Multiple sequence alignment - TraesCS3B01G535600

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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 TraesCS3B01G535600 chr3B 100.000 2672 0 0 1 2672 775535742 775538413 0.000000e+00 4935
1 TraesCS3B01G535600 chr3B 89.681 1444 122 12 636 2061 786043840 786042406 0.000000e+00 1816
2 TraesCS3B01G535600 chr3B 89.167 360 39 0 2111 2470 786042112 786041753 1.460000e-122 449
3 TraesCS3B01G535600 chr3B 73.226 930 182 42 962 1847 778552291 778551385 2.620000e-70 276
4 TraesCS3B01G535600 chr3A 84.368 870 97 16 639 1493 715738438 715739283 0.000000e+00 817
5 TraesCS3B01G535600 chr2B 90.226 532 52 0 1 532 635698005 635698536 0.000000e+00 695
6 TraesCS3B01G535600 chr3D 87.934 547 66 0 1 547 564515507 564516053 0.000000e+00 645
7 TraesCS3B01G535600 chr3D 80.936 876 106 23 977 1815 580368481 580369332 1.040000e-178 636
8 TraesCS3B01G535600 chr3D 92.138 407 23 6 531 931 580367893 580368296 1.390000e-157 566
9 TraesCS3B01G535600 chr3D 83.270 526 83 4 7 530 323050805 323051327 1.860000e-131 479
10 TraesCS3B01G535600 chr3D 72.805 934 184 43 956 1845 582622791 582623698 1.230000e-63 254
11 TraesCS3B01G535600 chr3D 72.258 930 187 47 956 1843 582793064 582793964 3.460000e-54 222
12 TraesCS3B01G535600 chr3D 77.872 235 41 8 1639 1868 582752492 582752720 4.640000e-28 135
13 TraesCS3B01G535600 chr5B 86.492 533 41 12 1 532 573442706 573443208 8.360000e-155 556
14 TraesCS3B01G535600 chr6D 82.863 531 89 2 1 530 18164915 18164386 2.410000e-130 475
15 TraesCS3B01G535600 chr6D 79.159 523 98 9 6 523 28417713 28418229 4.230000e-93 351
16 TraesCS3B01G535600 chr4B 89.542 306 32 0 1 306 81921213 81920908 3.230000e-104 388
17 TraesCS3B01G535600 chrUn 73.243 882 173 39 1006 1845 41506018 41506878 2.040000e-66 263
18 TraesCS3B01G535600 chrUn 73.778 675 126 26 1171 1819 41525736 41526385 4.480000e-53 219
19 TraesCS3B01G535600 chr2A 85.417 96 14 0 1411 1506 747136493 747136398 1.690000e-17 100


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 TraesCS3B01G535600 chr3B 775535742 775538413 2671 False 4935.0 4935 100.000 1 2672 1 chr3B.!!$F1 2671
1 TraesCS3B01G535600 chr3B 786041753 786043840 2087 True 1132.5 1816 89.424 636 2470 2 chr3B.!!$R2 1834
2 TraesCS3B01G535600 chr3B 778551385 778552291 906 True 276.0 276 73.226 962 1847 1 chr3B.!!$R1 885
3 TraesCS3B01G535600 chr3A 715738438 715739283 845 False 817.0 817 84.368 639 1493 1 chr3A.!!$F1 854
4 TraesCS3B01G535600 chr2B 635698005 635698536 531 False 695.0 695 90.226 1 532 1 chr2B.!!$F1 531
5 TraesCS3B01G535600 chr3D 564515507 564516053 546 False 645.0 645 87.934 1 547 1 chr3D.!!$F2 546
6 TraesCS3B01G535600 chr3D 580367893 580369332 1439 False 601.0 636 86.537 531 1815 2 chr3D.!!$F6 1284
7 TraesCS3B01G535600 chr3D 323050805 323051327 522 False 479.0 479 83.270 7 530 1 chr3D.!!$F1 523
8 TraesCS3B01G535600 chr3D 582622791 582623698 907 False 254.0 254 72.805 956 1845 1 chr3D.!!$F3 889
9 TraesCS3B01G535600 chr3D 582793064 582793964 900 False 222.0 222 72.258 956 1843 1 chr3D.!!$F5 887
10 TraesCS3B01G535600 chr5B 573442706 573443208 502 False 556.0 556 86.492 1 532 1 chr5B.!!$F1 531
11 TraesCS3B01G535600 chr6D 18164386 18164915 529 True 475.0 475 82.863 1 530 1 chr6D.!!$R1 529
12 TraesCS3B01G535600 chr6D 28417713 28418229 516 False 351.0 351 79.159 6 523 1 chr6D.!!$F1 517
13 TraesCS3B01G535600 chrUn 41506018 41506878 860 False 263.0 263 73.243 1006 1845 1 chrUn.!!$F1 839
14 TraesCS3B01G535600 chrUn 41525736 41526385 649 False 219.0 219 73.778 1171 1819 1 chrUn.!!$F2 648

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
936 942 1.22184 CACCGCCCTAGCTCAACAT 59.778 57.895 0.0 0.0 36.6 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2198 2647 0.03254 GCAACCTCAAAACAGCCTGG 59.967 55.0 0.0 0.0 0.0 4.45 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
220 221 1.970640 GTTGATTTCAGCCCCAAAGGT 59.029 47.619 0.00 0.00 38.26 3.50
223 224 1.273327 GATTTCAGCCCCAAAGGTGTG 59.727 52.381 0.00 0.00 38.26 3.82
246 247 4.697756 CTTGGTCTTGGCGCCCGA 62.698 66.667 26.77 18.06 0.00 5.14
445 446 1.349627 CAGTGCTTCTAATGCGCCG 59.650 57.895 4.18 0.00 41.34 6.46
458 459 2.049433 CGCCGTATAAGCTCCGGG 60.049 66.667 0.00 0.00 41.96 5.73
484 485 3.884350 CGGTAGCTAGCCGTCGCA 61.884 66.667 16.98 0.00 43.84 5.10
552 553 2.125350 CCCTTCGCCTCTGCACTC 60.125 66.667 0.00 0.00 37.32 3.51
598 604 3.902086 TCAACGACGCACCGGACA 61.902 61.111 9.46 0.00 0.00 4.02
599 605 2.962786 CAACGACGCACCGGACAA 60.963 61.111 9.46 0.00 0.00 3.18
690 696 1.906824 AGAAACCGCCTCGTCCTCA 60.907 57.895 0.00 0.00 0.00 3.86
756 762 3.581332 TGACGACCCTACAGGATTTCTTT 59.419 43.478 0.00 0.00 39.89 2.52
854 860 4.003788 CCTCGTCCCGCACAAGGT 62.004 66.667 0.00 0.00 0.00 3.50
890 896 1.279496 CTCTTCCACATCCCACTCCA 58.721 55.000 0.00 0.00 0.00 3.86
936 942 1.221840 CACCGCCCTAGCTCAACAT 59.778 57.895 0.00 0.00 36.60 2.71
987 1133 4.794439 TGCCGTGTCGCCATCGAG 62.794 66.667 0.00 0.00 46.46 4.04
1066 1218 2.202987 GAGTCCGCCTGCCAGATG 60.203 66.667 0.00 0.00 0.00 2.90
1118 1270 1.227089 CCGGCGACCTCATTCTCAG 60.227 63.158 9.30 0.00 0.00 3.35
1134 1286 7.445121 TCATTCTCAGCTTTAATCGATACCAT 58.555 34.615 0.00 0.00 0.00 3.55
1135 1287 7.933577 TCATTCTCAGCTTTAATCGATACCATT 59.066 33.333 0.00 0.00 0.00 3.16
1136 1288 9.208022 CATTCTCAGCTTTAATCGATACCATTA 57.792 33.333 0.00 0.00 0.00 1.90
1137 1289 8.589335 TTCTCAGCTTTAATCGATACCATTAC 57.411 34.615 0.00 0.00 0.00 1.89
1138 1290 7.152645 TCTCAGCTTTAATCGATACCATTACC 58.847 38.462 0.00 0.00 0.00 2.85
1139 1291 6.822442 TCAGCTTTAATCGATACCATTACCA 58.178 36.000 0.00 0.00 0.00 3.25
1140 1292 6.704493 TCAGCTTTAATCGATACCATTACCAC 59.296 38.462 0.00 0.00 0.00 4.16
1141 1293 6.481976 CAGCTTTAATCGATACCATTACCACA 59.518 38.462 0.00 0.00 0.00 4.17
1167 1337 2.343758 CACTACTGCCGCCACTGT 59.656 61.111 0.00 0.00 0.00 3.55
1208 1378 0.672711 GGCTACAGGTTTCGTGACCC 60.673 60.000 6.38 0.00 40.73 4.46
1220 1390 0.437295 CGTGACCCGATTTTCGTGAC 59.563 55.000 0.00 0.00 38.40 3.67
1252 1422 6.128445 CCTGTACGCATTGATCTATCCAAATC 60.128 42.308 0.00 0.00 0.00 2.17
1267 1437 0.035317 AAATCACTGCCTCGCTGTCA 59.965 50.000 0.00 0.00 38.59 3.58
1316 1486 3.020984 TGTTGTTTCTTGGAGGTGAACC 58.979 45.455 0.00 0.00 0.00 3.62
1326 1496 0.033504 GAGGTGAACCGAGTGCAGAA 59.966 55.000 0.00 0.00 42.08 3.02
1353 1526 7.026631 AGTTCAAAATTGTTCGATGTTGAGA 57.973 32.000 5.96 0.00 35.33 3.27
1398 1571 0.673985 TGCTCGTTACTGCTGTGAGT 59.326 50.000 6.48 0.00 0.00 3.41
1437 1614 3.499338 TGTTTTCCAGTGGCAATCTGAT 58.501 40.909 3.51 0.00 35.20 2.90
1438 1615 4.661222 TGTTTTCCAGTGGCAATCTGATA 58.339 39.130 3.51 0.00 35.20 2.15
1521 1698 3.365265 GCAGGTTGCCTTGGTCCG 61.365 66.667 0.00 0.00 37.42 4.79
1530 1707 1.451936 CCTTGGTCCGGATCATCCC 59.548 63.158 20.36 9.94 31.13 3.85
1565 1742 7.067494 AGGGAATTGCTTGTACATCATTAAGTC 59.933 37.037 0.00 0.00 0.00 3.01
1608 1785 5.972327 ATTCTCTGGTTGATGGATCTTCT 57.028 39.130 0.00 0.00 0.00 2.85
1622 1799 4.021104 TGGATCTTCTCATGAACTCGTTGT 60.021 41.667 0.00 0.00 0.00 3.32
1634 1811 0.456312 CTCGTTGTCGACTACCCAGC 60.456 60.000 21.62 1.00 41.35 4.85
1857 2062 6.860080 ACATCCTGCTCACTTCAAATATTTG 58.140 36.000 20.13 20.13 39.48 2.32
1858 2063 6.660521 ACATCCTGCTCACTTCAAATATTTGA 59.339 34.615 23.86 23.86 44.78 2.69
1927 2132 9.372369 ACTTATTTCTCTATAACACTGCTTGAC 57.628 33.333 0.00 0.00 0.00 3.18
1928 2133 6.893958 ATTTCTCTATAACACTGCTTGACG 57.106 37.500 0.00 0.00 0.00 4.35
1942 2147 3.371898 TGCTTGACGACATCAGCAAATAG 59.628 43.478 11.01 0.00 38.99 1.73
1981 2186 6.821616 AGGAATGAATGGAGACTATCACTT 57.178 37.500 0.00 0.00 0.00 3.16
1982 2187 6.590068 AGGAATGAATGGAGACTATCACTTG 58.410 40.000 0.00 0.00 0.00 3.16
2021 2226 6.484643 ACATACATATCACAGACCAAGATTGC 59.515 38.462 0.00 0.00 0.00 3.56
2023 2228 2.768253 ATCACAGACCAAGATTGCGA 57.232 45.000 0.00 0.00 0.00 5.10
2049 2254 8.357796 TCTAATTAAGCAAGTCGAATGATCTG 57.642 34.615 3.77 0.00 0.00 2.90
2052 2257 6.834959 TTAAGCAAGTCGAATGATCTGATC 57.165 37.500 10.72 10.72 0.00 2.92
2058 2263 4.854399 AGTCGAATGATCTGATCGAAGAC 58.146 43.478 18.75 18.75 45.92 3.01
2061 2266 3.420249 CGAATGATCTGATCGAAGACGTG 59.580 47.826 12.65 0.00 42.51 4.49
2063 2268 2.092323 TGATCTGATCGAAGACGTGGT 58.908 47.619 12.65 0.00 42.51 4.16
2065 2270 3.312697 TGATCTGATCGAAGACGTGGTAG 59.687 47.826 12.65 0.00 42.51 3.18
2066 2271 2.014857 TCTGATCGAAGACGTGGTAGG 58.985 52.381 0.00 0.00 42.51 3.18
2067 2272 0.454600 TGATCGAAGACGTGGTAGGC 59.545 55.000 0.00 0.00 42.51 3.93
2068 2273 0.591741 GATCGAAGACGTGGTAGGCG 60.592 60.000 0.00 0.00 42.51 5.52
2069 2274 1.310933 ATCGAAGACGTGGTAGGCGT 61.311 55.000 0.00 0.00 42.51 5.68
2071 2276 1.582968 GAAGACGTGGTAGGCGTGA 59.417 57.895 0.00 0.00 43.04 4.35
2075 2280 0.509929 GACGTGGTAGGCGTGAAAAC 59.490 55.000 0.00 0.00 43.04 2.43
2076 2281 0.105408 ACGTGGTAGGCGTGAAAACT 59.895 50.000 0.00 0.00 41.33 2.66
2077 2282 0.511221 CGTGGTAGGCGTGAAAACTG 59.489 55.000 0.00 0.00 0.00 3.16
2078 2283 0.872388 GTGGTAGGCGTGAAAACTGG 59.128 55.000 0.00 0.00 0.00 4.00
2079 2284 0.759959 TGGTAGGCGTGAAAACTGGA 59.240 50.000 0.00 0.00 0.00 3.86
2083 2288 1.523758 AGGCGTGAAAACTGGATGAC 58.476 50.000 0.00 0.00 0.00 3.06
2084 2289 0.165944 GGCGTGAAAACTGGATGACG 59.834 55.000 0.00 0.00 0.00 4.35
2085 2290 0.452784 GCGTGAAAACTGGATGACGC 60.453 55.000 0.00 0.00 44.42 5.19
2086 2291 0.165944 CGTGAAAACTGGATGACGCC 59.834 55.000 0.00 0.00 0.00 5.68
2088 2293 0.400213 TGAAAACTGGATGACGCCCT 59.600 50.000 0.00 0.00 0.00 5.19
2089 2294 1.626321 TGAAAACTGGATGACGCCCTA 59.374 47.619 0.00 0.00 0.00 3.53
2090 2295 2.007608 GAAAACTGGATGACGCCCTAC 58.992 52.381 0.00 0.00 0.00 3.18
2091 2296 1.276622 AAACTGGATGACGCCCTACT 58.723 50.000 0.00 0.00 0.00 2.57
2092 2297 0.537188 AACTGGATGACGCCCTACTG 59.463 55.000 0.00 0.00 0.00 2.74
2093 2298 1.330655 ACTGGATGACGCCCTACTGG 61.331 60.000 0.00 0.00 37.09 4.00
2103 2308 4.601928 CCTACTGGGGGAAGGGTT 57.398 61.111 0.00 0.00 0.00 4.11
2104 2309 3.744483 CCTACTGGGGGAAGGGTTA 57.256 57.895 0.00 0.00 0.00 2.85
2106 2311 1.562942 CCTACTGGGGGAAGGGTTAAC 59.437 57.143 0.00 0.00 0.00 2.01
2107 2312 1.562942 CTACTGGGGGAAGGGTTAACC 59.437 57.143 16.85 16.85 40.67 2.85
2118 2567 2.556144 GGGTTAACCTTGAACTCCGT 57.444 50.000 23.69 0.00 35.85 4.69
2120 2569 2.224354 GGGTTAACCTTGAACTCCGTCA 60.224 50.000 23.69 0.00 35.85 4.35
2122 2571 2.427232 TAACCTTGAACTCCGTCACG 57.573 50.000 0.00 0.00 0.00 4.35
2128 2577 0.317269 TGAACTCCGTCACGTTCGAC 60.317 55.000 10.81 3.94 41.74 4.20
2130 2579 2.501222 CTCCGTCACGTTCGACCG 60.501 66.667 0.00 0.00 31.91 4.79
2151 2600 1.404986 CCACATGCAAAAGGCTGATGG 60.405 52.381 0.00 0.00 45.15 3.51
2170 2619 1.672145 GGGTCGTTCAGCTAGTTGGAC 60.672 57.143 7.92 7.92 0.00 4.02
2175 2624 3.745975 TCGTTCAGCTAGTTGGACAATTG 59.254 43.478 17.20 3.24 0.00 2.32
2186 2635 2.242926 TGGACAATTGGGCAAATCGAA 58.757 42.857 10.83 0.00 0.00 3.71
2191 2640 6.322456 TGGACAATTGGGCAAATCGAATAATA 59.678 34.615 10.83 0.00 0.00 0.98
2192 2641 7.147828 TGGACAATTGGGCAAATCGAATAATAA 60.148 33.333 10.83 0.00 0.00 1.40
2198 2647 6.375377 TGGGCAAATCGAATAATAATAACGC 58.625 36.000 0.00 0.00 0.00 4.84
2200 2649 6.375377 GGCAAATCGAATAATAATAACGCCA 58.625 36.000 0.00 0.00 33.52 5.69
2220 2669 0.681175 GGCTGTTTTGAGGTTGCCAT 59.319 50.000 0.00 0.00 40.04 4.40
2225 2674 3.763360 CTGTTTTGAGGTTGCCATATCCA 59.237 43.478 0.00 0.00 0.00 3.41
2293 2742 1.561076 TCATCAGCCCTGCTACACATT 59.439 47.619 0.00 0.00 36.40 2.71
2294 2743 2.025981 TCATCAGCCCTGCTACACATTT 60.026 45.455 0.00 0.00 36.40 2.32
2296 2745 0.729116 CAGCCCTGCTACACATTTCG 59.271 55.000 0.00 0.00 36.40 3.46
2354 2803 7.630242 TGAATGAGTCTAAATTTAAGCCCTG 57.370 36.000 0.00 0.00 0.00 4.45
2367 2816 2.514592 CCCTGCTACCACATGGCG 60.515 66.667 0.00 0.00 37.70 5.69
2371 2820 0.659427 CTGCTACCACATGGCGAATG 59.341 55.000 0.00 0.00 42.48 2.67
2375 2824 2.031682 GCTACCACATGGCGAATGATTC 60.032 50.000 0.00 0.00 38.72 2.52
2383 2832 8.049117 ACCACATGGCGAATGATTCTATATAAT 58.951 33.333 3.43 0.00 38.72 1.28
2384 2833 8.340443 CCACATGGCGAATGATTCTATATAATG 58.660 37.037 3.43 2.17 38.72 1.90
2470 2919 9.575868 TTGATAGGGTGTATGTTTTCAAGTTTA 57.424 29.630 0.00 0.00 0.00 2.01
2471 2920 9.747898 TGATAGGGTGTATGTTTTCAAGTTTAT 57.252 29.630 0.00 0.00 0.00 1.40
2522 2971 9.802039 TCTAATTATTTGTGGAACTTTACACCT 57.198 29.630 1.79 0.00 41.42 4.00
2526 2975 5.699097 TTTGTGGAACTTTACACCTATGC 57.301 39.130 1.79 0.00 41.42 3.14
2527 2976 4.634012 TGTGGAACTTTACACCTATGCT 57.366 40.909 1.79 0.00 41.42 3.79
2528 2977 5.748670 TGTGGAACTTTACACCTATGCTA 57.251 39.130 1.79 0.00 41.42 3.49
2529 2978 6.308015 TGTGGAACTTTACACCTATGCTAT 57.692 37.500 1.79 0.00 41.42 2.97
2530 2979 6.717289 TGTGGAACTTTACACCTATGCTATT 58.283 36.000 1.79 0.00 41.42 1.73
2531 2980 7.172342 TGTGGAACTTTACACCTATGCTATTT 58.828 34.615 1.79 0.00 41.42 1.40
2532 2981 7.120579 TGTGGAACTTTACACCTATGCTATTTG 59.879 37.037 1.79 0.00 41.42 2.32
2533 2982 7.335924 GTGGAACTTTACACCTATGCTATTTGA 59.664 37.037 0.00 0.00 35.96 2.69
2534 2983 7.885922 TGGAACTTTACACCTATGCTATTTGAA 59.114 33.333 0.00 0.00 0.00 2.69
2535 2984 8.736244 GGAACTTTACACCTATGCTATTTGAAA 58.264 33.333 0.00 0.00 0.00 2.69
2540 2989 9.853555 TTTACACCTATGCTATTTGAAATTGTG 57.146 29.630 0.00 0.00 0.00 3.33
2541 2990 7.466746 ACACCTATGCTATTTGAAATTGTGT 57.533 32.000 0.00 0.00 0.00 3.72
2542 2991 7.895759 ACACCTATGCTATTTGAAATTGTGTT 58.104 30.769 0.00 0.00 0.00 3.32
2543 2992 7.814107 ACACCTATGCTATTTGAAATTGTGTTG 59.186 33.333 0.00 0.00 0.00 3.33
2544 2993 7.814107 CACCTATGCTATTTGAAATTGTGTTGT 59.186 33.333 0.00 0.00 0.00 3.32
2545 2994 8.367156 ACCTATGCTATTTGAAATTGTGTTGTT 58.633 29.630 0.00 0.00 0.00 2.83
2546 2995 9.853555 CCTATGCTATTTGAAATTGTGTTGTTA 57.146 29.630 0.00 0.00 0.00 2.41
2548 2997 7.938563 TGCTATTTGAAATTGTGTTGTTACC 57.061 32.000 0.00 0.00 0.00 2.85
2549 2998 6.638873 TGCTATTTGAAATTGTGTTGTTACCG 59.361 34.615 0.00 0.00 0.00 4.02
2550 2999 6.858993 GCTATTTGAAATTGTGTTGTTACCGA 59.141 34.615 0.00 0.00 0.00 4.69
2551 3000 7.149031 GCTATTTGAAATTGTGTTGTTACCGAC 60.149 37.037 0.00 0.00 0.00 4.79
2552 3001 5.821516 TTGAAATTGTGTTGTTACCGACT 57.178 34.783 0.00 0.00 0.00 4.18
2553 3002 5.163302 TGAAATTGTGTTGTTACCGACTG 57.837 39.130 0.00 0.00 0.00 3.51
2554 3003 4.636648 TGAAATTGTGTTGTTACCGACTGT 59.363 37.500 0.00 0.00 0.00 3.55
2555 3004 5.124138 TGAAATTGTGTTGTTACCGACTGTT 59.876 36.000 0.00 0.00 0.00 3.16
2556 3005 5.570234 AATTGTGTTGTTACCGACTGTTT 57.430 34.783 0.00 0.00 0.00 2.83
2557 3006 5.570234 ATTGTGTTGTTACCGACTGTTTT 57.430 34.783 0.00 0.00 0.00 2.43
2558 3007 5.373981 TTGTGTTGTTACCGACTGTTTTT 57.626 34.783 0.00 0.00 0.00 1.94
2580 3029 7.485418 TTTTCAATGTGTTGTAGATGTACGT 57.515 32.000 0.00 0.00 36.69 3.57
2581 3030 8.590719 TTTTCAATGTGTTGTAGATGTACGTA 57.409 30.769 0.00 0.00 36.69 3.57
2582 3031 8.766000 TTTCAATGTGTTGTAGATGTACGTAT 57.234 30.769 0.00 0.00 36.69 3.06
2583 3032 7.749539 TCAATGTGTTGTAGATGTACGTATG 57.250 36.000 0.00 0.00 36.69 2.39
2584 3033 7.317390 TCAATGTGTTGTAGATGTACGTATGT 58.683 34.615 0.00 0.00 36.69 2.29
2585 3034 7.486870 TCAATGTGTTGTAGATGTACGTATGTC 59.513 37.037 0.00 0.03 36.69 3.06
2586 3035 6.256912 TGTGTTGTAGATGTACGTATGTCA 57.743 37.500 0.00 0.00 30.95 3.58
2587 3036 6.859017 TGTGTTGTAGATGTACGTATGTCAT 58.141 36.000 0.00 0.00 30.95 3.06
2588 3037 7.317390 TGTGTTGTAGATGTACGTATGTCATT 58.683 34.615 0.00 0.00 30.95 2.57
2589 3038 7.486870 TGTGTTGTAGATGTACGTATGTCATTC 59.513 37.037 0.00 0.00 30.95 2.67
2590 3039 7.486870 GTGTTGTAGATGTACGTATGTCATTCA 59.513 37.037 0.00 0.00 30.95 2.57
2591 3040 8.030106 TGTTGTAGATGTACGTATGTCATTCAA 58.970 33.333 0.00 5.02 30.95 2.69
2592 3041 9.031360 GTTGTAGATGTACGTATGTCATTCAAT 57.969 33.333 0.00 0.00 30.95 2.57
2593 3042 9.594478 TTGTAGATGTACGTATGTCATTCAATT 57.406 29.630 0.00 0.00 30.95 2.32
2594 3043 9.594478 TGTAGATGTACGTATGTCATTCAATTT 57.406 29.630 0.00 0.00 30.95 1.82
2595 3044 9.849607 GTAGATGTACGTATGTCATTCAATTTG 57.150 33.333 0.00 0.00 0.00 2.32
2596 3045 8.492673 AGATGTACGTATGTCATTCAATTTGT 57.507 30.769 0.00 0.00 0.00 2.83
2597 3046 8.604035 AGATGTACGTATGTCATTCAATTTGTC 58.396 33.333 0.00 0.00 0.00 3.18
2598 3047 7.899178 TGTACGTATGTCATTCAATTTGTCT 57.101 32.000 0.00 0.00 0.00 3.41
2599 3048 7.738345 TGTACGTATGTCATTCAATTTGTCTG 58.262 34.615 0.00 0.00 0.00 3.51
2600 3049 6.182039 ACGTATGTCATTCAATTTGTCTGG 57.818 37.500 0.00 0.00 0.00 3.86
2601 3050 5.705441 ACGTATGTCATTCAATTTGTCTGGT 59.295 36.000 0.00 0.00 0.00 4.00
2602 3051 6.128282 ACGTATGTCATTCAATTTGTCTGGTC 60.128 38.462 0.00 0.00 0.00 4.02
2603 3052 6.128309 CGTATGTCATTCAATTTGTCTGGTCA 60.128 38.462 0.00 1.13 0.00 4.02
2604 3053 5.437289 TGTCATTCAATTTGTCTGGTCAC 57.563 39.130 0.00 0.00 0.00 3.67
2605 3054 5.132502 TGTCATTCAATTTGTCTGGTCACT 58.867 37.500 0.00 0.00 0.00 3.41
2606 3055 6.295249 TGTCATTCAATTTGTCTGGTCACTA 58.705 36.000 0.00 0.00 0.00 2.74
2607 3056 6.770303 TGTCATTCAATTTGTCTGGTCACTAA 59.230 34.615 0.00 0.00 0.00 2.24
2608 3057 7.284261 TGTCATTCAATTTGTCTGGTCACTAAA 59.716 33.333 0.00 0.00 0.00 1.85
2609 3058 8.299570 GTCATTCAATTTGTCTGGTCACTAAAT 58.700 33.333 0.00 0.00 0.00 1.40
2610 3059 8.859090 TCATTCAATTTGTCTGGTCACTAAATT 58.141 29.630 0.00 0.00 32.82 1.82
2611 3060 9.480053 CATTCAATTTGTCTGGTCACTAAATTT 57.520 29.630 0.00 0.00 30.88 1.82
2612 3061 8.870160 TTCAATTTGTCTGGTCACTAAATTTG 57.130 30.769 0.00 0.00 30.88 2.32
2613 3062 6.922957 TCAATTTGTCTGGTCACTAAATTTGC 59.077 34.615 0.00 0.00 30.88 3.68
2614 3063 5.843673 TTTGTCTGGTCACTAAATTTGCA 57.156 34.783 0.00 0.00 0.00 4.08
2615 3064 6.403866 TTTGTCTGGTCACTAAATTTGCAT 57.596 33.333 0.00 0.00 0.00 3.96
2616 3065 6.403866 TTGTCTGGTCACTAAATTTGCATT 57.596 33.333 0.00 0.00 0.00 3.56
2617 3066 5.771469 TGTCTGGTCACTAAATTTGCATTG 58.229 37.500 0.00 0.00 0.00 2.82
2618 3067 5.534278 TGTCTGGTCACTAAATTTGCATTGA 59.466 36.000 0.00 0.00 0.00 2.57
2619 3068 5.858581 GTCTGGTCACTAAATTTGCATTGAC 59.141 40.000 0.00 7.65 0.00 3.18
2620 3069 5.048083 TCTGGTCACTAAATTTGCATTGACC 60.048 40.000 22.79 22.79 43.33 4.02
2621 3070 4.832266 TGGTCACTAAATTTGCATTGACCT 59.168 37.500 26.18 0.00 43.40 3.85
2622 3071 5.163513 GGTCACTAAATTTGCATTGACCTG 58.836 41.667 22.53 2.12 40.78 4.00
2623 3072 5.048083 GGTCACTAAATTTGCATTGACCTGA 60.048 40.000 22.53 3.76 40.78 3.86
2624 3073 6.088824 GTCACTAAATTTGCATTGACCTGAG 58.911 40.000 0.00 0.00 0.00 3.35
2625 3074 6.003326 TCACTAAATTTGCATTGACCTGAGA 58.997 36.000 0.00 0.00 0.00 3.27
2626 3075 6.489700 TCACTAAATTTGCATTGACCTGAGAA 59.510 34.615 0.00 0.00 0.00 2.87
2627 3076 7.014134 TCACTAAATTTGCATTGACCTGAGAAA 59.986 33.333 0.00 0.00 0.00 2.52
2628 3077 7.652909 CACTAAATTTGCATTGACCTGAGAAAA 59.347 33.333 0.00 0.00 0.00 2.29
2629 3078 8.370182 ACTAAATTTGCATTGACCTGAGAAAAT 58.630 29.630 0.00 0.00 0.00 1.82
2630 3079 9.211485 CTAAATTTGCATTGACCTGAGAAAATT 57.789 29.630 0.00 0.00 0.00 1.82
2631 3080 7.662604 AATTTGCATTGACCTGAGAAAATTC 57.337 32.000 0.00 0.00 0.00 2.17
2632 3081 6.409524 TTTGCATTGACCTGAGAAAATTCT 57.590 33.333 0.00 0.00 41.00 2.40
2633 3082 6.409524 TTGCATTGACCTGAGAAAATTCTT 57.590 33.333 0.00 0.00 37.73 2.52
2634 3083 6.409524 TGCATTGACCTGAGAAAATTCTTT 57.590 33.333 0.00 0.00 37.73 2.52
2635 3084 6.819284 TGCATTGACCTGAGAAAATTCTTTT 58.181 32.000 0.00 0.00 37.73 2.27
2671 3120 9.944376 TTGTAGATAAAGATTTCAGTTGCTACT 57.056 29.630 0.00 0.00 34.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
220 221 1.813862 GCCAAGACCAAGCACTACACA 60.814 52.381 0.00 0.00 0.00 3.72
223 224 1.912371 GCGCCAAGACCAAGCACTAC 61.912 60.000 0.00 0.00 0.00 2.73
246 247 2.792947 AAGTGGTGGTCGCTCGTGT 61.793 57.895 0.00 0.00 34.68 4.49
320 321 1.061546 TCAACCTAGACGGGGCTTTT 58.938 50.000 0.00 0.00 36.97 2.27
475 476 0.726827 CAATAATGTGTGCGACGGCT 59.273 50.000 0.00 0.00 40.82 5.52
484 485 1.472480 GGAACCAGCGCAATAATGTGT 59.528 47.619 11.47 0.00 39.31 3.72
552 553 1.958205 GAGATGCCGATTGCCGAGG 60.958 63.158 0.00 0.00 41.76 4.63
567 568 3.636282 TCGTTGACGAAGACATTGAGA 57.364 42.857 3.41 0.00 46.30 3.27
598 604 1.069765 CCGACGGCCAGATATGCTT 59.930 57.895 2.24 0.00 0.00 3.91
599 605 2.737180 CCGACGGCCAGATATGCT 59.263 61.111 2.24 0.00 0.00 3.79
642 648 0.898789 TCGAGGAACAGGAGGTGGTC 60.899 60.000 0.00 0.00 42.92 4.02
930 936 1.548081 CATTGCTGGGGTCATGTTGA 58.452 50.000 0.00 0.00 0.00 3.18
936 942 2.497792 ATTCGGCATTGCTGGGGTCA 62.498 55.000 17.19 0.00 35.34 4.02
987 1133 2.903855 CCCATGGCATCGCTGTCC 60.904 66.667 6.09 0.00 0.00 4.02
1066 1218 6.374565 TCCTTCGTAGTAGTATTTCAGAGC 57.625 41.667 0.00 0.00 0.00 4.09
1081 1233 3.194861 CGGCAAAGATGATTCCTTCGTA 58.805 45.455 0.00 0.00 0.00 3.43
1082 1234 2.009774 CGGCAAAGATGATTCCTTCGT 58.990 47.619 0.00 0.00 0.00 3.85
1083 1235 1.331756 CCGGCAAAGATGATTCCTTCG 59.668 52.381 0.00 0.00 0.00 3.79
1118 1270 6.854496 TGTGGTAATGGTATCGATTAAAGC 57.146 37.500 1.71 0.00 0.00 3.51
1134 1286 0.831966 AGTGGACGGTGTTGTGGTAA 59.168 50.000 0.00 0.00 0.00 2.85
1135 1287 1.340889 GTAGTGGACGGTGTTGTGGTA 59.659 52.381 0.00 0.00 0.00 3.25
1136 1288 0.105408 GTAGTGGACGGTGTTGTGGT 59.895 55.000 0.00 0.00 0.00 4.16
1137 1289 0.391597 AGTAGTGGACGGTGTTGTGG 59.608 55.000 0.00 0.00 0.00 4.17
1138 1290 1.497991 CAGTAGTGGACGGTGTTGTG 58.502 55.000 0.00 0.00 0.00 3.33
1139 1291 0.249741 GCAGTAGTGGACGGTGTTGT 60.250 55.000 0.00 0.00 0.00 3.32
1140 1292 0.949105 GGCAGTAGTGGACGGTGTTG 60.949 60.000 0.00 0.00 0.00 3.33
1141 1293 1.370064 GGCAGTAGTGGACGGTGTT 59.630 57.895 0.00 0.00 0.00 3.32
1208 1378 0.165944 GGTGCCTGTCACGAAAATCG 59.834 55.000 0.00 0.00 46.56 3.34
1230 1400 6.425114 AGTGATTTGGATAGATCAATGCGTAC 59.575 38.462 0.00 0.00 34.34 3.67
1252 1422 2.163390 CGATGACAGCGAGGCAGTG 61.163 63.158 7.46 0.00 39.86 3.66
1267 1437 2.416547 CGGAATTGTTGTCAAGCTCGAT 59.583 45.455 0.00 0.00 36.97 3.59
1298 1468 1.487142 TCGGTTCACCTCCAAGAAACA 59.513 47.619 0.00 0.00 30.97 2.83
1316 1486 6.857964 ACAATTTTGAACTATTTCTGCACTCG 59.142 34.615 0.00 0.00 32.36 4.18
1326 1496 9.398170 CTCAACATCGAACAATTTTGAACTATT 57.602 29.630 0.00 0.00 28.01 1.73
1353 1526 1.908793 ACCACGGCACTCTGCTAGT 60.909 57.895 0.00 0.00 44.28 2.57
1384 1557 2.334838 CGGGTAACTCACAGCAGTAAC 58.665 52.381 0.00 0.00 0.00 2.50
1388 1561 0.670546 CACCGGGTAACTCACAGCAG 60.671 60.000 6.32 0.00 0.00 4.24
1437 1614 4.348020 AGTCCTCACCCACTTCCTATTA 57.652 45.455 0.00 0.00 0.00 0.98
1438 1615 3.207044 AGTCCTCACCCACTTCCTATT 57.793 47.619 0.00 0.00 0.00 1.73
1473 1650 9.383519 TGGAGAATATTAAAGAACAAGCTACAG 57.616 33.333 0.00 0.00 0.00 2.74
1521 1698 1.202580 CCTCGAACTGTGGGATGATCC 60.203 57.143 1.94 1.94 35.23 3.36
1530 1707 1.813513 AGCAATTCCCTCGAACTGTG 58.186 50.000 0.00 0.00 27.90 3.66
1545 1722 7.362834 CCATTGGACTTAATGATGTACAAGCAA 60.363 37.037 0.00 0.00 39.93 3.91
1565 1742 2.726821 ACTTGATACACTGCCCATTGG 58.273 47.619 0.00 0.00 0.00 3.16
1622 1799 2.338015 GGTCGTGCTGGGTAGTCGA 61.338 63.158 0.00 0.00 33.06 4.20
1683 1881 9.141400 GAGAACTTCTGTATAGTTTTGGTACAG 57.859 37.037 0.00 5.62 44.09 2.74
1775 1980 7.652909 TGCAAAAGAGTTCCTTGACATATTTTG 59.347 33.333 0.00 0.00 37.87 2.44
1783 1988 4.370364 TGTTGCAAAAGAGTTCCTTGAC 57.630 40.909 0.00 0.00 34.79 3.18
1798 2003 7.089538 CCAAGTTCATATACACATTTGTTGCA 58.910 34.615 0.00 0.00 37.15 4.08
1871 2076 6.267496 TGCTCAACTAATTTAAAGGCCTTC 57.733 37.500 20.79 0.89 0.00 3.46
1927 2132 5.490139 AATTCCACTATTTGCTGATGTCG 57.510 39.130 0.00 0.00 0.00 4.35
1928 2133 7.559590 ACTAATTCCACTATTTGCTGATGTC 57.440 36.000 0.00 0.00 0.00 3.06
1967 2172 9.877222 TCTATTATTACCAAGTGATAGTCTCCA 57.123 33.333 0.00 0.00 0.00 3.86
2007 2212 4.471904 TTAGATCGCAATCTTGGTCTGT 57.528 40.909 0.00 0.00 42.39 3.41
2012 2217 6.304356 TGCTTAATTAGATCGCAATCTTGG 57.696 37.500 0.00 0.00 42.39 3.61
2021 2226 7.394870 TCATTCGACTTGCTTAATTAGATCG 57.605 36.000 0.00 0.00 0.00 3.69
2023 2228 8.986847 CAGATCATTCGACTTGCTTAATTAGAT 58.013 33.333 0.00 0.00 0.00 1.98
2036 2241 4.553742 CGTCTTCGATCAGATCATTCGACT 60.554 45.833 11.12 0.00 41.18 4.18
2049 2254 0.591741 CGCCTACCACGTCTTCGATC 60.592 60.000 0.00 0.00 40.62 3.69
2052 2257 1.800315 CACGCCTACCACGTCTTCG 60.800 63.158 0.00 0.00 42.96 3.79
2058 2263 0.511221 CAGTTTTCACGCCTACCACG 59.489 55.000 0.00 0.00 0.00 4.94
2061 2266 1.737793 CATCCAGTTTTCACGCCTACC 59.262 52.381 0.00 0.00 0.00 3.18
2063 2268 2.695359 GTCATCCAGTTTTCACGCCTA 58.305 47.619 0.00 0.00 0.00 3.93
2065 2270 0.165944 CGTCATCCAGTTTTCACGCC 59.834 55.000 0.00 0.00 0.00 5.68
2066 2271 0.452784 GCGTCATCCAGTTTTCACGC 60.453 55.000 0.00 0.00 44.90 5.34
2067 2272 0.165944 GGCGTCATCCAGTTTTCACG 59.834 55.000 0.00 0.00 0.00 4.35
2068 2273 0.521735 GGGCGTCATCCAGTTTTCAC 59.478 55.000 0.00 0.00 0.00 3.18
2069 2274 0.400213 AGGGCGTCATCCAGTTTTCA 59.600 50.000 0.00 0.00 0.00 2.69
2071 2276 1.628846 AGTAGGGCGTCATCCAGTTTT 59.371 47.619 0.00 0.00 0.00 2.43
2075 2280 1.443407 CCAGTAGGGCGTCATCCAG 59.557 63.158 0.00 0.00 0.00 3.86
2076 2281 3.628989 CCAGTAGGGCGTCATCCA 58.371 61.111 0.00 0.00 0.00 3.41
2086 2291 1.562942 GTTAACCCTTCCCCCAGTAGG 59.437 57.143 0.00 0.00 0.00 3.18
2088 2293 1.154869 AGGTTAACCCTTCCCCCAGTA 59.845 52.381 21.30 0.00 42.73 2.74
2089 2294 0.103554 AGGTTAACCCTTCCCCCAGT 60.104 55.000 21.30 0.00 42.73 4.00
2090 2295 2.800970 AGGTTAACCCTTCCCCCAG 58.199 57.895 21.30 0.00 42.73 4.45
2095 2300 6.561358 ACGGAGTTCAAGGTTAACCCTTCC 62.561 50.000 21.30 16.08 46.55 3.46
2096 2301 3.495629 ACGGAGTTCAAGGTTAACCCTTC 60.496 47.826 21.30 8.40 46.55 3.46
2099 2304 2.556144 ACGGAGTTCAAGGTTAACCC 57.444 50.000 21.30 5.37 37.78 4.11
2118 2567 3.215597 ATGTGGCGGTCGAACGTGA 62.216 57.895 25.62 8.40 35.98 4.35
2120 2569 2.736995 CATGTGGCGGTCGAACGT 60.737 61.111 25.62 0.00 35.98 3.99
2130 2579 0.248289 ATCAGCCTTTTGCATGTGGC 59.752 50.000 14.16 14.16 44.83 5.01
2151 2600 1.000506 TGTCCAACTAGCTGAACGACC 59.999 52.381 0.00 0.00 0.00 4.79
2175 2624 5.798434 GGCGTTATTATTATTCGATTTGCCC 59.202 40.000 0.00 0.00 0.00 5.36
2186 2635 6.320164 TCAAAACAGCCTGGCGTTATTATTAT 59.680 34.615 22.50 8.32 0.00 1.28
2191 2640 2.228822 CTCAAAACAGCCTGGCGTTATT 59.771 45.455 22.50 16.94 0.00 1.40
2192 2641 1.812571 CTCAAAACAGCCTGGCGTTAT 59.187 47.619 22.50 13.48 0.00 1.89
2198 2647 0.032540 GCAACCTCAAAACAGCCTGG 59.967 55.000 0.00 0.00 0.00 4.45
2200 2649 0.396974 TGGCAACCTCAAAACAGCCT 60.397 50.000 0.00 0.00 42.46 4.58
2220 2669 6.158520 TCCATCTTTTGACTCCTGAATGGATA 59.841 38.462 0.00 0.00 45.16 2.59
2225 2674 5.511386 ACTCCATCTTTTGACTCCTGAAT 57.489 39.130 0.00 0.00 0.00 2.57
2262 2711 2.091610 AGGGCTGATGACTAGTCTGCTA 60.092 50.000 23.01 3.72 39.56 3.49
2276 2725 1.675714 CGAAATGTGTAGCAGGGCTGA 60.676 52.381 0.07 0.00 40.10 4.26
2331 2780 6.319911 AGCAGGGCTTAAATTTAGACTCATTC 59.680 38.462 0.00 0.00 33.89 2.67
2354 2803 1.597742 ATCATTCGCCATGTGGTAGC 58.402 50.000 0.35 0.00 37.57 3.58
2383 2832 7.938490 ACATGTTCATATAATGACCAGTATGCA 59.062 33.333 0.00 0.00 39.39 3.96
2384 2833 8.327941 ACATGTTCATATAATGACCAGTATGC 57.672 34.615 0.00 0.00 39.39 3.14
2439 2888 9.575868 TTGAAAACATACACCCTATCAAACTTA 57.424 29.630 0.00 0.00 0.00 2.24
2496 2945 9.802039 AGGTGTAAAGTTCCACAAATAATTAGA 57.198 29.630 7.65 0.00 33.19 2.10
2500 2949 8.466798 GCATAGGTGTAAAGTTCCACAAATAAT 58.533 33.333 7.65 0.00 33.19 1.28
2501 2950 7.668052 AGCATAGGTGTAAAGTTCCACAAATAA 59.332 33.333 7.65 0.00 33.19 1.40
2502 2951 7.172342 AGCATAGGTGTAAAGTTCCACAAATA 58.828 34.615 7.65 0.00 33.19 1.40
2503 2952 6.010219 AGCATAGGTGTAAAGTTCCACAAAT 58.990 36.000 7.65 0.00 33.19 2.32
2504 2953 5.381757 AGCATAGGTGTAAAGTTCCACAAA 58.618 37.500 7.65 0.00 33.19 2.83
2505 2954 4.980573 AGCATAGGTGTAAAGTTCCACAA 58.019 39.130 7.65 0.00 33.19 3.33
2506 2955 4.634012 AGCATAGGTGTAAAGTTCCACA 57.366 40.909 7.65 0.00 33.19 4.17
2507 2956 7.335924 TCAAATAGCATAGGTGTAAAGTTCCAC 59.664 37.037 0.00 0.00 0.00 4.02
2508 2957 7.398829 TCAAATAGCATAGGTGTAAAGTTCCA 58.601 34.615 0.00 0.00 0.00 3.53
2509 2958 7.859325 TCAAATAGCATAGGTGTAAAGTTCC 57.141 36.000 0.00 0.00 0.00 3.62
2514 2963 9.853555 CACAATTTCAAATAGCATAGGTGTAAA 57.146 29.630 0.00 0.00 0.00 2.01
2515 2964 9.019656 ACACAATTTCAAATAGCATAGGTGTAA 57.980 29.630 0.00 0.00 33.34 2.41
2516 2965 8.574251 ACACAATTTCAAATAGCATAGGTGTA 57.426 30.769 0.00 0.00 33.34 2.90
2517 2966 7.466746 ACACAATTTCAAATAGCATAGGTGT 57.533 32.000 0.00 0.00 0.00 4.16
2518 2967 7.814107 ACAACACAATTTCAAATAGCATAGGTG 59.186 33.333 0.00 0.00 0.00 4.00
2519 2968 7.895759 ACAACACAATTTCAAATAGCATAGGT 58.104 30.769 0.00 0.00 0.00 3.08
2520 2969 8.761575 AACAACACAATTTCAAATAGCATAGG 57.238 30.769 0.00 0.00 0.00 2.57
2522 2971 9.632807 GGTAACAACACAATTTCAAATAGCATA 57.367 29.630 0.00 0.00 0.00 3.14
2523 2972 7.328249 CGGTAACAACACAATTTCAAATAGCAT 59.672 33.333 0.00 0.00 0.00 3.79
2524 2973 6.638873 CGGTAACAACACAATTTCAAATAGCA 59.361 34.615 0.00 0.00 0.00 3.49
2525 2974 6.858993 TCGGTAACAACACAATTTCAAATAGC 59.141 34.615 0.00 0.00 0.00 2.97
2526 2975 8.073768 AGTCGGTAACAACACAATTTCAAATAG 58.926 33.333 0.00 0.00 0.00 1.73
2527 2976 7.858382 CAGTCGGTAACAACACAATTTCAAATA 59.142 33.333 0.00 0.00 0.00 1.40
2528 2977 6.695278 CAGTCGGTAACAACACAATTTCAAAT 59.305 34.615 0.00 0.00 0.00 2.32
2529 2978 6.030849 CAGTCGGTAACAACACAATTTCAAA 58.969 36.000 0.00 0.00 0.00 2.69
2530 2979 5.124138 ACAGTCGGTAACAACACAATTTCAA 59.876 36.000 0.00 0.00 0.00 2.69
2531 2980 4.636648 ACAGTCGGTAACAACACAATTTCA 59.363 37.500 0.00 0.00 0.00 2.69
2532 2981 5.164606 ACAGTCGGTAACAACACAATTTC 57.835 39.130 0.00 0.00 0.00 2.17
2533 2982 5.570234 AACAGTCGGTAACAACACAATTT 57.430 34.783 0.00 0.00 0.00 1.82
2534 2983 5.570234 AAACAGTCGGTAACAACACAATT 57.430 34.783 0.00 0.00 0.00 2.32
2535 2984 5.570234 AAAACAGTCGGTAACAACACAAT 57.430 34.783 0.00 0.00 0.00 2.71
2536 2985 5.373981 AAAAACAGTCGGTAACAACACAA 57.626 34.783 0.00 0.00 0.00 3.33
2555 3004 7.921787 ACGTACATCTACAACACATTGAAAAA 58.078 30.769 0.00 0.00 39.30 1.94
2556 3005 7.485418 ACGTACATCTACAACACATTGAAAA 57.515 32.000 0.00 0.00 39.30 2.29
2557 3006 8.652463 CATACGTACATCTACAACACATTGAAA 58.348 33.333 0.00 0.00 39.30 2.69
2558 3007 7.815549 ACATACGTACATCTACAACACATTGAA 59.184 33.333 0.00 0.00 39.30 2.69
2559 3008 7.317390 ACATACGTACATCTACAACACATTGA 58.683 34.615 0.00 0.00 39.30 2.57
2560 3009 7.274686 TGACATACGTACATCTACAACACATTG 59.725 37.037 0.00 0.00 41.98 2.82
2561 3010 7.317390 TGACATACGTACATCTACAACACATT 58.683 34.615 0.00 0.00 0.00 2.71
2562 3011 6.859017 TGACATACGTACATCTACAACACAT 58.141 36.000 0.00 0.00 0.00 3.21
2563 3012 6.256912 TGACATACGTACATCTACAACACA 57.743 37.500 0.00 0.00 0.00 3.72
2564 3013 7.486870 TGAATGACATACGTACATCTACAACAC 59.513 37.037 0.00 0.00 0.00 3.32
2565 3014 7.540299 TGAATGACATACGTACATCTACAACA 58.460 34.615 0.00 0.00 0.00 3.33
2566 3015 7.980742 TGAATGACATACGTACATCTACAAC 57.019 36.000 0.00 0.00 0.00 3.32
2567 3016 9.594478 AATTGAATGACATACGTACATCTACAA 57.406 29.630 0.00 7.26 0.00 2.41
2568 3017 9.594478 AAATTGAATGACATACGTACATCTACA 57.406 29.630 0.00 0.00 0.00 2.74
2569 3018 9.849607 CAAATTGAATGACATACGTACATCTAC 57.150 33.333 0.00 0.00 0.00 2.59
2570 3019 9.594478 ACAAATTGAATGACATACGTACATCTA 57.406 29.630 0.00 0.00 0.00 1.98
2571 3020 8.492673 ACAAATTGAATGACATACGTACATCT 57.507 30.769 0.00 0.00 0.00 2.90
2572 3021 8.604035 AGACAAATTGAATGACATACGTACATC 58.396 33.333 0.00 0.00 0.00 3.06
2573 3022 8.390354 CAGACAAATTGAATGACATACGTACAT 58.610 33.333 0.00 0.00 0.00 2.29
2574 3023 7.148490 CCAGACAAATTGAATGACATACGTACA 60.148 37.037 0.00 0.00 0.00 2.90
2575 3024 7.148474 ACCAGACAAATTGAATGACATACGTAC 60.148 37.037 0.00 0.00 0.00 3.67
2576 3025 6.876789 ACCAGACAAATTGAATGACATACGTA 59.123 34.615 0.00 0.00 0.00 3.57
2577 3026 5.705441 ACCAGACAAATTGAATGACATACGT 59.295 36.000 0.00 0.00 0.00 3.57
2578 3027 6.128309 TGACCAGACAAATTGAATGACATACG 60.128 38.462 0.00 0.00 0.00 3.06
2579 3028 7.023575 GTGACCAGACAAATTGAATGACATAC 58.976 38.462 0.00 0.00 0.00 2.39
2580 3029 6.942005 AGTGACCAGACAAATTGAATGACATA 59.058 34.615 0.00 0.00 0.00 2.29
2581 3030 5.771666 AGTGACCAGACAAATTGAATGACAT 59.228 36.000 0.00 0.00 0.00 3.06
2582 3031 5.132502 AGTGACCAGACAAATTGAATGACA 58.867 37.500 0.00 0.19 0.00 3.58
2583 3032 5.695851 AGTGACCAGACAAATTGAATGAC 57.304 39.130 0.00 0.00 0.00 3.06
2584 3033 7.815840 TTTAGTGACCAGACAAATTGAATGA 57.184 32.000 0.00 0.00 0.00 2.57
2585 3034 9.480053 AAATTTAGTGACCAGACAAATTGAATG 57.520 29.630 0.00 0.00 31.17 2.67
2586 3035 9.480053 CAAATTTAGTGACCAGACAAATTGAAT 57.520 29.630 0.00 0.00 31.17 2.57
2587 3036 7.437862 GCAAATTTAGTGACCAGACAAATTGAA 59.562 33.333 0.00 0.00 31.17 2.69
2588 3037 6.922957 GCAAATTTAGTGACCAGACAAATTGA 59.077 34.615 0.00 0.00 31.17 2.57
2589 3038 6.700960 TGCAAATTTAGTGACCAGACAAATTG 59.299 34.615 0.00 0.00 31.17 2.32
2590 3039 6.815089 TGCAAATTTAGTGACCAGACAAATT 58.185 32.000 0.00 0.00 31.84 1.82
2591 3040 6.403866 TGCAAATTTAGTGACCAGACAAAT 57.596 33.333 0.00 0.00 0.00 2.32
2592 3041 5.843673 TGCAAATTTAGTGACCAGACAAA 57.156 34.783 0.00 0.00 0.00 2.83
2593 3042 6.040278 TCAATGCAAATTTAGTGACCAGACAA 59.960 34.615 0.00 0.00 0.00 3.18
2594 3043 5.534278 TCAATGCAAATTTAGTGACCAGACA 59.466 36.000 0.00 0.00 0.00 3.41
2595 3044 5.858581 GTCAATGCAAATTTAGTGACCAGAC 59.141 40.000 9.39 0.43 31.32 3.51
2596 3045 6.012658 GTCAATGCAAATTTAGTGACCAGA 57.987 37.500 9.39 0.00 31.32 3.86
2600 3049 6.012658 TCAGGTCAATGCAAATTTAGTGAC 57.987 37.500 11.35 11.35 35.69 3.67
2601 3050 6.003326 TCTCAGGTCAATGCAAATTTAGTGA 58.997 36.000 0.00 0.00 0.00 3.41
2602 3051 6.258230 TCTCAGGTCAATGCAAATTTAGTG 57.742 37.500 0.00 0.00 0.00 2.74
2603 3052 6.899393 TTCTCAGGTCAATGCAAATTTAGT 57.101 33.333 0.00 0.00 0.00 2.24
2604 3053 8.767478 ATTTTCTCAGGTCAATGCAAATTTAG 57.233 30.769 0.00 0.00 0.00 1.85
2605 3054 9.206870 GAATTTTCTCAGGTCAATGCAAATTTA 57.793 29.630 0.00 0.00 0.00 1.40
2606 3055 7.935210 AGAATTTTCTCAGGTCAATGCAAATTT 59.065 29.630 0.00 0.00 29.94 1.82
2607 3056 7.447594 AGAATTTTCTCAGGTCAATGCAAATT 58.552 30.769 0.00 0.00 29.94 1.82
2608 3057 7.001099 AGAATTTTCTCAGGTCAATGCAAAT 57.999 32.000 0.00 0.00 29.94 2.32
2609 3058 6.409524 AGAATTTTCTCAGGTCAATGCAAA 57.590 33.333 0.00 0.00 29.94 3.68
2610 3059 6.409524 AAGAATTTTCTCAGGTCAATGCAA 57.590 33.333 0.00 0.00 36.28 4.08
2611 3060 6.409524 AAAGAATTTTCTCAGGTCAATGCA 57.590 33.333 0.00 0.00 31.62 3.96
2645 3094 9.944376 AGTAGCAACTGAAATCTTTATCTACAA 57.056 29.630 0.00 0.00 33.57 2.41


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

AutoCloner maintained by Alex Coulton.