7.363205 ACTTTGTTTGTTGACCTTGAATTTG 57.637 32.000 0.00 0.00 0.00 2.32
415 4666 6.467677 TGACCTTGAATTTGTTTTTCCACAA 58.532 32.000 0.00 0.00 34.76 3.33
462 4714 4.411256 TTGAAACCCTTACACTTCGTCT 57.589 40.909 0.00 0.00 0.00 4.18
563 4818 7.582352 CATCTTATGAAGACACCATGCTAATG 58.418 38.462 0.00 0.00 41.01 1.90
580 4835 5.066375 TGCTAATGTTCATCAATTTCGGAGG 59.934 40.000 0.00 0.00 0.00 4.30
805 5062 1.439679 GCTCGGAACCCTTACACTTG 58.560 55.000 0.00 0.00 0.00 3.16
808 5065 1.345415 TCGGAACCCTTACACTTGGAC 59.655 52.381 0.00 0.00 0.00 4.02
910 5172 1.268899 CTTTGTCTGCAGGCCTTTGAG 59.731 52.381 17.28 0.00 0.00 3.02
1103 5401 4.501285 AGCTGCCATGGCGAGCAT 62.501 61.111 38.83 28.48 45.51 3.79
1477 5789 1.081892 CTTCCATCTTGACACCAGCG 58.918 55.000 0.00 0.00 0.00 5.18
1513 5825 2.052690 AGATGGTCGGACCTGGACG 61.053 63.158 26.41 4.84 39.58 4.79
1539 5866 7.863877 GTCTAAATCAAACATATGCATGCATGA 59.136 33.333 37.43 27.85 37.82 3.07
1574 5931 2.507944 GCTCCGGCTGGTGATCAT 59.492 61.111 17.90 0.00 36.30 2.45
1575 5932 1.890979 GCTCCGGCTGGTGATCATG 60.891 63.158 17.90 0.00 36.30 3.07
1576 5933 1.825341 CTCCGGCTGGTGATCATGA 59.175 57.895 12.43 0.00 36.30 3.07
1577 5934 0.249784 CTCCGGCTGGTGATCATGAG 60.250 60.000 12.43 0.00 36.30 2.90
1578 5935 0.977627 TCCGGCTGGTGATCATGAGT 60.978 55.000 12.43 0.00 36.30 3.41
1579 5936 0.107508 CCGGCTGGTGATCATGAGTT 60.108 55.000 2.29 0.00 0.00 3.01
1580 5937 1.293924 CGGCTGGTGATCATGAGTTC 58.706 55.000 0.00 0.00 0.00 3.01
1581 5938 1.405933 CGGCTGGTGATCATGAGTTCA 60.406 52.381 0.00 0.00 0.00 3.18
1582 5939 2.012673 GGCTGGTGATCATGAGTTCAC 58.987 52.381 17.56 17.56 41.57 3.18
1583 5940 2.355513 GGCTGGTGATCATGAGTTCACT 60.356 50.000 22.52 0.00 41.85 3.41
1584 5941 2.676839 GCTGGTGATCATGAGTTCACTG 59.323 50.000 22.52 17.60 41.85 3.66
1585 5942 3.867600 GCTGGTGATCATGAGTTCACTGT 60.868 47.826 22.52 0.00 41.85 3.55
1586 5943 4.321718 CTGGTGATCATGAGTTCACTGTT 58.678 43.478 22.52 0.00 41.85 3.16
1587 5944 4.318332 TGGTGATCATGAGTTCACTGTTC 58.682 43.478 22.52 11.05 41.85 3.18
1588 5945 4.202346 TGGTGATCATGAGTTCACTGTTCA 60.202 41.667 22.52 12.94 41.85 3.18
1617 5974 7.269297 GTGAATCGAGTTATTTGCTTTCAAGTC 59.731 37.037 0.00 0.00 33.12 3.01
1815 6200 5.986004 AGTTTGTAAGTGTGTAACTCAGC 57.014 39.130 0.00 0.00 38.56 4.26
1845 6235 1.549170 TCTTAGCTCGTTGTCCCCTTC 59.451 52.381 0.00 0.00 0.00 3.46
1887 6277 1.730064 TCTCGTGCCTTAAAATGCGTC 59.270 47.619 0.00 0.00 0.00 5.19
1891 6281 2.324860 GTGCCTTAAAATGCGTCCAAC 58.675 47.619 0.00 0.00 0.00 3.77
1955 6346 6.052840 GTGATCGCACAAACATTCATAGAT 57.947 37.500 0.16 0.00 44.51 1.98
2018 6441 0.250770 GAAGGTTTGCGAGAAGGGGT 60.251 55.000 0.00 0.00 0.00 4.95
2049 6476 0.827925 TGACACAGAAGCTCGAGGGT 60.828 55.000 15.58 0.00 0.00 4.34
2058 6485 0.610687 AGCTCGAGGGTTTCTTGGAG 59.389 55.000 15.58 0.00 32.72 3.86
2098 6525 1.138859 TCGATCGCCATGGAATCAAGT 59.861 47.619 18.40 0.00 0.00 3.16
2112 6539 5.222130 TGGAATCAAGTAGGAAAAGAAGGCT 60.222 40.000 0.00 0.00 0.00 4.58
2142 6571 4.778143 ACCTTCATGGCGGCGACC 62.778 66.667 11.74 12.18 40.22 4.79
2225 6656 2.831565 AGAGAGGAGGTTTGAGCTCAT 58.168 47.619 19.04 1.31 44.10 2.90
2258 6690 4.342092 AGAGGAAACCAAAATGTTGACCAG 59.658 41.667 0.00 0.00 36.83 4.00
2259 6691 4.285863 AGGAAACCAAAATGTTGACCAGA 58.714 39.130 0.00 0.00 36.83 3.86
2260 6692 4.901250 AGGAAACCAAAATGTTGACCAGAT 59.099 37.500 0.00 0.00 36.83 2.90
2261 6693 4.990426 GGAAACCAAAATGTTGACCAGATG 59.010 41.667 0.00 0.00 36.83 2.90
2264 6696 3.573967 ACCAAAATGTTGACCAGATGGAC 59.426 43.478 5.72 0.00 36.83 4.02
2265 6697 3.573538 CCAAAATGTTGACCAGATGGACA 59.426 43.478 5.72 2.47 36.83 4.02
2272 6707 2.329267 TGACCAGATGGACAGAGTTGT 58.671 47.619 5.72 0.00 41.18 3.32
2302 6737 1.226030 GGCAAAGGTCGTGTAAGCGT 61.226 55.000 0.00 0.00 0.00 5.07
2304 6739 1.003223 GCAAAGGTCGTGTAAGCGTTT 60.003 47.619 0.00 0.00 0.00 3.60
2406 6841 2.556559 GGGGAGGCATGGAAAACTTGTA 60.557 50.000 0.00 0.00 0.00 2.41
2407 6842 2.492088 GGGAGGCATGGAAAACTTGTAC 59.508 50.000 0.00 0.00 0.00 2.90
2408 6843 3.421844 GGAGGCATGGAAAACTTGTACT 58.578 45.455 0.00 0.00 0.00 2.73
2409 6844 3.440522 GGAGGCATGGAAAACTTGTACTC 59.559 47.826 0.00 0.00 33.66 2.59
2410 6845 4.072131 GAGGCATGGAAAACTTGTACTCA 58.928 43.478 0.00 0.00 34.11 3.41
2411 6846 3.821033 AGGCATGGAAAACTTGTACTCAC 59.179 43.478 0.00 0.00 0.00 3.51
2412 6847 3.057526 GGCATGGAAAACTTGTACTCACC 60.058 47.826 0.00 0.00 0.00 4.02
2413 6848 3.568007 GCATGGAAAACTTGTACTCACCA 59.432 43.478 0.00 0.00 0.00 4.17
2414 6849 4.037446 GCATGGAAAACTTGTACTCACCAA 59.963 41.667 0.00 0.00 0.00 3.67
2415 6850 5.278957 GCATGGAAAACTTGTACTCACCAAT 60.279 40.000 0.00 0.00 0.00 3.16
2416 6851 6.381801 CATGGAAAACTTGTACTCACCAATC 58.618 40.000 0.00 0.00 0.00 2.67
2417 6852 5.441500 TGGAAAACTTGTACTCACCAATCA 58.558 37.500 0.00 0.00 0.00 2.57
2418 6853 5.298276 TGGAAAACTTGTACTCACCAATCAC 59.702 40.000 0.00 0.00 0.00 3.06
2419 6854 5.278315 GGAAAACTTGTACTCACCAATCACC 60.278 44.000 0.00 0.00 0.00 4.02
2430 7890 6.176183 ACTCACCAATCACCTCTTTATCTTG 58.824 40.000 0.00 0.00 0.00 3.02
2431 7891 4.943705 TCACCAATCACCTCTTTATCTTGC 59.056 41.667 0.00 0.00 0.00 4.01
2433 7893 5.065731 CACCAATCACCTCTTTATCTTGCTC 59.934 44.000 0.00 0.00 0.00 4.26
2434 7894 5.045286 ACCAATCACCTCTTTATCTTGCTCT 60.045 40.000 0.00 0.00 0.00 4.09
2436 7896 6.183360 CCAATCACCTCTTTATCTTGCTCTTG 60.183 42.308 0.00 0.00 0.00 3.02
2437 7897 5.489792 TCACCTCTTTATCTTGCTCTTGT 57.510 39.130 0.00 0.00 0.00 3.16
2438 7898 5.869579 TCACCTCTTTATCTTGCTCTTGTT 58.130 37.500 0.00 0.00 0.00 2.83
2439 7899 5.934625 TCACCTCTTTATCTTGCTCTTGTTC 59.065 40.000 0.00 0.00 0.00 3.18
2441 7901 6.091986 CACCTCTTTATCTTGCTCTTGTTCTC 59.908 42.308 0.00 0.00 0.00 2.87
2442 7902 5.584251 CCTCTTTATCTTGCTCTTGTTCTCC 59.416 44.000 0.00 0.00 0.00 3.71
2443 7903 6.365970 TCTTTATCTTGCTCTTGTTCTCCT 57.634 37.500 0.00 0.00 0.00 3.69
2444 7904 6.402222 TCTTTATCTTGCTCTTGTTCTCCTC 58.598 40.000 0.00 0.00 0.00 3.71
2445 7905 3.625649 ATCTTGCTCTTGTTCTCCTCC 57.374 47.619 0.00 0.00 0.00 4.30
2447 7907 2.975489 TCTTGCTCTTGTTCTCCTCCTT 59.025 45.455 0.00 0.00 0.00 3.36
2448 7908 2.847327 TGCTCTTGTTCTCCTCCTTG 57.153 50.000 0.00 0.00 0.00 3.61
2450 7910 2.224378 TGCTCTTGTTCTCCTCCTTGTG 60.224 50.000 0.00 0.00 0.00 3.33
2451 7911 2.421619 CTCTTGTTCTCCTCCTTGTGC 58.578 52.381 0.00 0.00 0.00 4.57
2453 7913 1.072965 CTTGTTCTCCTCCTTGTGCCT 59.927 52.381 0.00 0.00 0.00 4.75
2454 7914 0.397941 TGTTCTCCTCCTTGTGCCTG 59.602 55.000 0.00 0.00 0.00 4.85
2457 7917 1.661463 TCTCCTCCTTGTGCCTGAAT 58.339 50.000 0.00 0.00 0.00 2.57
2459 7919 3.181329 TCTCCTCCTTGTGCCTGAATAA 58.819 45.455 0.00 0.00 0.00 1.40
2460 7920 3.587061 TCTCCTCCTTGTGCCTGAATAAA 59.413 43.478 0.00 0.00 0.00 1.40
2462 7922 4.526970 TCCTCCTTGTGCCTGAATAAATC 58.473 43.478 0.00 0.00 0.00 2.17
2463 7923 4.018506 TCCTCCTTGTGCCTGAATAAATCA 60.019 41.667 0.00 0.00 36.38 2.57
2465 7925 4.016444 TCCTTGTGCCTGAATAAATCACC 58.984 43.478 0.00 0.00 33.47 4.02
2466 7926 3.763360 CCTTGTGCCTGAATAAATCACCA 59.237 43.478 0.00 0.00 33.47 4.17
2467 7927 4.220382 CCTTGTGCCTGAATAAATCACCAA 59.780 41.667 0.00 0.00 33.47 3.67
2468 7928 5.105228 CCTTGTGCCTGAATAAATCACCAAT 60.105 40.000 0.00 0.00 33.47 3.16
2469 7929 5.581126 TGTGCCTGAATAAATCACCAATC 57.419 39.130 0.00 0.00 33.47 2.67
2471 7931 5.657745 TGTGCCTGAATAAATCACCAATCAT 59.342 36.000 0.00 0.00 33.47 2.45
2472 7932 5.981315 GTGCCTGAATAAATCACCAATCATG 59.019 40.000 0.00 0.00 33.47 3.07
2473 7933 5.657745 TGCCTGAATAAATCACCAATCATGT 59.342 36.000 0.00 0.00 33.47 3.21
2478 8084 9.112725 CTGAATAAATCACCAATCATGTACTCA 57.887 33.333 0.00 0.00 33.47 3.41
2479 8085 9.460019 TGAATAAATCACCAATCATGTACTCAA 57.540 29.630 0.00 0.00 31.50 3.02
2480 8086 9.941664 GAATAAATCACCAATCATGTACTCAAG 57.058 33.333 0.00 0.00 0.00 3.02
2482 8088 7.765695 AAATCACCAATCATGTACTCAAGTT 57.234 32.000 0.00 0.00 0.00 2.66
2483 8089 7.765695 AATCACCAATCATGTACTCAAGTTT 57.234 32.000 0.00 0.00 0.00 2.66
2486 8092 6.998074 TCACCAATCATGTACTCAAGTTTCTT 59.002 34.615 0.00 0.00 0.00 2.52
2487 8093 7.173218 TCACCAATCATGTACTCAAGTTTCTTC 59.827 37.037 0.00 0.00 0.00 2.87
2490 8096 8.233190 CCAATCATGTACTCAAGTTTCTTCTTC 58.767 37.037 0.00 0.00 0.00 2.87
2492 8098 8.770438 ATCATGTACTCAAGTTTCTTCTTCTC 57.230 34.615 0.00 0.00 0.00 2.87
2493 8099 7.155328 TCATGTACTCAAGTTTCTTCTTCTCC 58.845 38.462 0.00 0.00 0.00 3.71
2500 8106 6.889198 TCAAGTTTCTTCTTCTCCTTCTTCA 58.111 36.000 0.00 0.00 0.00 3.02
2506 8112 5.090139 TCTTCTTCTCCTTCTTCAGGTCAT 58.910 41.667 0.00 0.00 44.37 3.06
2508 8114 3.772025 TCTTCTCCTTCTTCAGGTCATCC 59.228 47.826 0.00 0.00 44.37 3.51
2509 8115 2.472029 TCTCCTTCTTCAGGTCATCCC 58.528 52.381 0.00 0.00 44.37 3.85
2517 8228 1.561643 TCAGGTCATCCCTCTGTGAC 58.438 55.000 0.00 0.00 43.86 3.67
2519 8230 1.066573 CAGGTCATCCCTCTGTGACAC 60.067 57.143 0.00 0.00 43.86 3.67
2525 8236 3.136443 TCATCCCTCTGTGACACAACTTT 59.864 43.478 10.02 0.00 0.00 2.66
2527 8238 2.238646 TCCCTCTGTGACACAACTTTGT 59.761 45.455 10.02 0.00 43.36 2.83
2528 8239 2.614057 CCCTCTGTGACACAACTTTGTC 59.386 50.000 10.02 0.00 45.34 3.18
2530 8241 3.270027 CTCTGTGACACAACTTTGTCCA 58.730 45.455 10.02 0.00 44.63 4.02
2531 8242 3.680490 TCTGTGACACAACTTTGTCCAA 58.320 40.909 10.02 0.00 44.63 3.53
2534 8245 3.438781 TGTGACACAACTTTGTCCAACTC 59.561 43.478 5.62 0.00 44.63 3.01
2535 8246 3.689649 GTGACACAACTTTGTCCAACTCT 59.310 43.478 0.00 0.00 44.63 3.24
2536 8247 4.156008 GTGACACAACTTTGTCCAACTCTT 59.844 41.667 0.00 0.00 44.63 2.85
2537 8248 4.394920 TGACACAACTTTGTCCAACTCTTC 59.605 41.667 0.98 0.00 44.63 2.87
2538 8249 3.694566 ACACAACTTTGTCCAACTCTTCC 59.305 43.478 0.00 0.00 39.91 3.46
2539 8250 3.947834 CACAACTTTGTCCAACTCTTCCT 59.052 43.478 0.00 0.00 39.91 3.36
2540 8251 4.399303 CACAACTTTGTCCAACTCTTCCTT 59.601 41.667 0.00 0.00 39.91 3.36
2541 8252 4.640647 ACAACTTTGTCCAACTCTTCCTTC 59.359 41.667 0.00 0.00 36.50 3.46
2543 8254 5.053978 ACTTTGTCCAACTCTTCCTTCAT 57.946 39.130 0.00 0.00 0.00 2.57
2544 8255 4.823989 ACTTTGTCCAACTCTTCCTTCATG 59.176 41.667 0.00 0.00 0.00 3.07
2547 8258 4.136796 TGTCCAACTCTTCCTTCATGTTG 58.863 43.478 0.00 0.00 38.08 3.33
2548 8259 4.137543 GTCCAACTCTTCCTTCATGTTGT 58.862 43.478 0.00 0.00 37.04 3.32
2549 8260 4.214332 GTCCAACTCTTCCTTCATGTTGTC 59.786 45.833 0.00 0.00 37.04 3.18
2550 8261 3.503748 CCAACTCTTCCTTCATGTTGTCC 59.496 47.826 0.00 0.00 37.04 4.02
2551 8262 4.136796 CAACTCTTCCTTCATGTTGTCCA 58.863 43.478 0.00 0.00 34.91 4.02
2555 8266 4.582869 TCTTCCTTCATGTTGTCCATCTG 58.417 43.478 0.00 0.00 0.00 2.90
2556 8267 4.042062 TCTTCCTTCATGTTGTCCATCTGT 59.958 41.667 0.00 0.00 0.00 3.41
2557 8268 4.371624 TCCTTCATGTTGTCCATCTGTT 57.628 40.909 0.00 0.00 0.00 3.16
2558 8269 4.326826 TCCTTCATGTTGTCCATCTGTTC 58.673 43.478 0.00 0.00 0.00 3.18
2559 8270 3.441572 CCTTCATGTTGTCCATCTGTTCC 59.558 47.826 0.00 0.00 0.00 3.62
2560 8271 4.330250 CTTCATGTTGTCCATCTGTTCCT 58.670 43.478 0.00 0.00 0.00 3.36
2561 8272 4.371624 TCATGTTGTCCATCTGTTCCTT 57.628 40.909 0.00 0.00 0.00 3.36
2562 8273 4.326826 TCATGTTGTCCATCTGTTCCTTC 58.673 43.478 0.00 0.00 0.00 3.46
2563 8274 3.855255 TGTTGTCCATCTGTTCCTTCA 57.145 42.857 0.00 0.00 0.00 3.02
2564 8275 4.371624 TGTTGTCCATCTGTTCCTTCAT 57.628 40.909 0.00 0.00 0.00 2.57
2565 8276 4.074259 TGTTGTCCATCTGTTCCTTCATG 58.926 43.478 0.00 0.00 0.00 3.07
2566 8277 4.074970 GTTGTCCATCTGTTCCTTCATGT 58.925 43.478 0.00 0.00 0.00 3.21
2568 8279 4.074259 TGTCCATCTGTTCCTTCATGTTG 58.926 43.478 0.00 0.00 0.00 3.33
2569 8280 4.074970 GTCCATCTGTTCCTTCATGTTGT 58.925 43.478 0.00 0.00 0.00 3.32
2570 8281 4.154918 GTCCATCTGTTCCTTCATGTTGTC 59.845 45.833 0.00 0.00 0.00 3.18
2571 8282 3.441572 CCATCTGTTCCTTCATGTTGTCC 59.558 47.826 0.00 0.00 0.00 4.02
2572 8283 3.855255 TCTGTTCCTTCATGTTGTCCA 57.145 42.857 0.00 0.00 0.00 4.02
2574 8285 4.326826 TCTGTTCCTTCATGTTGTCCATC 58.673 43.478 0.00 0.00 0.00 3.51
2575 8286 4.042062 TCTGTTCCTTCATGTTGTCCATCT 59.958 41.667 0.00 0.00 0.00 2.90
2576 8287 4.074259 TGTTCCTTCATGTTGTCCATCTG 58.926 43.478 0.00 0.00 0.00 2.90
2577 8288 4.074970 GTTCCTTCATGTTGTCCATCTGT 58.925 43.478 0.00 0.00 0.00 3.41
2580 8291 3.366679 CCTTCATGTTGTCCATCTGTTGC 60.367 47.826 0.00 0.00 0.00 4.17
2581 8292 3.144657 TCATGTTGTCCATCTGTTGCT 57.855 42.857 0.00 0.00 0.00 3.91
2582 8293 3.489355 TCATGTTGTCCATCTGTTGCTT 58.511 40.909 0.00 0.00 0.00 3.91
2583 8294 3.503363 TCATGTTGTCCATCTGTTGCTTC 59.497 43.478 0.00 0.00 0.00 3.86
2584 8295 2.929641 TGTTGTCCATCTGTTGCTTCA 58.070 42.857 0.00 0.00 0.00 3.02
2585 8296 3.489355 TGTTGTCCATCTGTTGCTTCAT 58.511 40.909 0.00 0.00 0.00 2.57
2586 8297 3.503363 TGTTGTCCATCTGTTGCTTCATC 59.497 43.478 0.00 0.00 0.00 2.92
2587 8298 3.708403 TGTCCATCTGTTGCTTCATCT 57.292 42.857 0.00 0.00 0.00 2.90
2588 8299 3.603532 TGTCCATCTGTTGCTTCATCTC 58.396 45.455 0.00 0.00 0.00 2.75
2589 8300 3.008266 TGTCCATCTGTTGCTTCATCTCA 59.992 43.478 0.00 0.00 0.00 3.27
2590 8301 4.197750 GTCCATCTGTTGCTTCATCTCAT 58.802 43.478 0.00 0.00 0.00 2.90
2592 8303 3.564644 CCATCTGTTGCTTCATCTCATCC 59.435 47.826 0.00 0.00 0.00 3.51
2593 8304 3.272574 TCTGTTGCTTCATCTCATCCC 57.727 47.619 0.00 0.00 0.00 3.85
2594 8305 2.842496 TCTGTTGCTTCATCTCATCCCT 59.158 45.455 0.00 0.00 0.00 4.20
2595 8306 3.118482 TCTGTTGCTTCATCTCATCCCTC 60.118 47.826 0.00 0.00 0.00 4.30
2597 8308 3.118482 TGTTGCTTCATCTCATCCCTCTC 60.118 47.826 0.00 0.00 0.00 3.20
2598 8309 3.043465 TGCTTCATCTCATCCCTCTCT 57.957 47.619 0.00 0.00 0.00 3.10
2599 8310 3.382278 TGCTTCATCTCATCCCTCTCTT 58.618 45.455 0.00 0.00 0.00 2.85
2601 8312 4.141756 TGCTTCATCTCATCCCTCTCTTTC 60.142 45.833 0.00 0.00 0.00 2.62
2602 8313 4.101430 GCTTCATCTCATCCCTCTCTTTCT 59.899 45.833 0.00 0.00 0.00 2.52
2603 8314 5.739935 GCTTCATCTCATCCCTCTCTTTCTC 60.740 48.000 0.00 0.00 0.00 2.87
2606 8317 3.030291 TCTCATCCCTCTCTTTCTCTGC 58.970 50.000 0.00 0.00 0.00 4.26
2608 8319 2.117865 CATCCCTCTCTTTCTCTGCCT 58.882 52.381 0.00 0.00 0.00 4.75
2610 8321 3.474798 TCCCTCTCTTTCTCTGCCTTA 57.525 47.619 0.00 0.00 0.00 2.69
2612 8323 2.158971 CCCTCTCTTTCTCTGCCTTAGC 60.159 54.545 0.00 0.00 40.48 3.09
2613 8324 2.158971 CCTCTCTTTCTCTGCCTTAGCC 60.159 54.545 0.00 0.00 38.69 3.93
2614 8325 1.834263 TCTCTTTCTCTGCCTTAGCCC 59.166 52.381 0.00 0.00 38.69 5.19
2616 8327 1.834263 TCTTTCTCTGCCTTAGCCCTC 59.166 52.381 0.00 0.00 38.69 4.30
2617 8328 1.556911 CTTTCTCTGCCTTAGCCCTCA 59.443 52.381 0.00 0.00 38.69 3.86
2618 8329 0.905357 TTCTCTGCCTTAGCCCTCAC 59.095 55.000 0.00 0.00 38.69 3.51
2619 8330 0.252239 TCTCTGCCTTAGCCCTCACA 60.252 55.000 0.00 0.00 38.69 3.58
2620 8331 0.615331 CTCTGCCTTAGCCCTCACAA 59.385 55.000 0.00 0.00 38.69 3.33
2621 8332 0.324943 TCTGCCTTAGCCCTCACAAC 59.675 55.000 0.00 0.00 38.69 3.32
2622 8333 0.678048 CTGCCTTAGCCCTCACAACC 60.678 60.000 0.00 0.00 38.69 3.77
2623 8334 1.133809 TGCCTTAGCCCTCACAACCT 61.134 55.000 0.00 0.00 38.69 3.50
2624 8335 0.678048 GCCTTAGCCCTCACAACCTG 60.678 60.000 0.00 0.00 0.00 4.00
2626 8337 1.561542 CCTTAGCCCTCACAACCTGAT 59.438 52.381 0.00 0.00 0.00 2.90
2627 8338 2.636830 CTTAGCCCTCACAACCTGATG 58.363 52.381 0.00 0.00 0.00 3.07
2628 8339 1.951209 TAGCCCTCACAACCTGATGA 58.049 50.000 0.00 0.00 0.00 2.92
2629 8340 1.067295 AGCCCTCACAACCTGATGAA 58.933 50.000 0.00 0.00 0.00 2.57
2633 8390 3.894759 CCCTCACAACCTGATGAATGAT 58.105 45.455 0.00 0.00 0.00 2.45
2638 8395 4.877823 TCACAACCTGATGAATGATAGTGC 59.122 41.667 0.00 0.00 0.00 4.40
2640 8397 6.051074 CACAACCTGATGAATGATAGTGCTA 58.949 40.000 0.00 0.00 0.00 3.49
2646 8403 8.874156 ACCTGATGAATGATAGTGCTAGATTTA 58.126 33.333 0.00 0.00 0.00 1.40
2652 8409 9.920133 TGAATGATAGTGCTAGATTTATCAGAC 57.080 33.333 12.81 10.38 36.35 3.51
2654 8411 9.926158 AATGATAGTGCTAGATTTATCAGACAG 57.074 33.333 12.81 0.00 36.35 3.51
2655 8412 7.374272 TGATAGTGCTAGATTTATCAGACAGC 58.626 38.462 0.00 0.00 31.07 4.40
2657 8414 6.232581 AGTGCTAGATTTATCAGACAGCTT 57.767 37.500 0.00 0.00 0.00 3.74
2659 8416 6.098124 AGTGCTAGATTTATCAGACAGCTTCT 59.902 38.462 0.00 0.00 33.33 2.85
2662 8419 7.147759 TGCTAGATTTATCAGACAGCTTCTTCT 60.148 37.037 0.00 0.00 28.96 2.85
2663 8420 7.710475 GCTAGATTTATCAGACAGCTTCTTCTT 59.290 37.037 0.00 0.00 28.96 2.52
2664 8421 9.248291 CTAGATTTATCAGACAGCTTCTTCTTC 57.752 37.037 0.00 0.00 28.96 2.87
2666 8423 7.981225 AGATTTATCAGACAGCTTCTTCTTCTC 59.019 37.037 0.00 0.00 28.96 2.87
2667 8424 6.596309 TTATCAGACAGCTTCTTCTTCTCA 57.404 37.500 0.00 0.00 28.96 3.27
2668 8425 4.944619 TCAGACAGCTTCTTCTTCTCAA 57.055 40.909 0.00 0.00 28.96 3.02
2669 8426 4.880759 TCAGACAGCTTCTTCTTCTCAAG 58.119 43.478 0.00 0.00 28.96 3.02
2670 8427 3.432933 CAGACAGCTTCTTCTTCTCAAGC 59.567 47.826 0.00 0.00 42.48 4.01
2675 8432 4.666928 GCTTCTTCTTCTCAAGCTCTTG 57.333 45.455 3.32 3.32 39.61 3.02
2676 8433 3.120234 GCTTCTTCTTCTCAAGCTCTTGC 60.120 47.826 4.81 0.00 39.61 4.01
2687 8444 3.923354 GCTCTTGCTTCAGGTCAGA 57.077 52.632 0.00 0.00 36.03 3.27
2688 8445 2.175878 GCTCTTGCTTCAGGTCAGAA 57.824 50.000 0.00 0.00 36.03 3.02
2689 8446 2.498167 GCTCTTGCTTCAGGTCAGAAA 58.502 47.619 0.00 0.00 36.03 2.52
2690 8447 2.483491 GCTCTTGCTTCAGGTCAGAAAG 59.517 50.000 0.00 0.00 36.03 2.62
2691 8448 3.805108 GCTCTTGCTTCAGGTCAGAAAGA 60.805 47.826 0.00 0.00 36.03 2.52
2692 8449 3.995705 CTCTTGCTTCAGGTCAGAAAGAG 59.004 47.826 3.72 3.72 0.00 2.85
2701 8458 3.497640 CAGGTCAGAAAGAGCAAGTCTTG 59.502 47.826 8.31 8.31 45.44 3.02
2713 8470 3.048337 CAAGTCTTGCATTGCCCAATT 57.952 42.857 6.12 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 3076 1.942657 ACGATTGCCATGTAGTGCATC 59.057 47.619 0.00 0.00 37.33 3.91
54 3086 2.159572 GCGACTTTACAACGATTGCCAT 60.160 45.455 0.00 0.00 0.00 4.40
156 3204 1.841277 ACACTTACCACAGGTCCACAA 59.159 47.619 0.00 0.00 37.09 3.33
162 3210 6.042781 TGAGAATTAGAACACTTACCACAGGT 59.957 38.462 0.00 0.00 40.16 4.00
166 3214 8.837389 ACTTTTGAGAATTAGAACACTTACCAC 58.163 33.333 0.00 0.00 0.00 4.16
167 3215 8.974060 ACTTTTGAGAATTAGAACACTTACCA 57.026 30.769 0.00 0.00 0.00 3.25
168 3216 9.880064 GAACTTTTGAGAATTAGAACACTTACC 57.120 33.333 0.00 0.00 0.00 2.85
182 3233 4.499019 GGGCGTTGATTGAACTTTTGAGAA 60.499 41.667 0.00 0.00 31.70 2.87
183 3234 3.004315 GGGCGTTGATTGAACTTTTGAGA 59.996 43.478 0.00 0.00 31.70 3.27
184 3235 3.243367 TGGGCGTTGATTGAACTTTTGAG 60.243 43.478 0.00 0.00 31.70 3.02
186 3237 3.090952 TGGGCGTTGATTGAACTTTTG 57.909 42.857 0.00 0.00 31.70 2.44
340 4589 3.382048 AACTTGACACGTTCCCTCTAC 57.618 47.619 0.00 0.00 0.00 2.59
388 4637 6.370166 GTGGAAAAACAAATTCAAGGTCAACA 59.630 34.615 0.00 0.00 0.00 3.33
415 4666 0.041535 ACCCCACATGCCACATTGAT 59.958 50.000 0.00 0.00 0.00 2.57
462 4714 7.933577 ACTTCATGTAGAAATCAAACACTCTCA 59.066 33.333 6.32 0.00 35.40 3.27
563 4818 3.000727 ACGACCTCCGAAATTGATGAAC 58.999 45.455 0.00 0.00 41.76 3.18
580 4835 7.060600 TCATTGAACATATCACTCAAACGAC 57.939 36.000 0.00 0.00 37.92 4.34
753 5009 2.489329 CCTGCCACACTGGAGTTAATTG 59.511 50.000 0.00 0.00 40.96 2.32
910 5172 6.924612 GTCTCGTCTAAGAAATAAGAATCCCC 59.075 42.308 0.00 0.00 0.00 4.81
1103 5401 3.620419 ATCACCGCGGCATTGGTCA 62.620 57.895 28.58 0.18 35.96 4.02
1477 5789 2.125106 GATGTCCACCTGGCCGAC 60.125 66.667 0.00 0.00 34.44 4.79
1513 5825 7.863877 TCATGCATGCATATGTTTGATTTAGAC 59.136 33.333 31.73 0.00 36.65 2.59
1539 5866 0.525668 GCTGAACGATCGACCGACAT 60.526 55.000 24.34 0.00 0.00 3.06
1574 5931 1.478916 TCACCGTGAACAGTGAACTCA 59.521 47.619 0.00 0.00 39.96 3.41
1575 5932 2.218953 TCACCGTGAACAGTGAACTC 57.781 50.000 0.00 0.00 39.96 3.01
1576 5933 2.684001 TTCACCGTGAACAGTGAACT 57.316 45.000 9.99 0.00 45.53 3.01
1579 5936 1.338655 TCGATTCACCGTGAACAGTGA 59.661 47.619 16.15 8.84 39.45 3.41
1580 5937 1.721389 CTCGATTCACCGTGAACAGTG 59.279 52.381 16.15 9.96 39.45 3.66
1581 5938 1.340248 ACTCGATTCACCGTGAACAGT 59.660 47.619 16.15 14.37 39.45 3.55
1582 5939 2.065993 ACTCGATTCACCGTGAACAG 57.934 50.000 16.15 13.80 39.45 3.16
1583 5940 2.519377 AACTCGATTCACCGTGAACA 57.481 45.000 16.15 3.07 39.45 3.18
1584 5941 5.313623 CAAATAACTCGATTCACCGTGAAC 58.686 41.667 16.15 9.36 39.45 3.18
1585 5942 4.142988 GCAAATAACTCGATTCACCGTGAA 60.143 41.667 16.15 16.15 41.09 3.18
1586 5943 3.369756 GCAAATAACTCGATTCACCGTGA 59.630 43.478 0.00 0.00 0.00 4.35
1587 5944 3.370978 AGCAAATAACTCGATTCACCGTG 59.629 43.478 0.00 0.00 0.00 4.94
1588 5945 3.596214 AGCAAATAACTCGATTCACCGT 58.404 40.909 0.00 0.00 0.00 4.83
1815 6200 5.411781 ACAACGAGCTAAGATCACCTTAAG 58.588 41.667 0.00 0.00 36.95 1.85
1845 6235 0.032678 CCCTAGGTATGCAGTGCTCG 59.967 60.000 17.60 0.00 0.00 5.03
1937 6328 3.031126 CGCATCTATGAATGTTTGTGCG 58.969 45.455 2.00 2.00 46.15 5.34
1950 6341 2.309528 TGAAAGCCGAACGCATCTAT 57.690 45.000 0.00 0.00 41.38 1.98
1951 6342 2.087501 TTGAAAGCCGAACGCATCTA 57.912 45.000 0.00 0.00 41.38 1.98
1955 6346 1.335506 GGAATTTGAAAGCCGAACGCA 60.336 47.619 0.00 0.00 41.38 5.24
2018 6441 4.572909 CTTCTGTGTCATCTTGTCCATCA 58.427 43.478 0.00 0.00 0.00 3.07
2049 6476 5.350547 TCCTCCTCCTTATTCTCCAAGAAA 58.649 41.667 0.00 0.00 37.82 2.52
2058 6485 4.099573 TCGACACATTCCTCCTCCTTATTC 59.900 45.833 0.00 0.00 0.00 1.75
2098 6525 3.177228 AGCTCTCAGCCTTCTTTTCCTA 58.823 45.455 0.00 0.00 43.77 2.94
2112 6539 3.405831 CATGAAGGTGTCAAAGCTCTCA 58.594 45.455 0.00 0.00 40.50 3.27
2225 6656 0.322187 GGTTTCCTCTAAAGCGGCCA 60.322 55.000 2.24 0.00 35.98 5.36
2258 6690 2.693591 TCGGGATACAACTCTGTCCATC 59.306 50.000 0.00 0.00 36.96 3.51
2259 6691 2.747177 TCGGGATACAACTCTGTCCAT 58.253 47.619 0.00 0.00 36.96 3.41
2260 6692 2.225382 TCGGGATACAACTCTGTCCA 57.775 50.000 0.00 0.00 36.96 4.02
2261 6693 2.431057 ACATCGGGATACAACTCTGTCC 59.569 50.000 0.00 0.00 36.96 4.02
2264 6696 2.826428 CCACATCGGGATACAACTCTG 58.174 52.381 0.00 0.00 39.74 3.35
2265 6697 1.139058 GCCACATCGGGATACAACTCT 59.861 52.381 0.00 0.00 39.74 3.24
2272 6707 0.916086 ACCTTTGCCACATCGGGATA 59.084 50.000 0.00 0.00 33.48 2.59
2302 6737 4.043750 CGCTTCAACATCTTTGCAAGAAA 58.956 39.130 0.00 0.00 41.63 2.52
2304 6739 2.618241 ACGCTTCAACATCTTTGCAAGA 59.382 40.909 0.00 0.00 42.69 3.02
2365 6800 1.546029 CCCTCATCATTCTATCGCCGA 59.454 52.381 0.00 0.00 0.00 5.54
2406 6841 6.176183 CAAGATAAAGAGGTGATTGGTGAGT 58.824 40.000 0.00 0.00 0.00 3.41
2407 6842 5.065731 GCAAGATAAAGAGGTGATTGGTGAG 59.934 44.000 0.00 0.00 0.00 3.51
2408 6843 4.943705 GCAAGATAAAGAGGTGATTGGTGA 59.056 41.667 0.00 0.00 0.00 4.02
2409 6844 4.946157 AGCAAGATAAAGAGGTGATTGGTG 59.054 41.667 0.00 0.00 0.00 4.17
2410 6845 5.045286 AGAGCAAGATAAAGAGGTGATTGGT 60.045 40.000 0.00 0.00 0.00 3.67
2411 6846 5.435291 AGAGCAAGATAAAGAGGTGATTGG 58.565 41.667 0.00 0.00 0.00 3.16
2412 6847 6.373774 ACAAGAGCAAGATAAAGAGGTGATTG 59.626 38.462 0.00 0.00 0.00 2.67
2413 6848 6.479884 ACAAGAGCAAGATAAAGAGGTGATT 58.520 36.000 0.00 0.00 0.00 2.57
2414 6849 6.059787 ACAAGAGCAAGATAAAGAGGTGAT 57.940 37.500 0.00 0.00 0.00 3.06
2415 6850 5.489792 ACAAGAGCAAGATAAAGAGGTGA 57.510 39.130 0.00 0.00 0.00 4.02
2416 6851 5.936956 AGAACAAGAGCAAGATAAAGAGGTG 59.063 40.000 0.00 0.00 0.00 4.00
2417 6852 6.120507 AGAACAAGAGCAAGATAAAGAGGT 57.879 37.500 0.00 0.00 0.00 3.85
2418 6853 5.584251 GGAGAACAAGAGCAAGATAAAGAGG 59.416 44.000 0.00 0.00 0.00 3.69
2419 6854 6.405538 AGGAGAACAAGAGCAAGATAAAGAG 58.594 40.000 0.00 0.00 0.00 2.85
2430 7890 2.421619 CACAAGGAGGAGAACAAGAGC 58.578 52.381 0.00 0.00 0.00 4.09
2431 7891 2.421619 GCACAAGGAGGAGAACAAGAG 58.578 52.381 0.00 0.00 0.00 2.85
2433 7893 1.072965 AGGCACAAGGAGGAGAACAAG 59.927 52.381 0.00 0.00 0.00 3.16
2434 7894 1.140312 AGGCACAAGGAGGAGAACAA 58.860 50.000 0.00 0.00 0.00 2.83
2436 7896 0.687354 TCAGGCACAAGGAGGAGAAC 59.313 55.000 0.00 0.00 0.00 3.01
2437 7897 1.434188 TTCAGGCACAAGGAGGAGAA 58.566 50.000 0.00 0.00 0.00 2.87
2438 7898 1.661463 ATTCAGGCACAAGGAGGAGA 58.339 50.000 0.00 0.00 0.00 3.71
2439 7899 3.634397 TTATTCAGGCACAAGGAGGAG 57.366 47.619 0.00 0.00 0.00 3.69
2441 7901 4.096984 GTGATTTATTCAGGCACAAGGAGG 59.903 45.833 0.00 0.00 34.17 4.30
2442 7902 4.096984 GGTGATTTATTCAGGCACAAGGAG 59.903 45.833 0.00 0.00 34.17 3.69
2443 7903 4.016444 GGTGATTTATTCAGGCACAAGGA 58.984 43.478 0.00 0.00 34.17 3.36
2444 7904 3.763360 TGGTGATTTATTCAGGCACAAGG 59.237 43.478 0.00 0.00 34.17 3.61
2445 7905 5.389859 TTGGTGATTTATTCAGGCACAAG 57.610 39.130 0.00 0.00 34.17 3.16
2447 7907 5.015515 TGATTGGTGATTTATTCAGGCACA 58.984 37.500 0.00 0.00 34.17 4.57
2448 7908 5.581126 TGATTGGTGATTTATTCAGGCAC 57.419 39.130 0.00 0.00 34.17 5.01
2450 7910 6.152932 ACATGATTGGTGATTTATTCAGGC 57.847 37.500 0.00 0.00 34.17 4.85
2451 7911 8.455903 AGTACATGATTGGTGATTTATTCAGG 57.544 34.615 0.00 0.00 34.17 3.86
2453 7913 9.460019 TTGAGTACATGATTGGTGATTTATTCA 57.540 29.630 0.00 0.00 0.00 2.57
2454 7914 9.941664 CTTGAGTACATGATTGGTGATTTATTC 57.058 33.333 0.00 0.00 0.00 1.75
2457 7917 8.862325 AACTTGAGTACATGATTGGTGATTTA 57.138 30.769 0.00 0.00 0.00 1.40
2459 7919 7.667219 AGAAACTTGAGTACATGATTGGTGATT 59.333 33.333 0.00 0.00 0.00 2.57
2460 7920 7.170965 AGAAACTTGAGTACATGATTGGTGAT 58.829 34.615 0.00 0.00 0.00 3.06
2462 7922 6.808008 AGAAACTTGAGTACATGATTGGTG 57.192 37.500 0.00 0.00 0.00 4.17
2463 7923 7.227156 AGAAGAAACTTGAGTACATGATTGGT 58.773 34.615 0.00 0.00 0.00 3.67
2465 7925 8.997323 AGAAGAAGAAACTTGAGTACATGATTG 58.003 33.333 0.00 0.00 0.00 2.67
2466 7926 9.213799 GAGAAGAAGAAACTTGAGTACATGATT 57.786 33.333 0.00 0.00 0.00 2.57
2467 7927 7.821846 GGAGAAGAAGAAACTTGAGTACATGAT 59.178 37.037 0.00 0.00 0.00 2.45
2468 7928 7.015682 AGGAGAAGAAGAAACTTGAGTACATGA 59.984 37.037 0.00 0.00 0.00 3.07
2469 7929 7.158021 AGGAGAAGAAGAAACTTGAGTACATG 58.842 38.462 0.00 0.00 0.00 3.21
2471 7931 6.732896 AGGAGAAGAAGAAACTTGAGTACA 57.267 37.500 0.00 0.00 0.00 2.90
2472 7932 7.438564 AGAAGGAGAAGAAGAAACTTGAGTAC 58.561 38.462 0.00 0.00 0.00 2.73
2473 7933 7.604657 AGAAGGAGAAGAAGAAACTTGAGTA 57.395 36.000 0.00 0.00 0.00 2.59
2506 8112 2.238646 ACAAAGTTGTGTCACAGAGGGA 59.761 45.455 5.67 0.00 40.49 4.20
2508 8114 3.951979 GACAAAGTTGTGTCACAGAGG 57.048 47.619 5.67 0.00 46.00 3.69
2517 8228 3.947834 AGGAAGAGTTGGACAAAGTTGTG 59.052 43.478 0.42 0.00 42.43 3.33
2519 8230 4.640201 TGAAGGAAGAGTTGGACAAAGTTG 59.360 41.667 0.00 0.00 0.00 3.16
2525 8236 4.136796 CAACATGAAGGAAGAGTTGGACA 58.863 43.478 0.00 0.00 36.75 4.02
2527 8238 4.389374 GACAACATGAAGGAAGAGTTGGA 58.611 43.478 0.00 0.00 42.73 3.53
2528 8239 3.503748 GGACAACATGAAGGAAGAGTTGG 59.496 47.826 0.00 0.00 42.73 3.77
2530 8241 4.437682 TGGACAACATGAAGGAAGAGTT 57.562 40.909 0.00 0.00 0.00 3.01
2531 8242 4.288105 AGATGGACAACATGAAGGAAGAGT 59.712 41.667 0.00 0.00 40.72 3.24
2534 8245 4.330250 ACAGATGGACAACATGAAGGAAG 58.670 43.478 0.00 0.00 40.72 3.46
2535 8246 4.371624 ACAGATGGACAACATGAAGGAA 57.628 40.909 0.00 0.00 40.72 3.36
2536 8247 4.326826 GAACAGATGGACAACATGAAGGA 58.673 43.478 0.00 0.00 40.72 3.36
2537 8248 3.441572 GGAACAGATGGACAACATGAAGG 59.558 47.826 0.00 0.00 40.72 3.46
2538 8249 4.330250 AGGAACAGATGGACAACATGAAG 58.670 43.478 0.00 0.00 40.72 3.02
2539 8250 4.371624 AGGAACAGATGGACAACATGAA 57.628 40.909 0.00 0.00 40.72 2.57
2540 8251 4.202451 TGAAGGAACAGATGGACAACATGA 60.202 41.667 0.00 0.00 40.72 3.07
2541 8252 4.074259 TGAAGGAACAGATGGACAACATG 58.926 43.478 0.00 0.00 40.72 3.21
2543 8254 3.855255 TGAAGGAACAGATGGACAACA 57.145 42.857 0.00 0.00 0.00 3.33
2544 8255 4.074970 ACATGAAGGAACAGATGGACAAC 58.925 43.478 0.00 0.00 0.00 3.32
2547 8258 4.074970 ACAACATGAAGGAACAGATGGAC 58.925 43.478 0.00 0.00 0.00 4.02
2548 8259 4.326826 GACAACATGAAGGAACAGATGGA 58.673 43.478 0.00 0.00 0.00 3.41
2549 8260 3.441572 GGACAACATGAAGGAACAGATGG 59.558 47.826 0.00 0.00 0.00 3.51
2550 8261 4.074259 TGGACAACATGAAGGAACAGATG 58.926 43.478 0.00 0.00 0.00 2.90
2551 8262 4.371624 TGGACAACATGAAGGAACAGAT 57.628 40.909 0.00 0.00 0.00 2.90
2555 8266 4.074970 ACAGATGGACAACATGAAGGAAC 58.925 43.478 0.00 0.00 40.72 3.62
2556 8267 4.371624 ACAGATGGACAACATGAAGGAA 57.628 40.909 0.00 0.00 40.72 3.36
2557 8268 4.074259 CAACAGATGGACAACATGAAGGA 58.926 43.478 0.00 0.00 40.72 3.36
2558 8269 3.366679 GCAACAGATGGACAACATGAAGG 60.367 47.826 0.00 0.00 40.72 3.46
2559 8270 3.504906 AGCAACAGATGGACAACATGAAG 59.495 43.478 0.00 0.00 40.72 3.02
2560 8271 3.489355 AGCAACAGATGGACAACATGAA 58.511 40.909 0.00 0.00 40.72 2.57
2561 8272 3.144657 AGCAACAGATGGACAACATGA 57.855 42.857 0.00 0.00 40.72 3.07
2562 8273 3.253921 TGAAGCAACAGATGGACAACATG 59.746 43.478 0.00 0.00 40.72 3.21
2563 8274 3.489355 TGAAGCAACAGATGGACAACAT 58.511 40.909 0.00 0.00 44.18 2.71
2564 8275 2.929641 TGAAGCAACAGATGGACAACA 58.070 42.857 0.00 0.00 0.00 3.33
2565 8276 3.755378 AGATGAAGCAACAGATGGACAAC 59.245 43.478 0.00 0.00 0.00 3.32
2566 8277 4.005650 GAGATGAAGCAACAGATGGACAA 58.994 43.478 0.00 0.00 0.00 3.18
2568 8279 3.603532 TGAGATGAAGCAACAGATGGAC 58.396 45.455 0.00 0.00 0.00 4.02
2569 8280 3.986996 TGAGATGAAGCAACAGATGGA 57.013 42.857 0.00 0.00 0.00 3.41
2570 8281 3.564644 GGATGAGATGAAGCAACAGATGG 59.435 47.826 0.00 0.00 0.00 3.51
2571 8282 3.564644 GGGATGAGATGAAGCAACAGATG 59.435 47.826 0.00 0.00 0.00 2.90
2572 8283 3.458857 AGGGATGAGATGAAGCAACAGAT 59.541 43.478 0.00 0.00 0.00 2.90
2574 8285 3.118334 AGAGGGATGAGATGAAGCAACAG 60.118 47.826 0.00 0.00 0.00 3.16
2575 8286 2.842496 AGAGGGATGAGATGAAGCAACA 59.158 45.455 0.00 0.00 0.00 3.33
2576 8287 3.134442 AGAGAGGGATGAGATGAAGCAAC 59.866 47.826 0.00 0.00 0.00 4.17
2577 8288 3.382278 AGAGAGGGATGAGATGAAGCAA 58.618 45.455 0.00 0.00 0.00 3.91
2580 8291 5.599656 AGAGAAAGAGAGGGATGAGATGAAG 59.400 44.000 0.00 0.00 0.00 3.02
2581 8292 5.363292 CAGAGAAAGAGAGGGATGAGATGAA 59.637 44.000 0.00 0.00 0.00 2.57
2582 8293 4.894705 CAGAGAAAGAGAGGGATGAGATGA 59.105 45.833 0.00 0.00 0.00 2.92
2583 8294 4.501915 GCAGAGAAAGAGAGGGATGAGATG 60.502 50.000 0.00 0.00 0.00 2.90
2584 8295 3.642848 GCAGAGAAAGAGAGGGATGAGAT 59.357 47.826 0.00 0.00 0.00 2.75
2585 8296 3.030291 GCAGAGAAAGAGAGGGATGAGA 58.970 50.000 0.00 0.00 0.00 3.27
2586 8297 2.102925 GGCAGAGAAAGAGAGGGATGAG 59.897 54.545 0.00 0.00 0.00 2.90
2587 8298 2.114616 GGCAGAGAAAGAGAGGGATGA 58.885 52.381 0.00 0.00 0.00 2.92
2588 8299 2.117865 AGGCAGAGAAAGAGAGGGATG 58.882 52.381 0.00 0.00 0.00 3.51
2589 8300 2.566708 AGGCAGAGAAAGAGAGGGAT 57.433 50.000 0.00 0.00 0.00 3.85
2590 8301 2.334006 AAGGCAGAGAAAGAGAGGGA 57.666 50.000 0.00 0.00 0.00 4.20
2592 8303 2.158971 GGCTAAGGCAGAGAAAGAGAGG 60.159 54.545 0.00 0.00 40.87 3.69
2593 8304 2.158971 GGGCTAAGGCAGAGAAAGAGAG 60.159 54.545 0.00 0.00 40.87 3.20
2594 8305 1.834263 GGGCTAAGGCAGAGAAAGAGA 59.166 52.381 0.00 0.00 40.87 3.10
2595 8306 1.836802 AGGGCTAAGGCAGAGAAAGAG 59.163 52.381 0.00 0.00 40.87 2.85
2597 8308 1.556911 TGAGGGCTAAGGCAGAGAAAG 59.443 52.381 0.00 0.00 40.87 2.62
2598 8309 1.279271 GTGAGGGCTAAGGCAGAGAAA 59.721 52.381 0.00 0.00 40.87 2.52
2599 8310 0.905357 GTGAGGGCTAAGGCAGAGAA 59.095 55.000 0.00 0.00 40.87 2.87
2601 8312 0.615331 TTGTGAGGGCTAAGGCAGAG 59.385 55.000 0.00 0.00 40.87 3.35
2602 8313 0.324943 GTTGTGAGGGCTAAGGCAGA 59.675 55.000 0.00 0.00 40.87 4.26
2603 8314 0.678048 GGTTGTGAGGGCTAAGGCAG 60.678 60.000 0.00 0.00 40.87 4.85
2606 8317 0.984230 TCAGGTTGTGAGGGCTAAGG 59.016 55.000 0.00 0.00 0.00 2.69
2608 8319 2.265367 TCATCAGGTTGTGAGGGCTAA 58.735 47.619 0.00 0.00 39.07 3.09
2610 8321 1.067295 TTCATCAGGTTGTGAGGGCT 58.933 50.000 0.00 0.00 39.07 5.19
2612 8323 3.354948 TCATTCATCAGGTTGTGAGGG 57.645 47.619 0.00 0.00 39.07 4.30
2613 8324 5.526479 CACTATCATTCATCAGGTTGTGAGG 59.474 44.000 0.00 0.00 39.07 3.86
2614 8325 5.007430 GCACTATCATTCATCAGGTTGTGAG 59.993 44.000 0.00 0.00 39.07 3.51
2616 8327 4.880120 AGCACTATCATTCATCAGGTTGTG 59.120 41.667 0.00 0.00 0.00 3.33
2617 8328 5.108187 AGCACTATCATTCATCAGGTTGT 57.892 39.130 0.00 0.00 0.00 3.32
2618 8329 6.519382 TCTAGCACTATCATTCATCAGGTTG 58.481 40.000 0.00 0.00 0.00 3.77
2619 8330 6.737720 TCTAGCACTATCATTCATCAGGTT 57.262 37.500 0.00 0.00 0.00 3.50
2620 8331 6.931790 ATCTAGCACTATCATTCATCAGGT 57.068 37.500 0.00 0.00 0.00 4.00
2621 8332 9.887629 ATAAATCTAGCACTATCATTCATCAGG 57.112 33.333 0.00 0.00 0.00 3.86
2626 8337 9.920133 GTCTGATAAATCTAGCACTATCATTCA 57.080 33.333 7.51 0.00 31.99 2.57
2627 8338 9.920133 TGTCTGATAAATCTAGCACTATCATTC 57.080 33.333 7.51 5.77 31.99 2.67
2628 8339 9.926158 CTGTCTGATAAATCTAGCACTATCATT 57.074 33.333 7.51 0.00 31.99 2.57
2629 8340 8.034215 GCTGTCTGATAAATCTAGCACTATCAT 58.966 37.037 7.51 0.00 31.99 2.45
2633 8390 6.968263 AGCTGTCTGATAAATCTAGCACTA 57.032 37.500 0.00 0.00 32.42 2.74
2638 8395 9.248291 GAAGAAGAAGCTGTCTGATAAATCTAG 57.752 37.037 0.00 0.00 36.40 2.43
2640 8397 7.850193 AGAAGAAGAAGCTGTCTGATAAATCT 58.150 34.615 0.00 0.00 36.40 2.40
2646 8403 5.480642 TTGAGAAGAAGAAGCTGTCTGAT 57.519 39.130 0.00 0.00 36.40 2.90
2648 8405 3.432933 GCTTGAGAAGAAGAAGCTGTCTG 59.567 47.826 0.00 0.00 39.24 3.51
2649 8406 3.663025 GCTTGAGAAGAAGAAGCTGTCT 58.337 45.455 0.00 0.00 39.24 3.41
2654 8411 3.120234 GCAAGAGCTTGAGAAGAAGAAGC 60.120 47.826 14.04 0.00 42.93 3.86
2655 8412 4.666928 GCAAGAGCTTGAGAAGAAGAAG 57.333 45.455 14.04 0.00 42.93 2.85
2669 8426 2.175878 TTCTGACCTGAAGCAAGAGC 57.824 50.000 0.00 0.00 42.56 4.09
2670 8427 3.995705 CTCTTTCTGACCTGAAGCAAGAG 59.004 47.826 0.00 0.00 0.00 2.85
2673 8430 2.158769 TGCTCTTTCTGACCTGAAGCAA 60.159 45.455 0.00 0.00 0.00 3.91
2675 8432 2.175878 TGCTCTTTCTGACCTGAAGC 57.824 50.000 0.00 0.00 0.00 3.86
2676 8433 3.737850 ACTTGCTCTTTCTGACCTGAAG 58.262 45.455 0.00 0.00 0.00 3.02
2678 8435 2.968574 AGACTTGCTCTTTCTGACCTGA 59.031 45.455 0.00 0.00 0.00 3.86
2680 8437 3.737850 CAAGACTTGCTCTTTCTGACCT 58.262 45.455 1.43 0.00 37.08 3.85


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

AutoCloner maintained by Alex Coulton.