Multiple sequence alignment - TraesCS7A01G274100

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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 TraesCS7A01G274100 chr7A 100.000 2714 0 0 1 2714 287491150 287493863 0.000000e+00 5012.0
1 TraesCS7A01G274100 chr7A 92.942 2026 106 9 1 2003 287525438 287527449 0.000000e+00 2915.0
2 TraesCS7A01G274100 chr7A 93.415 1382 59 17 402 1774 287499157 287500515 0.000000e+00 2019.0
3 TraesCS7A01G274100 chr7A 85.615 862 120 4 937 1796 287484941 287485800 0.000000e+00 902.0
4 TraesCS7A01G274100 chr7A 82.941 170 21 5 2097 2259 287484067 287484235 2.180000e-31 147.0
5 TraesCS7A01G274100 chr7A 84.507 142 19 3 156 294 567724036 567724177 1.310000e-28 137.0
6 TraesCS7A01G274100 chr7D 93.156 1987 99 9 328 2291 264034162 264036134 0.000000e+00 2881.0
7 TraesCS7A01G274100 chr7D 91.276 1215 62 21 816 2003 264054301 264055498 0.000000e+00 1616.0
8 TraesCS7A01G274100 chr7D 91.411 652 37 7 328 969 264044559 264045201 0.000000e+00 876.0
9 TraesCS7A01G274100 chr7D 93.478 138 8 1 2304 2441 32648390 32648254 1.270000e-48 204.0
10 TraesCS7A01G274100 chr7D 84.239 184 13 3 2097 2264 264028074 264028257 6.010000e-37 165.0
11 TraesCS7A01G274100 chr7D 100.000 68 0 0 2558 2625 264036143 264036210 2.840000e-25 126.0
12 TraesCS7A01G274100 chr7D 98.276 58 1 0 2657 2714 264036208 264036265 4.780000e-18 102.0
13 TraesCS7A01G274100 chr7B 91.733 1754 101 15 571 2290 244404675 244406418 0.000000e+00 2396.0
14 TraesCS7A01G274100 chr7B 91.415 1491 73 12 547 2003 244409617 244411086 0.000000e+00 1993.0
15 TraesCS7A01G274100 chr7B 88.803 777 82 5 1001 1774 244394122 244394896 0.000000e+00 948.0
16 TraesCS7A01G274100 chr7B 83.972 992 141 14 816 1796 244406805 244407789 0.000000e+00 935.0
17 TraesCS7A01G274100 chr7B 86.585 246 15 7 2072 2300 244411208 244411452 3.470000e-64 255.0
18 TraesCS7A01G274100 chr7B 85.876 177 21 4 121 294 568003211 568003036 4.610000e-43 185.0
19 TraesCS7A01G274100 chr7B 82.993 147 10 4 2133 2264 244395447 244395593 4.750000e-23 119.0
20 TraesCS7A01G274100 chr7B 100.000 58 0 0 2657 2714 244406487 244406544 1.030000e-19 108.0
21 TraesCS7A01G274100 chr7B 97.436 39 1 0 2587 2625 244406451 244406489 1.740000e-07 67.6
22 TraesCS7A01G274100 chr5D 88.608 237 25 2 2323 2558 482408133 482407898 1.230000e-73 287.0
23 TraesCS7A01G274100 chr4B 87.023 262 25 5 2303 2560 4566660 4566916 1.230000e-73 287.0
24 TraesCS7A01G274100 chr4B 88.085 235 22 5 2323 2556 569368305 569368534 9.570000e-70 274.0
25 TraesCS7A01G274100 chr3D 85.455 275 35 3 30 303 573692089 573691819 5.720000e-72 281.0
26 TraesCS7A01G274100 chr3D 86.667 255 32 2 2304 2557 600086425 600086172 5.720000e-72 281.0
27 TraesCS7A01G274100 chr3D 94.203 138 7 1 2304 2441 22928834 22928698 2.740000e-50 209.0
28 TraesCS7A01G274100 chr2D 83.607 305 42 2 1 297 633609917 633609613 2.060000e-71 279.0
29 TraesCS7A01G274100 chr2D 81.771 192 27 6 2382 2567 349736470 349736659 1.300000e-33 154.0
30 TraesCS7A01G274100 chr3A 84.946 279 36 4 30 307 708324272 708323999 7.400000e-71 278.0
31 TraesCS7A01G274100 chr3A 85.985 264 25 8 2304 2560 600890305 600890563 3.440000e-69 272.0
32 TraesCS7A01G274100 chr1B 88.587 184 20 1 117 300 278633668 278633486 3.520000e-54 222.0
33 TraesCS7A01G274100 chr1B 87.500 88 6 4 211 294 308581442 308581528 2.220000e-16 97.1
34 TraesCS7A01G274100 chr2B 94.245 139 7 1 2303 2441 570919311 570919448 7.610000e-51 211.0
35 TraesCS7A01G274100 chr2B 79.233 313 50 10 9 307 693754545 693754234 1.270000e-48 204.0
36 TraesCS7A01G274100 chr2B 93.443 122 6 2 2439 2559 724733915 724733795 2.150000e-41 180.0
37 TraesCS7A01G274100 chr2B 76.094 297 46 18 9 294 91336520 91336238 6.100000e-27 132.0
38 TraesCS7A01G274100 chr2A 80.505 277 44 6 28 299 30823892 30823621 1.270000e-48 204.0
39 TraesCS7A01G274100 chr4A 89.024 164 11 6 2283 2444 559496918 559496760 2.130000e-46 196.0
40 TraesCS7A01G274100 chr1A 78.808 302 38 12 2 300 249149223 249148945 2.150000e-41 180.0
41 TraesCS7A01G274100 chr6A 92.683 123 8 1 2439 2560 464539490 464539612 2.780000e-40 176.0
42 TraesCS7A01G274100 chr6D 92.000 125 7 3 2439 2562 454889417 454889539 3.590000e-39 172.0
43 TraesCS7A01G274100 chr1D 86.170 94 9 4 131 223 27593720 27593810 6.180000e-17 99.0
44 TraesCS7A01G274100 chr5A 94.000 50 2 1 175 223 436315864 436315815 1.040000e-09 75.0
45 TraesCS7A01G274100 chr4D 85.507 69 9 1 155 223 461552467 461552400 1.350000e-08 71.3


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 TraesCS7A01G274100 chr7A 287491150 287493863 2713 False 5012.000000 5012 100.000000 1 2714 1 chr7A.!!$F1 2713
1 TraesCS7A01G274100 chr7A 287525438 287527449 2011 False 2915.000000 2915 92.942000 1 2003 1 chr7A.!!$F3 2002
2 TraesCS7A01G274100 chr7A 287499157 287500515 1358 False 2019.000000 2019 93.415000 402 1774 1 chr7A.!!$F2 1372
3 TraesCS7A01G274100 chr7A 287484067 287485800 1733 False 524.500000 902 84.278000 937 2259 2 chr7A.!!$F5 1322
4 TraesCS7A01G274100 chr7D 264054301 264055498 1197 False 1616.000000 1616 91.276000 816 2003 1 chr7D.!!$F3 1187
5 TraesCS7A01G274100 chr7D 264034162 264036265 2103 False 1036.333333 2881 97.144000 328 2714 3 chr7D.!!$F4 2386
6 TraesCS7A01G274100 chr7D 264044559 264045201 642 False 876.000000 876 91.411000 328 969 1 chr7D.!!$F2 641
7 TraesCS7A01G274100 chr7B 244404675 244411452 6777 False 959.100000 2396 91.856833 547 2714 6 chr7B.!!$F2 2167
8 TraesCS7A01G274100 chr7B 244394122 244395593 1471 False 533.500000 948 85.898000 1001 2264 2 chr7B.!!$F1 1263

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
675 5079 0.815213 GCAGTCAGCTGTGTCACCAA 60.815 55.0 14.67 0.0 44.32 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2479 7198 0.035317 TCAAGTCTTGGTGCTCGCAT 59.965 50.0 12.66 0.0 0.0 4.73 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 55 4.992511 GCCCACACCGCCGTTGTA 62.993 66.667 0.00 0.00 0.00 2.41
65 66 1.693083 GCCGTTGTACCTTAGCGCTG 61.693 60.000 22.90 5.81 0.00 5.18
120 121 1.131504 CCCGACTAGCTATCGCATCTC 59.868 57.143 15.70 0.00 38.27 2.75
157 158 1.298993 GGGGAGACGAAAGAACCCC 59.701 63.158 0.00 0.00 46.53 4.95
159 160 1.670015 GGAGACGAAAGAACCCCGT 59.330 57.895 0.00 0.00 39.41 5.28
163 164 1.070275 ACGAAAGAACCCCGTCACC 59.930 57.895 0.00 0.00 29.82 4.02
168 169 4.729856 GAACCCCGTCACCGTCGG 62.730 72.222 10.48 10.48 46.49 4.79
264 265 2.501610 GCAGCTAGGGTTCCCTCG 59.498 66.667 14.24 9.31 37.64 4.63
351 353 8.204160 TCACATTTCTCCTATATGTACCAAGTG 58.796 37.037 0.00 0.00 31.64 3.16
372 374 1.299165 CTTCCATACGGACGGCGAG 60.299 63.158 16.62 7.10 42.67 5.03
552 4949 1.671261 CGGAGAACCAGCAGAGAACAG 60.671 57.143 0.00 0.00 35.59 3.16
635 5032 8.776061 TCCATGATCATATATAACCCGTATCA 57.224 34.615 8.15 0.00 0.00 2.15
673 5077 1.227645 TGCAGTCAGCTGTGTCACC 60.228 57.895 14.67 0.00 45.94 4.02
674 5078 1.227645 GCAGTCAGCTGTGTCACCA 60.228 57.895 14.67 0.00 44.32 4.17
675 5079 0.815213 GCAGTCAGCTGTGTCACCAA 60.815 55.000 14.67 0.00 44.32 3.67
676 5080 1.888215 CAGTCAGCTGTGTCACCAAT 58.112 50.000 14.67 0.00 37.92 3.16
677 5081 1.534163 CAGTCAGCTGTGTCACCAATG 59.466 52.381 14.67 0.00 37.92 2.82
678 5082 1.417517 AGTCAGCTGTGTCACCAATGA 59.582 47.619 14.67 0.00 0.00 2.57
717 5123 3.432749 CCAGGCACATATAAGCTCACTGT 60.433 47.826 0.00 0.00 0.00 3.55
743 5149 1.269051 ACTTGCTGCGCTAACCAAAAC 60.269 47.619 9.73 0.00 0.00 2.43
833 5247 5.684704 ACACATATGGAGGTTAGTTGGATG 58.315 41.667 7.80 0.00 0.00 3.51
834 5248 5.428457 ACACATATGGAGGTTAGTTGGATGA 59.572 40.000 7.80 0.00 0.00 2.92
1121 5535 1.072331 GCCCTTGGTGACCATCGATAT 59.928 52.381 4.56 0.00 31.53 1.63
1302 5716 0.615331 TGCAGGAGACCTTGATGGAC 59.385 55.000 0.00 0.00 39.71 4.02
1373 5787 2.037901 TGCAACTTGCCAATTCAAGGA 58.962 42.857 11.29 0.00 45.72 3.36
1443 5857 3.733684 GCAAGAAAACTGCTTCGGACAAA 60.734 43.478 0.00 0.00 36.84 2.83
1594 6008 2.097954 CAGAAGAGCAAAGTTGTGTGCA 59.902 45.455 1.14 0.00 43.42 4.57
1688 6102 5.532779 GGAGTTTGATCCAGAACAGAGTTTT 59.467 40.000 6.52 0.00 39.34 2.43
1736 6152 1.359474 ACCCTGAGCTCTAGTTCCTGA 59.641 52.381 16.19 0.00 0.00 3.86
1913 6413 4.758165 TCCTGATTAAACGACTTGGTTTCC 59.242 41.667 0.00 0.00 40.41 3.13
1996 6530 3.688185 CCTGATGACATGACTTGGTTCAG 59.312 47.826 0.00 3.23 33.21 3.02
2173 6876 5.772672 ACTAACAATAATCAGGCCAACACAA 59.227 36.000 5.01 0.00 0.00 3.33
2192 6908 3.440173 ACAAGCAACCGATACAAATCCAG 59.560 43.478 0.00 0.00 0.00 3.86
2197 6913 4.083003 GCAACCGATACAAATCCAGTGAAA 60.083 41.667 0.00 0.00 0.00 2.69
2223 6942 9.520515 AATCCTTTCTTATCATGTTGTTGTACT 57.479 29.630 0.00 0.00 0.00 2.73
2269 6988 4.578516 ACAATGAACTTCATGTTTCCGTCA 59.421 37.500 4.99 0.00 37.15 4.35
2282 7001 6.007936 TGTTTCCGTCATTGGATTAGTTTG 57.992 37.500 0.00 0.00 38.00 2.93
2330 7049 6.539649 TTTAACATCAGTACAGACACAAGC 57.460 37.500 0.00 0.00 0.00 4.01
2331 7050 2.677199 ACATCAGTACAGACACAAGCG 58.323 47.619 0.00 0.00 0.00 4.68
2332 7051 1.391485 CATCAGTACAGACACAAGCGC 59.609 52.381 0.00 0.00 0.00 5.92
2333 7052 0.673985 TCAGTACAGACACAAGCGCT 59.326 50.000 2.64 2.64 0.00 5.92
2334 7053 1.063806 CAGTACAGACACAAGCGCTC 58.936 55.000 12.06 0.00 0.00 5.03
2335 7054 0.673985 AGTACAGACACAAGCGCTCA 59.326 50.000 12.06 0.00 0.00 4.26
2336 7055 1.273606 AGTACAGACACAAGCGCTCAT 59.726 47.619 12.06 0.00 0.00 2.90
2337 7056 2.492088 AGTACAGACACAAGCGCTCATA 59.508 45.455 12.06 0.00 0.00 2.15
2338 7057 2.680312 ACAGACACAAGCGCTCATAT 57.320 45.000 12.06 0.00 0.00 1.78
2339 7058 3.801114 ACAGACACAAGCGCTCATATA 57.199 42.857 12.06 0.00 0.00 0.86
2340 7059 4.327982 ACAGACACAAGCGCTCATATAT 57.672 40.909 12.06 0.00 0.00 0.86
2341 7060 5.453567 ACAGACACAAGCGCTCATATATA 57.546 39.130 12.06 0.00 0.00 0.86
2342 7061 5.223382 ACAGACACAAGCGCTCATATATAC 58.777 41.667 12.06 0.00 0.00 1.47
2343 7062 4.322009 CAGACACAAGCGCTCATATATACG 59.678 45.833 12.06 0.00 0.00 3.06
2351 7070 3.359654 CGCTCATATATACGCGCATACA 58.640 45.455 5.73 0.00 39.11 2.29
2352 7071 3.177838 CGCTCATATATACGCGCATACAC 59.822 47.826 5.73 0.00 39.11 2.90
2353 7072 4.352039 GCTCATATATACGCGCATACACT 58.648 43.478 5.73 0.00 0.00 3.55
2354 7073 4.438145 GCTCATATATACGCGCATACACTC 59.562 45.833 5.73 0.00 0.00 3.51
2355 7074 5.554822 TCATATATACGCGCATACACTCA 57.445 39.130 5.73 0.00 0.00 3.41
2356 7075 5.329493 TCATATATACGCGCATACACTCAC 58.671 41.667 5.73 0.00 0.00 3.51
2357 7076 2.410785 TATACGCGCATACACTCACC 57.589 50.000 5.73 0.00 0.00 4.02
2358 7077 0.249322 ATACGCGCATACACTCACCC 60.249 55.000 5.73 0.00 0.00 4.61
2359 7078 2.287457 TACGCGCATACACTCACCCC 62.287 60.000 5.73 0.00 0.00 4.95
2360 7079 2.584608 GCGCATACACTCACCCCT 59.415 61.111 0.30 0.00 0.00 4.79
2361 7080 1.815421 GCGCATACACTCACCCCTG 60.815 63.158 0.30 0.00 0.00 4.45
2362 7081 1.596934 CGCATACACTCACCCCTGT 59.403 57.895 0.00 0.00 0.00 4.00
2363 7082 0.740868 CGCATACACTCACCCCTGTG 60.741 60.000 0.00 0.00 44.18 3.66
2387 7106 1.382522 CACACATGCACATCCTACCC 58.617 55.000 0.00 0.00 0.00 3.69
2388 7107 0.255890 ACACATGCACATCCTACCCC 59.744 55.000 0.00 0.00 0.00 4.95
2389 7108 0.548031 CACATGCACATCCTACCCCT 59.452 55.000 0.00 0.00 0.00 4.79
2390 7109 1.768275 CACATGCACATCCTACCCCTA 59.232 52.381 0.00 0.00 0.00 3.53
2391 7110 2.373169 CACATGCACATCCTACCCCTAT 59.627 50.000 0.00 0.00 0.00 2.57
2392 7111 2.373169 ACATGCACATCCTACCCCTATG 59.627 50.000 0.00 0.00 0.00 2.23
2393 7112 2.487746 TGCACATCCTACCCCTATGA 57.512 50.000 0.00 0.00 0.00 2.15
2394 7113 2.770447 TGCACATCCTACCCCTATGAA 58.230 47.619 0.00 0.00 0.00 2.57
2395 7114 2.438021 TGCACATCCTACCCCTATGAAC 59.562 50.000 0.00 0.00 0.00 3.18
2396 7115 2.438021 GCACATCCTACCCCTATGAACA 59.562 50.000 0.00 0.00 0.00 3.18
2397 7116 3.744530 GCACATCCTACCCCTATGAACAC 60.745 52.174 0.00 0.00 0.00 3.32
2398 7117 3.046374 ACATCCTACCCCTATGAACACC 58.954 50.000 0.00 0.00 0.00 4.16
2399 7118 3.311402 ACATCCTACCCCTATGAACACCT 60.311 47.826 0.00 0.00 0.00 4.00
2400 7119 3.502051 TCCTACCCCTATGAACACCTT 57.498 47.619 0.00 0.00 0.00 3.50
2401 7120 3.381335 TCCTACCCCTATGAACACCTTC 58.619 50.000 0.00 0.00 0.00 3.46
2402 7121 2.102588 CCTACCCCTATGAACACCTTCG 59.897 54.545 0.00 0.00 0.00 3.79
2403 7122 1.946984 ACCCCTATGAACACCTTCGA 58.053 50.000 0.00 0.00 0.00 3.71
2404 7123 2.262637 ACCCCTATGAACACCTTCGAA 58.737 47.619 0.00 0.00 0.00 3.71
2405 7124 2.640826 ACCCCTATGAACACCTTCGAAA 59.359 45.455 0.00 0.00 0.00 3.46
2406 7125 3.270877 CCCCTATGAACACCTTCGAAAG 58.729 50.000 0.00 0.00 0.00 2.62
2407 7126 3.055385 CCCCTATGAACACCTTCGAAAGA 60.055 47.826 0.00 0.00 39.20 2.52
2408 7127 3.933332 CCCTATGAACACCTTCGAAAGAC 59.067 47.826 0.00 0.00 41.84 3.01
2409 7128 4.322801 CCCTATGAACACCTTCGAAAGACT 60.323 45.833 0.00 0.00 41.84 3.24
2410 7129 5.105473 CCCTATGAACACCTTCGAAAGACTA 60.105 44.000 0.00 0.00 41.84 2.59
2411 7130 6.395629 CCTATGAACACCTTCGAAAGACTAA 58.604 40.000 0.00 0.00 41.84 2.24
2412 7131 6.531948 CCTATGAACACCTTCGAAAGACTAAG 59.468 42.308 0.00 0.00 41.84 2.18
2413 7132 4.056050 TGAACACCTTCGAAAGACTAAGC 58.944 43.478 0.00 0.00 41.84 3.09
2414 7133 4.202223 TGAACACCTTCGAAAGACTAAGCT 60.202 41.667 0.00 0.00 41.84 3.74
2415 7134 3.654414 ACACCTTCGAAAGACTAAGCTG 58.346 45.455 0.00 0.00 41.84 4.24
2416 7135 2.996621 CACCTTCGAAAGACTAAGCTGG 59.003 50.000 0.00 0.00 41.84 4.85
2417 7136 2.003301 CCTTCGAAAGACTAAGCTGGC 58.997 52.381 0.00 0.00 41.84 4.85
2418 7137 2.612972 CCTTCGAAAGACTAAGCTGGCA 60.613 50.000 0.00 0.00 41.84 4.92
2419 7138 3.265791 CTTCGAAAGACTAAGCTGGCAT 58.734 45.455 0.00 0.00 41.84 4.40
2420 7139 4.433615 CTTCGAAAGACTAAGCTGGCATA 58.566 43.478 0.00 0.00 41.84 3.14
2421 7140 4.672587 TCGAAAGACTAAGCTGGCATAT 57.327 40.909 0.00 0.00 33.31 1.78
2422 7141 4.621991 TCGAAAGACTAAGCTGGCATATC 58.378 43.478 0.00 0.00 33.31 1.63
2423 7142 4.099419 TCGAAAGACTAAGCTGGCATATCA 59.901 41.667 0.00 0.00 33.31 2.15
2424 7143 4.993584 CGAAAGACTAAGCTGGCATATCAT 59.006 41.667 0.00 0.00 0.00 2.45
2425 7144 5.119898 CGAAAGACTAAGCTGGCATATCATC 59.880 44.000 0.00 0.00 0.00 2.92
2426 7145 5.822132 AAGACTAAGCTGGCATATCATCT 57.178 39.130 0.00 0.00 0.00 2.90
2427 7146 5.822132 AGACTAAGCTGGCATATCATCTT 57.178 39.130 0.00 0.00 0.00 2.40
2428 7147 5.549347 AGACTAAGCTGGCATATCATCTTG 58.451 41.667 0.00 0.00 0.00 3.02
2429 7148 5.306419 AGACTAAGCTGGCATATCATCTTGA 59.694 40.000 0.00 0.00 0.00 3.02
2430 7149 5.549347 ACTAAGCTGGCATATCATCTTGAG 58.451 41.667 0.00 0.00 0.00 3.02
2431 7150 4.701651 AAGCTGGCATATCATCTTGAGA 57.298 40.909 0.00 0.00 0.00 3.27
2432 7151 4.912317 AGCTGGCATATCATCTTGAGAT 57.088 40.909 0.00 0.00 34.56 2.75
2433 7152 5.244189 AGCTGGCATATCATCTTGAGATT 57.756 39.130 0.00 0.00 31.21 2.40
2434 7153 5.632118 AGCTGGCATATCATCTTGAGATTT 58.368 37.500 0.00 0.00 31.21 2.17
2435 7154 6.069331 AGCTGGCATATCATCTTGAGATTTT 58.931 36.000 0.00 0.00 31.21 1.82
2436 7155 7.229308 AGCTGGCATATCATCTTGAGATTTTA 58.771 34.615 0.00 0.00 31.21 1.52
2437 7156 7.174599 AGCTGGCATATCATCTTGAGATTTTAC 59.825 37.037 0.00 0.00 31.21 2.01
2438 7157 7.425577 TGGCATATCATCTTGAGATTTTACG 57.574 36.000 0.00 0.00 31.21 3.18
2439 7158 7.216494 TGGCATATCATCTTGAGATTTTACGA 58.784 34.615 0.00 0.00 31.21 3.43
2440 7159 7.714813 TGGCATATCATCTTGAGATTTTACGAA 59.285 33.333 0.00 0.00 31.21 3.85
2441 7160 8.559536 GGCATATCATCTTGAGATTTTACGAAA 58.440 33.333 0.00 0.00 31.21 3.46
2442 7161 9.591404 GCATATCATCTTGAGATTTTACGAAAG 57.409 33.333 0.00 0.00 31.21 2.62
2445 7164 7.962964 TCATCTTGAGATTTTACGAAAGTGT 57.037 32.000 0.00 0.00 37.55 3.55
2446 7165 9.653287 ATCATCTTGAGATTTTACGAAAGTGTA 57.347 29.630 0.00 0.00 37.55 2.90
2447 7166 9.653287 TCATCTTGAGATTTTACGAAAGTGTAT 57.347 29.630 0.00 0.00 37.55 2.29
2448 7167 9.907576 CATCTTGAGATTTTACGAAAGTGTATC 57.092 33.333 0.00 0.00 37.55 2.24
2453 7172 4.489249 ACGAAAGTGTATCGCCGG 57.511 55.556 0.00 0.00 46.97 6.13
2454 7173 1.885157 ACGAAAGTGTATCGCCGGA 59.115 52.632 5.05 0.00 46.97 5.14
2455 7174 0.244450 ACGAAAGTGTATCGCCGGAA 59.756 50.000 5.05 0.00 46.97 4.30
2456 7175 1.337074 ACGAAAGTGTATCGCCGGAAA 60.337 47.619 5.05 0.00 46.97 3.13
2457 7176 1.931172 CGAAAGTGTATCGCCGGAAAT 59.069 47.619 5.05 0.00 33.07 2.17
2458 7177 2.034001 CGAAAGTGTATCGCCGGAAATC 60.034 50.000 5.05 0.00 33.07 2.17
2459 7178 1.949465 AAGTGTATCGCCGGAAATCC 58.051 50.000 5.05 0.00 0.00 3.01
2460 7179 1.120530 AGTGTATCGCCGGAAATCCT 58.879 50.000 5.05 0.00 0.00 3.24
2461 7180 1.202533 AGTGTATCGCCGGAAATCCTG 60.203 52.381 5.05 0.00 0.00 3.86
2462 7181 1.116308 TGTATCGCCGGAAATCCTGA 58.884 50.000 5.05 0.00 0.00 3.86
2463 7182 1.483004 TGTATCGCCGGAAATCCTGAA 59.517 47.619 5.05 0.00 0.00 3.02
2464 7183 2.093394 TGTATCGCCGGAAATCCTGAAA 60.093 45.455 5.05 0.00 0.00 2.69
2465 7184 2.348411 ATCGCCGGAAATCCTGAAAT 57.652 45.000 5.05 0.00 0.00 2.17
2466 7185 2.992124 TCGCCGGAAATCCTGAAATA 57.008 45.000 5.05 0.00 0.00 1.40
2467 7186 3.269538 TCGCCGGAAATCCTGAAATAA 57.730 42.857 5.05 0.00 0.00 1.40
2468 7187 3.611970 TCGCCGGAAATCCTGAAATAAA 58.388 40.909 5.05 0.00 0.00 1.40
2469 7188 4.204012 TCGCCGGAAATCCTGAAATAAAT 58.796 39.130 5.05 0.00 0.00 1.40
2470 7189 4.274950 TCGCCGGAAATCCTGAAATAAATC 59.725 41.667 5.05 0.00 0.00 2.17
2471 7190 4.556699 CGCCGGAAATCCTGAAATAAATCC 60.557 45.833 5.05 0.00 0.00 3.01
2472 7191 4.340950 GCCGGAAATCCTGAAATAAATCCA 59.659 41.667 5.05 0.00 0.00 3.41
2473 7192 5.507985 GCCGGAAATCCTGAAATAAATCCAG 60.508 44.000 5.05 0.00 0.00 3.86
2474 7193 5.010012 CCGGAAATCCTGAAATAAATCCAGG 59.990 44.000 0.00 0.00 46.64 4.45
2484 7203 7.815840 TGAAATAAATCCAGGATAAATGCGA 57.184 32.000 1.02 0.00 0.00 5.10
2485 7204 7.874940 TGAAATAAATCCAGGATAAATGCGAG 58.125 34.615 1.02 0.00 0.00 5.03
2486 7205 5.886960 ATAAATCCAGGATAAATGCGAGC 57.113 39.130 1.02 0.00 0.00 5.03
2487 7206 2.936919 ATCCAGGATAAATGCGAGCA 57.063 45.000 0.00 0.00 0.00 4.26
2488 7207 1.953559 TCCAGGATAAATGCGAGCAC 58.046 50.000 0.00 0.00 0.00 4.40
2489 7208 0.947244 CCAGGATAAATGCGAGCACC 59.053 55.000 0.00 0.00 0.00 5.01
2490 7209 1.667236 CAGGATAAATGCGAGCACCA 58.333 50.000 0.00 0.00 0.00 4.17
2491 7210 2.016318 CAGGATAAATGCGAGCACCAA 58.984 47.619 0.00 0.00 0.00 3.67
2492 7211 2.032550 CAGGATAAATGCGAGCACCAAG 59.967 50.000 0.00 0.00 0.00 3.61
2493 7212 2.092968 AGGATAAATGCGAGCACCAAGA 60.093 45.455 0.00 0.00 0.00 3.02
2494 7213 2.032178 GGATAAATGCGAGCACCAAGAC 59.968 50.000 0.00 0.00 0.00 3.01
2495 7214 2.472695 TAAATGCGAGCACCAAGACT 57.527 45.000 0.00 0.00 0.00 3.24
2496 7215 1.609208 AAATGCGAGCACCAAGACTT 58.391 45.000 0.00 0.00 0.00 3.01
2497 7216 0.877071 AATGCGAGCACCAAGACTTG 59.123 50.000 8.31 8.31 0.00 3.16
2498 7217 0.035317 ATGCGAGCACCAAGACTTGA 59.965 50.000 16.99 0.00 0.00 3.02
2499 7218 0.179059 TGCGAGCACCAAGACTTGAA 60.179 50.000 16.99 0.00 0.00 2.69
2500 7219 0.235926 GCGAGCACCAAGACTTGAAC 59.764 55.000 16.99 5.48 0.00 3.18
2501 7220 0.868406 CGAGCACCAAGACTTGAACC 59.132 55.000 16.99 4.09 0.00 3.62
2502 7221 1.239347 GAGCACCAAGACTTGAACCC 58.761 55.000 16.99 2.40 0.00 4.11
2503 7222 0.846693 AGCACCAAGACTTGAACCCT 59.153 50.000 16.99 4.58 0.00 4.34
2504 7223 0.954452 GCACCAAGACTTGAACCCTG 59.046 55.000 16.99 1.22 0.00 4.45
2505 7224 1.609208 CACCAAGACTTGAACCCTGG 58.391 55.000 16.99 0.96 0.00 4.45
2506 7225 1.133792 CACCAAGACTTGAACCCTGGT 60.134 52.381 16.99 1.65 0.00 4.00
2507 7226 1.133792 ACCAAGACTTGAACCCTGGTG 60.134 52.381 16.99 0.00 0.00 4.17
2508 7227 1.609208 CAAGACTTGAACCCTGGTGG 58.391 55.000 9.76 0.00 41.37 4.61
2518 7237 4.399764 CCTGGTGGGCTGAGGATA 57.600 61.111 0.00 0.00 0.00 2.59
2519 7238 1.832912 CCTGGTGGGCTGAGGATAC 59.167 63.158 0.00 0.00 0.00 2.24
2520 7239 1.700042 CCTGGTGGGCTGAGGATACC 61.700 65.000 0.00 0.00 37.17 2.73
2521 7240 0.982852 CTGGTGGGCTGAGGATACCA 60.983 60.000 0.00 0.00 38.98 3.25
2524 7243 2.607811 TGGGCTGAGGATACCACTG 58.392 57.895 0.00 0.00 37.17 3.66
2525 7244 0.252696 TGGGCTGAGGATACCACTGT 60.253 55.000 0.00 0.00 37.17 3.55
2526 7245 0.466124 GGGCTGAGGATACCACTGTC 59.534 60.000 0.00 0.00 37.17 3.51
2527 7246 0.466124 GGCTGAGGATACCACTGTCC 59.534 60.000 0.00 0.00 34.64 4.02
2528 7247 1.195115 GCTGAGGATACCACTGTCCA 58.805 55.000 0.00 0.00 36.96 4.02
2529 7248 1.134670 GCTGAGGATACCACTGTCCAC 60.135 57.143 0.00 0.00 36.96 4.02
2530 7249 1.482593 CTGAGGATACCACTGTCCACC 59.517 57.143 0.00 0.00 36.96 4.61
2531 7250 1.078823 TGAGGATACCACTGTCCACCT 59.921 52.381 0.00 0.00 36.96 4.00
2532 7251 2.313643 TGAGGATACCACTGTCCACCTA 59.686 50.000 0.00 0.00 36.96 3.08
2533 7252 3.245839 TGAGGATACCACTGTCCACCTAA 60.246 47.826 0.00 0.00 36.96 2.69
2534 7253 3.105283 AGGATACCACTGTCCACCTAAC 58.895 50.000 0.00 0.00 36.96 2.34
2535 7254 2.169978 GGATACCACTGTCCACCTAACC 59.830 54.545 0.00 0.00 34.57 2.85
2536 7255 2.402182 TACCACTGTCCACCTAACCA 57.598 50.000 0.00 0.00 0.00 3.67
2537 7256 1.742308 ACCACTGTCCACCTAACCAT 58.258 50.000 0.00 0.00 0.00 3.55
2538 7257 1.628846 ACCACTGTCCACCTAACCATC 59.371 52.381 0.00 0.00 0.00 3.51
2539 7258 1.628340 CCACTGTCCACCTAACCATCA 59.372 52.381 0.00 0.00 0.00 3.07
2540 7259 2.039746 CCACTGTCCACCTAACCATCAA 59.960 50.000 0.00 0.00 0.00 2.57
2541 7260 3.497763 CCACTGTCCACCTAACCATCAAA 60.498 47.826 0.00 0.00 0.00 2.69
2542 7261 3.502211 CACTGTCCACCTAACCATCAAAC 59.498 47.826 0.00 0.00 0.00 2.93
2543 7262 3.394606 ACTGTCCACCTAACCATCAAACT 59.605 43.478 0.00 0.00 0.00 2.66
2544 7263 4.595781 ACTGTCCACCTAACCATCAAACTA 59.404 41.667 0.00 0.00 0.00 2.24
2545 7264 4.901868 TGTCCACCTAACCATCAAACTAC 58.098 43.478 0.00 0.00 0.00 2.73
2546 7265 4.348461 TGTCCACCTAACCATCAAACTACA 59.652 41.667 0.00 0.00 0.00 2.74
2547 7266 4.935808 GTCCACCTAACCATCAAACTACAG 59.064 45.833 0.00 0.00 0.00 2.74
2548 7267 4.841813 TCCACCTAACCATCAAACTACAGA 59.158 41.667 0.00 0.00 0.00 3.41
2549 7268 5.487488 TCCACCTAACCATCAAACTACAGAT 59.513 40.000 0.00 0.00 0.00 2.90
2550 7269 6.012858 TCCACCTAACCATCAAACTACAGATT 60.013 38.462 0.00 0.00 0.00 2.40
2551 7270 6.094048 CCACCTAACCATCAAACTACAGATTG 59.906 42.308 0.00 0.00 0.00 2.67
2552 7271 6.094048 CACCTAACCATCAAACTACAGATTGG 59.906 42.308 0.14 0.00 0.00 3.16
2553 7272 6.180472 CCTAACCATCAAACTACAGATTGGT 58.820 40.000 0.14 0.00 31.52 3.67
2554 7273 6.659242 CCTAACCATCAAACTACAGATTGGTT 59.341 38.462 9.17 9.17 38.26 3.67
2555 7274 6.575162 AACCATCAAACTACAGATTGGTTC 57.425 37.500 0.00 0.00 33.99 3.62
2556 7275 4.695455 ACCATCAAACTACAGATTGGTTCG 59.305 41.667 0.14 0.00 0.00 3.95
2625 7344 5.530519 TTCGTTCACACAATTATCTCAGC 57.469 39.130 0.00 0.00 0.00 4.26
2626 7345 4.820897 TCGTTCACACAATTATCTCAGCT 58.179 39.130 0.00 0.00 0.00 4.24
2627 7346 5.237815 TCGTTCACACAATTATCTCAGCTT 58.762 37.500 0.00 0.00 0.00 3.74
2628 7347 5.120674 TCGTTCACACAATTATCTCAGCTTG 59.879 40.000 0.00 0.00 0.00 4.01
2629 7348 4.952262 TCACACAATTATCTCAGCTTGC 57.048 40.909 0.00 0.00 0.00 4.01
2630 7349 3.691118 TCACACAATTATCTCAGCTTGCC 59.309 43.478 0.00 0.00 0.00 4.52
2631 7350 3.441222 CACACAATTATCTCAGCTTGCCA 59.559 43.478 0.00 0.00 0.00 4.92
2632 7351 3.693085 ACACAATTATCTCAGCTTGCCAG 59.307 43.478 0.00 0.00 0.00 4.85
2633 7352 3.943381 CACAATTATCTCAGCTTGCCAGA 59.057 43.478 0.00 0.00 0.00 3.86
2634 7353 4.579340 CACAATTATCTCAGCTTGCCAGAT 59.421 41.667 8.94 8.94 0.00 2.90
2635 7354 5.761726 CACAATTATCTCAGCTTGCCAGATA 59.238 40.000 7.43 7.43 0.00 1.98
2636 7355 5.762218 ACAATTATCTCAGCTTGCCAGATAC 59.238 40.000 9.91 0.00 30.43 2.24
2637 7356 2.522836 ATCTCAGCTTGCCAGATACG 57.477 50.000 3.63 0.00 0.00 3.06
2638 7357 1.474330 TCTCAGCTTGCCAGATACGA 58.526 50.000 0.00 0.00 0.00 3.43
2639 7358 1.406898 TCTCAGCTTGCCAGATACGAG 59.593 52.381 0.00 0.00 0.00 4.18
2640 7359 1.406898 CTCAGCTTGCCAGATACGAGA 59.593 52.381 0.00 0.00 0.00 4.04
2641 7360 1.824852 TCAGCTTGCCAGATACGAGAA 59.175 47.619 0.00 0.00 0.00 2.87
2642 7361 1.929836 CAGCTTGCCAGATACGAGAAC 59.070 52.381 0.00 0.00 0.00 3.01
2643 7362 1.134670 AGCTTGCCAGATACGAGAACC 60.135 52.381 0.00 0.00 0.00 3.62
2644 7363 1.134670 GCTTGCCAGATACGAGAACCT 60.135 52.381 0.00 0.00 0.00 3.50
2645 7364 2.100916 GCTTGCCAGATACGAGAACCTA 59.899 50.000 0.00 0.00 0.00 3.08
2646 7365 3.430374 GCTTGCCAGATACGAGAACCTAA 60.430 47.826 0.00 0.00 0.00 2.69
2647 7366 4.740934 GCTTGCCAGATACGAGAACCTAAT 60.741 45.833 0.00 0.00 0.00 1.73
2648 7367 5.509163 GCTTGCCAGATACGAGAACCTAATA 60.509 44.000 0.00 0.00 0.00 0.98
2649 7368 6.665992 TTGCCAGATACGAGAACCTAATAT 57.334 37.500 0.00 0.00 0.00 1.28
2650 7369 6.665992 TGCCAGATACGAGAACCTAATATT 57.334 37.500 0.00 0.00 0.00 1.28
2651 7370 7.770366 TGCCAGATACGAGAACCTAATATTA 57.230 36.000 0.00 0.00 0.00 0.98
2652 7371 8.185506 TGCCAGATACGAGAACCTAATATTAA 57.814 34.615 0.00 0.00 0.00 1.40
2653 7372 8.644216 TGCCAGATACGAGAACCTAATATTAAA 58.356 33.333 0.00 0.00 0.00 1.52
2654 7373 9.485206 GCCAGATACGAGAACCTAATATTAAAA 57.515 33.333 0.00 0.00 0.00 1.52
2677 7396 4.695455 AGCAGAATTATACTTGCGTGTTGT 59.305 37.500 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
168 169 3.723348 GCAAAGCCCGGTCGTCAC 61.723 66.667 0.00 0.00 0.00 3.67
208 209 1.144913 CCTACTCTCCTCCTCCCTCAG 59.855 61.905 0.00 0.00 0.00 3.35
220 221 1.829096 GGCGTCCCTCCCTACTCTC 60.829 68.421 0.00 0.00 0.00 3.20
221 222 2.279408 GGCGTCCCTCCCTACTCT 59.721 66.667 0.00 0.00 0.00 3.24
300 301 2.185004 AACACATCTTTCTCCCACCG 57.815 50.000 0.00 0.00 0.00 4.94
343 345 2.354303 CCGTATGGAAGCACACTTGGTA 60.354 50.000 0.00 0.00 35.82 3.25
372 374 9.965824 TTTAAGCTGGCTATCTTAAATAATTGC 57.034 29.630 12.99 0.00 38.86 3.56
552 4949 8.375465 GTGTTGCTGCAATGATTATTTTAGTTC 58.625 33.333 19.11 0.11 0.00 3.01
673 5077 4.036027 GGCATGTCTAGGTCATTGTCATTG 59.964 45.833 0.00 0.00 0.00 2.82
674 5078 4.202441 GGCATGTCTAGGTCATTGTCATT 58.798 43.478 0.00 0.00 0.00 2.57
675 5079 3.200605 TGGCATGTCTAGGTCATTGTCAT 59.799 43.478 0.00 0.00 0.00 3.06
676 5080 2.571202 TGGCATGTCTAGGTCATTGTCA 59.429 45.455 0.00 0.00 0.00 3.58
677 5081 3.201290 CTGGCATGTCTAGGTCATTGTC 58.799 50.000 0.00 0.00 0.00 3.18
678 5082 2.092753 CCTGGCATGTCTAGGTCATTGT 60.093 50.000 0.00 0.00 38.53 2.71
743 5149 0.238289 CAAAGCTGTTGCCTACGTGG 59.762 55.000 0.00 0.00 40.80 4.94
833 5247 1.748493 AGTCGACAGCAGGAATCTCTC 59.252 52.381 19.50 0.00 0.00 3.20
834 5248 1.476085 CAGTCGACAGCAGGAATCTCT 59.524 52.381 19.50 0.00 0.00 3.10
1121 5535 1.243342 CCTCAAACCTTCGCATGCCA 61.243 55.000 13.15 0.00 0.00 4.92
1302 5716 3.859443 CTCTTGGACAGTCATCTTCAGG 58.141 50.000 2.17 0.00 0.00 3.86
1373 5787 0.753262 CTTGGCTAGCCGGATGTACT 59.247 55.000 28.28 0.00 39.42 2.73
1437 5851 5.016831 ACCACCCTAGAATCATTTTTGTCC 58.983 41.667 0.00 0.00 0.00 4.02
1443 5857 4.079558 AGCATCACCACCCTAGAATCATTT 60.080 41.667 0.00 0.00 0.00 2.32
1594 6008 1.598701 GCCCGCAATTGCTCCTCTTT 61.599 55.000 26.86 0.00 39.32 2.52
1668 6082 7.557719 AGAAGAAAAACTCTGTTCTGGATCAAA 59.442 33.333 0.00 0.00 34.33 2.69
1688 6102 8.367911 TCTACAAACTAAGAGCATTGAGAAGAA 58.632 33.333 0.00 0.00 0.00 2.52
1736 6152 2.990740 TAAAAGGTGGATGCCAACCT 57.009 45.000 0.00 0.34 43.36 3.50
1868 6312 5.338056 GGATACTGATTTATATCGTGGGGCA 60.338 44.000 0.00 0.00 33.23 5.36
1913 6413 7.926555 CCTGTAAGTACATAGTATGTTTGAGGG 59.073 40.741 20.52 10.74 41.63 4.30
1980 6514 6.970484 ACATTTTACTGAACCAAGTCATGTC 58.030 36.000 0.00 0.00 0.00 3.06
2073 6693 1.598701 GGGTTGGAGCTGGCATGTTC 61.599 60.000 0.00 0.00 0.00 3.18
2173 6876 3.009723 CACTGGATTTGTATCGGTTGCT 58.990 45.455 0.00 0.00 0.00 3.91
2192 6908 9.696917 AACAACATGATAAGAAAGGATTTTCAC 57.303 29.630 0.00 0.00 44.14 3.18
2197 6913 9.520515 AGTACAACAACATGATAAGAAAGGATT 57.479 29.630 0.00 0.00 0.00 3.01
2223 6942 3.333680 ACCATTAGGAAGCAGAAGGGAAA 59.666 43.478 0.00 0.00 38.69 3.13
2305 7024 7.414436 GCTTGTGTCTGTACTGATGTTAAAAA 58.586 34.615 5.69 0.00 0.00 1.94
2306 7025 6.292649 CGCTTGTGTCTGTACTGATGTTAAAA 60.293 38.462 5.69 0.00 0.00 1.52
2307 7026 5.176774 CGCTTGTGTCTGTACTGATGTTAAA 59.823 40.000 5.69 0.00 0.00 1.52
2308 7027 4.684242 CGCTTGTGTCTGTACTGATGTTAA 59.316 41.667 5.69 0.07 0.00 2.01
2309 7028 4.234574 CGCTTGTGTCTGTACTGATGTTA 58.765 43.478 5.69 0.00 0.00 2.41
2310 7029 3.059884 CGCTTGTGTCTGTACTGATGTT 58.940 45.455 5.69 0.00 0.00 2.71
2311 7030 2.677199 CGCTTGTGTCTGTACTGATGT 58.323 47.619 5.69 0.00 0.00 3.06
2312 7031 1.391485 GCGCTTGTGTCTGTACTGATG 59.609 52.381 0.00 0.00 0.00 3.07
2313 7032 1.273606 AGCGCTTGTGTCTGTACTGAT 59.726 47.619 2.64 0.00 0.00 2.90
2314 7033 0.673985 AGCGCTTGTGTCTGTACTGA 59.326 50.000 2.64 0.00 0.00 3.41
2315 7034 1.063806 GAGCGCTTGTGTCTGTACTG 58.936 55.000 13.26 0.00 0.00 2.74
2316 7035 0.673985 TGAGCGCTTGTGTCTGTACT 59.326 50.000 13.26 0.00 0.00 2.73
2317 7036 1.714794 ATGAGCGCTTGTGTCTGTAC 58.285 50.000 13.26 0.00 0.00 2.90
2318 7037 3.801114 ATATGAGCGCTTGTGTCTGTA 57.199 42.857 13.26 0.00 0.00 2.74
2319 7038 2.680312 ATATGAGCGCTTGTGTCTGT 57.320 45.000 13.26 0.00 0.00 3.41
2320 7039 4.322009 CGTATATATGAGCGCTTGTGTCTG 59.678 45.833 13.26 0.00 0.00 3.51
2321 7040 4.476862 CGTATATATGAGCGCTTGTGTCT 58.523 43.478 13.26 0.00 0.00 3.41
2322 7041 3.059570 GCGTATATATGAGCGCTTGTGTC 59.940 47.826 13.26 0.00 45.48 3.67
2323 7042 2.987149 GCGTATATATGAGCGCTTGTGT 59.013 45.455 13.26 4.27 45.48 3.72
2324 7043 2.026860 CGCGTATATATGAGCGCTTGTG 59.973 50.000 13.26 6.56 46.56 3.33
2325 7044 2.251040 CGCGTATATATGAGCGCTTGT 58.749 47.619 13.26 5.98 46.56 3.16
2326 7045 2.959586 CGCGTATATATGAGCGCTTG 57.040 50.000 13.26 7.35 46.56 4.01
2331 7050 4.352039 AGTGTATGCGCGTATATATGAGC 58.648 43.478 19.79 20.14 38.31 4.26
2332 7051 5.452623 GTGAGTGTATGCGCGTATATATGAG 59.547 44.000 19.79 3.76 0.00 2.90
2333 7052 5.329493 GTGAGTGTATGCGCGTATATATGA 58.671 41.667 19.79 3.29 0.00 2.15
2334 7053 4.499399 GGTGAGTGTATGCGCGTATATATG 59.501 45.833 19.79 0.00 0.00 1.78
2335 7054 4.439700 GGGTGAGTGTATGCGCGTATATAT 60.440 45.833 19.79 9.03 0.00 0.86
2336 7055 3.119743 GGGTGAGTGTATGCGCGTATATA 60.120 47.826 19.79 14.59 0.00 0.86
2337 7056 2.352421 GGGTGAGTGTATGCGCGTATAT 60.352 50.000 19.79 4.31 0.00 0.86
2338 7057 1.001048 GGGTGAGTGTATGCGCGTATA 60.001 52.381 13.13 13.13 0.00 1.47
2339 7058 0.249322 GGGTGAGTGTATGCGCGTAT 60.249 55.000 15.52 15.52 0.00 3.06
2340 7059 1.140161 GGGTGAGTGTATGCGCGTA 59.860 57.895 8.43 4.92 0.00 4.42
2341 7060 2.125673 GGGTGAGTGTATGCGCGT 60.126 61.111 8.43 7.55 0.00 6.01
2342 7061 2.890474 GGGGTGAGTGTATGCGCG 60.890 66.667 0.00 0.00 0.00 6.86
2343 7062 1.815421 CAGGGGTGAGTGTATGCGC 60.815 63.158 0.00 0.00 0.00 6.09
2344 7063 1.596934 ACAGGGGTGAGTGTATGCG 59.403 57.895 0.00 0.00 0.00 4.73
2368 7087 1.382522 GGGTAGGATGTGCATGTGTG 58.617 55.000 0.00 0.00 0.00 3.82
2369 7088 0.255890 GGGGTAGGATGTGCATGTGT 59.744 55.000 0.00 0.00 0.00 3.72
2370 7089 0.548031 AGGGGTAGGATGTGCATGTG 59.452 55.000 0.00 0.00 0.00 3.21
2371 7090 2.190398 TAGGGGTAGGATGTGCATGT 57.810 50.000 0.00 0.00 0.00 3.21
2372 7091 2.639347 TCATAGGGGTAGGATGTGCATG 59.361 50.000 0.00 0.00 0.00 4.06
2373 7092 2.990195 TCATAGGGGTAGGATGTGCAT 58.010 47.619 0.00 0.00 0.00 3.96
2374 7093 2.438021 GTTCATAGGGGTAGGATGTGCA 59.562 50.000 0.00 0.00 0.00 4.57
2375 7094 2.438021 TGTTCATAGGGGTAGGATGTGC 59.562 50.000 0.00 0.00 0.00 4.57
2376 7095 3.181454 GGTGTTCATAGGGGTAGGATGTG 60.181 52.174 0.00 0.00 0.00 3.21
2377 7096 3.046374 GGTGTTCATAGGGGTAGGATGT 58.954 50.000 0.00 0.00 0.00 3.06
2378 7097 3.318313 AGGTGTTCATAGGGGTAGGATG 58.682 50.000 0.00 0.00 0.00 3.51
2379 7098 3.726837 AGGTGTTCATAGGGGTAGGAT 57.273 47.619 0.00 0.00 0.00 3.24
2380 7099 3.381335 GAAGGTGTTCATAGGGGTAGGA 58.619 50.000 0.00 0.00 32.36 2.94
2381 7100 2.102588 CGAAGGTGTTCATAGGGGTAGG 59.897 54.545 0.00 0.00 32.36 3.18
2382 7101 3.028850 TCGAAGGTGTTCATAGGGGTAG 58.971 50.000 0.00 0.00 32.36 3.18
2383 7102 3.104519 TCGAAGGTGTTCATAGGGGTA 57.895 47.619 0.00 0.00 32.36 3.69
2384 7103 1.946984 TCGAAGGTGTTCATAGGGGT 58.053 50.000 0.00 0.00 32.36 4.95
2385 7104 3.055385 TCTTTCGAAGGTGTTCATAGGGG 60.055 47.826 7.20 0.00 32.36 4.79
2386 7105 3.933332 GTCTTTCGAAGGTGTTCATAGGG 59.067 47.826 7.20 0.00 32.36 3.53
2387 7106 4.822026 AGTCTTTCGAAGGTGTTCATAGG 58.178 43.478 7.20 0.00 32.36 2.57
2388 7107 6.035112 GCTTAGTCTTTCGAAGGTGTTCATAG 59.965 42.308 7.20 0.00 32.36 2.23
2389 7108 5.867716 GCTTAGTCTTTCGAAGGTGTTCATA 59.132 40.000 7.20 0.00 32.36 2.15
2390 7109 4.691216 GCTTAGTCTTTCGAAGGTGTTCAT 59.309 41.667 7.20 0.00 32.36 2.57
2391 7110 4.056050 GCTTAGTCTTTCGAAGGTGTTCA 58.944 43.478 7.20 0.00 32.36 3.18
2392 7111 4.150804 CAGCTTAGTCTTTCGAAGGTGTTC 59.849 45.833 7.20 0.00 45.34 3.18
2393 7112 4.058817 CAGCTTAGTCTTTCGAAGGTGTT 58.941 43.478 7.20 0.00 45.34 3.32
2394 7113 3.654414 CAGCTTAGTCTTTCGAAGGTGT 58.346 45.455 7.20 0.00 45.34 4.16
2396 7115 2.613223 GCCAGCTTAGTCTTTCGAAGGT 60.613 50.000 7.20 0.00 39.36 3.50
2397 7116 2.003301 GCCAGCTTAGTCTTTCGAAGG 58.997 52.381 0.00 0.00 31.09 3.46
2398 7117 2.688507 TGCCAGCTTAGTCTTTCGAAG 58.311 47.619 0.00 0.00 33.06 3.79
2399 7118 2.831685 TGCCAGCTTAGTCTTTCGAA 57.168 45.000 0.00 0.00 0.00 3.71
2400 7119 4.099419 TGATATGCCAGCTTAGTCTTTCGA 59.901 41.667 0.00 0.00 0.00 3.71
2401 7120 4.371786 TGATATGCCAGCTTAGTCTTTCG 58.628 43.478 0.00 0.00 0.00 3.46
2402 7121 6.229733 AGATGATATGCCAGCTTAGTCTTTC 58.770 40.000 0.00 0.00 26.57 2.62
2403 7122 6.185114 AGATGATATGCCAGCTTAGTCTTT 57.815 37.500 0.00 0.00 26.57 2.52
2404 7123 5.822132 AGATGATATGCCAGCTTAGTCTT 57.178 39.130 0.00 0.00 26.57 3.01
2405 7124 5.306419 TCAAGATGATATGCCAGCTTAGTCT 59.694 40.000 0.00 0.00 40.37 3.24
2406 7125 5.545588 TCAAGATGATATGCCAGCTTAGTC 58.454 41.667 0.00 0.00 40.37 2.59
2407 7126 5.306419 TCTCAAGATGATATGCCAGCTTAGT 59.694 40.000 0.00 0.00 40.37 2.24
2408 7127 5.791666 TCTCAAGATGATATGCCAGCTTAG 58.208 41.667 0.00 0.00 40.37 2.18
2409 7128 5.813513 TCTCAAGATGATATGCCAGCTTA 57.186 39.130 0.00 0.00 40.37 3.09
2410 7129 4.701651 TCTCAAGATGATATGCCAGCTT 57.298 40.909 0.00 0.00 42.75 3.74
2411 7130 4.912317 ATCTCAAGATGATATGCCAGCT 57.088 40.909 0.00 0.00 33.74 4.24
2412 7131 5.961396 AAATCTCAAGATGATATGCCAGC 57.039 39.130 0.00 0.00 34.49 4.85
2413 7132 7.386025 TCGTAAAATCTCAAGATGATATGCCAG 59.614 37.037 0.00 0.00 34.49 4.85
2414 7133 7.216494 TCGTAAAATCTCAAGATGATATGCCA 58.784 34.615 0.00 0.00 34.49 4.92
2415 7134 7.658179 TCGTAAAATCTCAAGATGATATGCC 57.342 36.000 0.00 0.00 34.49 4.40
2416 7135 9.591404 CTTTCGTAAAATCTCAAGATGATATGC 57.409 33.333 0.00 0.00 34.49 3.14
2419 7138 9.653287 ACACTTTCGTAAAATCTCAAGATGATA 57.347 29.630 0.00 0.00 34.49 2.15
2420 7139 8.553459 ACACTTTCGTAAAATCTCAAGATGAT 57.447 30.769 0.00 0.00 34.49 2.45
2421 7140 7.962964 ACACTTTCGTAAAATCTCAAGATGA 57.037 32.000 0.00 0.00 34.49 2.92
2422 7141 9.907576 GATACACTTTCGTAAAATCTCAAGATG 57.092 33.333 0.00 0.00 34.49 2.90
2423 7142 8.808529 CGATACACTTTCGTAAAATCTCAAGAT 58.191 33.333 0.00 0.00 32.37 2.40
2424 7143 7.201410 GCGATACACTTTCGTAAAATCTCAAGA 60.201 37.037 0.00 0.00 38.81 3.02
2425 7144 6.895040 GCGATACACTTTCGTAAAATCTCAAG 59.105 38.462 0.00 0.00 38.81 3.02
2426 7145 6.183360 GGCGATACACTTTCGTAAAATCTCAA 60.183 38.462 0.00 0.00 38.81 3.02
2427 7146 5.290158 GGCGATACACTTTCGTAAAATCTCA 59.710 40.000 0.00 0.00 38.81 3.27
2428 7147 5.553952 CGGCGATACACTTTCGTAAAATCTC 60.554 44.000 0.00 0.00 38.81 2.75
2429 7148 4.266976 CGGCGATACACTTTCGTAAAATCT 59.733 41.667 0.00 0.00 38.81 2.40
2430 7149 4.502558 CGGCGATACACTTTCGTAAAATC 58.497 43.478 0.00 0.00 38.81 2.17
2431 7150 3.307782 CCGGCGATACACTTTCGTAAAAT 59.692 43.478 9.30 0.00 38.81 1.82
2432 7151 2.667481 CCGGCGATACACTTTCGTAAAA 59.333 45.455 9.30 0.00 38.81 1.52
2433 7152 2.094803 TCCGGCGATACACTTTCGTAAA 60.095 45.455 9.30 0.00 38.81 2.01
2434 7153 1.472082 TCCGGCGATACACTTTCGTAA 59.528 47.619 9.30 0.00 38.81 3.18
2435 7154 1.093972 TCCGGCGATACACTTTCGTA 58.906 50.000 9.30 0.00 38.81 3.43
2436 7155 0.244450 TTCCGGCGATACACTTTCGT 59.756 50.000 9.30 0.00 38.81 3.85
2437 7156 1.352114 TTTCCGGCGATACACTTTCG 58.648 50.000 9.30 0.00 39.55 3.46
2438 7157 2.287103 GGATTTCCGGCGATACACTTTC 59.713 50.000 9.30 0.00 0.00 2.62
2439 7158 2.093128 AGGATTTCCGGCGATACACTTT 60.093 45.455 9.30 0.00 42.08 2.66
2440 7159 1.485066 AGGATTTCCGGCGATACACTT 59.515 47.619 9.30 0.00 42.08 3.16
2441 7160 1.120530 AGGATTTCCGGCGATACACT 58.879 50.000 9.30 0.00 42.08 3.55
2442 7161 1.202486 TCAGGATTTCCGGCGATACAC 60.202 52.381 9.30 0.00 42.08 2.90
2443 7162 1.116308 TCAGGATTTCCGGCGATACA 58.884 50.000 9.30 0.00 42.08 2.29
2444 7163 2.234300 TTCAGGATTTCCGGCGATAC 57.766 50.000 9.30 0.00 42.08 2.24
2445 7164 2.992124 TTTCAGGATTTCCGGCGATA 57.008 45.000 9.30 0.00 42.08 2.92
2446 7165 2.348411 ATTTCAGGATTTCCGGCGAT 57.652 45.000 9.30 0.00 42.08 4.58
2447 7166 2.992124 TATTTCAGGATTTCCGGCGA 57.008 45.000 9.30 0.00 42.08 5.54
2448 7167 4.537015 GATTTATTTCAGGATTTCCGGCG 58.463 43.478 0.00 0.00 42.08 6.46
2449 7168 4.340950 TGGATTTATTTCAGGATTTCCGGC 59.659 41.667 0.00 0.00 42.08 6.13
2450 7169 6.076981 CTGGATTTATTTCAGGATTTCCGG 57.923 41.667 0.00 0.00 42.08 5.14
2458 7177 7.040478 TCGCATTTATCCTGGATTTATTTCAGG 60.040 37.037 15.55 0.00 46.91 3.86
2459 7178 7.874940 TCGCATTTATCCTGGATTTATTTCAG 58.125 34.615 15.55 1.04 0.00 3.02
2460 7179 7.522073 GCTCGCATTTATCCTGGATTTATTTCA 60.522 37.037 15.55 0.00 0.00 2.69
2461 7180 6.803807 GCTCGCATTTATCCTGGATTTATTTC 59.196 38.462 15.55 0.09 0.00 2.17
2462 7181 6.265196 TGCTCGCATTTATCCTGGATTTATTT 59.735 34.615 15.55 0.00 0.00 1.40
2463 7182 5.769662 TGCTCGCATTTATCCTGGATTTATT 59.230 36.000 15.55 0.00 0.00 1.40
2464 7183 5.182001 GTGCTCGCATTTATCCTGGATTTAT 59.818 40.000 15.55 5.99 0.00 1.40
2465 7184 4.515191 GTGCTCGCATTTATCCTGGATTTA 59.485 41.667 15.55 3.70 0.00 1.40
2466 7185 3.316308 GTGCTCGCATTTATCCTGGATTT 59.684 43.478 15.55 0.00 0.00 2.17
2467 7186 2.880890 GTGCTCGCATTTATCCTGGATT 59.119 45.455 15.55 0.00 0.00 3.01
2468 7187 2.498167 GTGCTCGCATTTATCCTGGAT 58.502 47.619 14.66 14.66 0.00 3.41
2469 7188 1.475034 GGTGCTCGCATTTATCCTGGA 60.475 52.381 0.00 0.00 0.00 3.86
2470 7189 0.947244 GGTGCTCGCATTTATCCTGG 59.053 55.000 0.00 0.00 0.00 4.45
2471 7190 1.667236 TGGTGCTCGCATTTATCCTG 58.333 50.000 0.00 0.00 0.00 3.86
2472 7191 2.092968 TCTTGGTGCTCGCATTTATCCT 60.093 45.455 0.00 0.00 0.00 3.24
2473 7192 2.032178 GTCTTGGTGCTCGCATTTATCC 59.968 50.000 0.00 0.00 0.00 2.59
2474 7193 2.939103 AGTCTTGGTGCTCGCATTTATC 59.061 45.455 0.00 0.00 0.00 1.75
2475 7194 2.991250 AGTCTTGGTGCTCGCATTTAT 58.009 42.857 0.00 0.00 0.00 1.40
2476 7195 2.472695 AGTCTTGGTGCTCGCATTTA 57.527 45.000 0.00 0.00 0.00 1.40
2477 7196 1.267806 CAAGTCTTGGTGCTCGCATTT 59.732 47.619 4.52 0.00 0.00 2.32
2478 7197 0.877071 CAAGTCTTGGTGCTCGCATT 59.123 50.000 4.52 0.00 0.00 3.56
2479 7198 0.035317 TCAAGTCTTGGTGCTCGCAT 59.965 50.000 12.66 0.00 0.00 4.73
2480 7199 0.179059 TTCAAGTCTTGGTGCTCGCA 60.179 50.000 12.66 0.00 0.00 5.10
2481 7200 0.235926 GTTCAAGTCTTGGTGCTCGC 59.764 55.000 12.66 0.00 0.00 5.03
2482 7201 0.868406 GGTTCAAGTCTTGGTGCTCG 59.132 55.000 12.66 0.00 0.00 5.03
2483 7202 1.202818 AGGGTTCAAGTCTTGGTGCTC 60.203 52.381 12.66 3.68 0.00 4.26
2484 7203 0.846693 AGGGTTCAAGTCTTGGTGCT 59.153 50.000 12.66 0.00 0.00 4.40
2485 7204 0.954452 CAGGGTTCAAGTCTTGGTGC 59.046 55.000 12.66 3.57 0.00 5.01
2486 7205 1.133792 ACCAGGGTTCAAGTCTTGGTG 60.134 52.381 12.66 3.50 0.00 4.17
2487 7206 1.133792 CACCAGGGTTCAAGTCTTGGT 60.134 52.381 12.66 0.00 0.00 3.67
2488 7207 1.609208 CACCAGGGTTCAAGTCTTGG 58.391 55.000 12.66 0.00 0.00 3.61
2489 7208 1.609208 CCACCAGGGTTCAAGTCTTG 58.391 55.000 6.21 6.21 0.00 3.02
2501 7220 1.700042 GGTATCCTCAGCCCACCAGG 61.700 65.000 0.00 0.00 39.47 4.45
2502 7221 0.982852 TGGTATCCTCAGCCCACCAG 60.983 60.000 0.00 0.00 34.40 4.00
2503 7222 1.082019 TGGTATCCTCAGCCCACCA 59.918 57.895 0.00 0.00 36.94 4.17
2504 7223 0.983378 AGTGGTATCCTCAGCCCACC 60.983 60.000 4.15 0.00 46.84 4.61
2505 7224 0.179000 CAGTGGTATCCTCAGCCCAC 59.821 60.000 0.00 0.00 46.17 4.61
2506 7225 0.252696 ACAGTGGTATCCTCAGCCCA 60.253 55.000 0.00 0.00 0.00 5.36
2507 7226 0.466124 GACAGTGGTATCCTCAGCCC 59.534 60.000 0.00 0.00 0.00 5.19
2508 7227 0.466124 GGACAGTGGTATCCTCAGCC 59.534 60.000 0.00 0.00 31.75 4.85
2509 7228 1.134670 GTGGACAGTGGTATCCTCAGC 60.135 57.143 0.00 0.00 35.86 4.26
2510 7229 1.482593 GGTGGACAGTGGTATCCTCAG 59.517 57.143 0.00 0.00 35.86 3.35
2511 7230 1.078823 AGGTGGACAGTGGTATCCTCA 59.921 52.381 0.00 0.00 35.86 3.86
2512 7231 1.867363 AGGTGGACAGTGGTATCCTC 58.133 55.000 0.00 0.00 35.86 3.71
2513 7232 3.105283 GTTAGGTGGACAGTGGTATCCT 58.895 50.000 0.00 0.00 35.86 3.24
2514 7233 2.169978 GGTTAGGTGGACAGTGGTATCC 59.830 54.545 0.00 0.00 35.37 2.59
2515 7234 2.835764 TGGTTAGGTGGACAGTGGTATC 59.164 50.000 0.00 0.00 0.00 2.24
2516 7235 2.910544 TGGTTAGGTGGACAGTGGTAT 58.089 47.619 0.00 0.00 0.00 2.73
2517 7236 2.402182 TGGTTAGGTGGACAGTGGTA 57.598 50.000 0.00 0.00 0.00 3.25
2518 7237 1.628846 GATGGTTAGGTGGACAGTGGT 59.371 52.381 0.00 0.00 0.00 4.16
2519 7238 1.628340 TGATGGTTAGGTGGACAGTGG 59.372 52.381 0.00 0.00 0.00 4.00
2520 7239 3.417069 TTGATGGTTAGGTGGACAGTG 57.583 47.619 0.00 0.00 0.00 3.66
2521 7240 3.394606 AGTTTGATGGTTAGGTGGACAGT 59.605 43.478 0.00 0.00 0.00 3.55
2522 7241 4.021102 AGTTTGATGGTTAGGTGGACAG 57.979 45.455 0.00 0.00 0.00 3.51
2523 7242 4.348461 TGTAGTTTGATGGTTAGGTGGACA 59.652 41.667 0.00 0.00 0.00 4.02
2524 7243 4.901868 TGTAGTTTGATGGTTAGGTGGAC 58.098 43.478 0.00 0.00 0.00 4.02
2525 7244 4.841813 TCTGTAGTTTGATGGTTAGGTGGA 59.158 41.667 0.00 0.00 0.00 4.02
2526 7245 5.160607 TCTGTAGTTTGATGGTTAGGTGG 57.839 43.478 0.00 0.00 0.00 4.61
2527 7246 6.094048 CCAATCTGTAGTTTGATGGTTAGGTG 59.906 42.308 4.65 0.00 0.00 4.00
2528 7247 6.180472 CCAATCTGTAGTTTGATGGTTAGGT 58.820 40.000 4.65 0.00 0.00 3.08
2529 7248 6.180472 ACCAATCTGTAGTTTGATGGTTAGG 58.820 40.000 4.65 0.00 0.00 2.69
2530 7249 7.413000 CGAACCAATCTGTAGTTTGATGGTTAG 60.413 40.741 7.22 4.22 35.89 2.34
2531 7250 6.370442 CGAACCAATCTGTAGTTTGATGGTTA 59.630 38.462 7.22 0.00 35.89 2.85
2532 7251 5.181245 CGAACCAATCTGTAGTTTGATGGTT 59.819 40.000 6.97 6.97 37.09 3.67
2533 7252 4.695455 CGAACCAATCTGTAGTTTGATGGT 59.305 41.667 4.65 0.00 0.00 3.55
2534 7253 4.437390 GCGAACCAATCTGTAGTTTGATGG 60.437 45.833 4.65 0.00 0.00 3.51
2535 7254 4.154015 TGCGAACCAATCTGTAGTTTGATG 59.846 41.667 4.65 0.00 0.00 3.07
2536 7255 4.323417 TGCGAACCAATCTGTAGTTTGAT 58.677 39.130 4.65 0.00 0.00 2.57
2537 7256 3.734463 TGCGAACCAATCTGTAGTTTGA 58.266 40.909 4.65 0.00 0.00 2.69
2538 7257 3.498397 ACTGCGAACCAATCTGTAGTTTG 59.502 43.478 0.00 0.00 28.88 2.93
2539 7258 3.740115 ACTGCGAACCAATCTGTAGTTT 58.260 40.909 0.00 0.00 28.88 2.66
2540 7259 3.402628 ACTGCGAACCAATCTGTAGTT 57.597 42.857 0.00 0.00 28.88 2.24
2541 7260 3.676324 GCTACTGCGAACCAATCTGTAGT 60.676 47.826 0.00 0.00 34.21 2.73
2542 7261 2.860735 GCTACTGCGAACCAATCTGTAG 59.139 50.000 0.00 0.00 32.30 2.74
2543 7262 2.232696 TGCTACTGCGAACCAATCTGTA 59.767 45.455 0.00 0.00 43.34 2.74
2544 7263 1.001974 TGCTACTGCGAACCAATCTGT 59.998 47.619 0.00 0.00 43.34 3.41
2545 7264 1.725641 TGCTACTGCGAACCAATCTG 58.274 50.000 0.00 0.00 43.34 2.90
2546 7265 2.283298 CATGCTACTGCGAACCAATCT 58.717 47.619 0.00 0.00 43.34 2.40
2547 7266 1.268234 GCATGCTACTGCGAACCAATC 60.268 52.381 11.37 0.00 43.34 2.67
2548 7267 0.734889 GCATGCTACTGCGAACCAAT 59.265 50.000 11.37 0.00 43.34 3.16
2549 7268 0.321564 AGCATGCTACTGCGAACCAA 60.322 50.000 21.21 0.00 46.86 3.67
2550 7269 0.321564 AAGCATGCTACTGCGAACCA 60.322 50.000 23.00 0.00 46.86 3.67
2551 7270 0.375106 GAAGCATGCTACTGCGAACC 59.625 55.000 23.00 0.00 46.86 3.62
2552 7271 1.363744 AGAAGCATGCTACTGCGAAC 58.636 50.000 23.00 5.44 46.86 3.95
2553 7272 2.959507 TAGAAGCATGCTACTGCGAA 57.040 45.000 23.00 0.00 46.86 4.70
2554 7273 3.459232 AATAGAAGCATGCTACTGCGA 57.541 42.857 23.00 7.77 46.86 5.10
2555 7274 4.542662 AAAATAGAAGCATGCTACTGCG 57.457 40.909 23.00 0.00 46.86 5.18
2556 7275 5.855395 GCATAAAATAGAAGCATGCTACTGC 59.145 40.000 23.00 14.40 42.62 4.40
2625 7344 2.969628 AGGTTCTCGTATCTGGCAAG 57.030 50.000 0.00 0.00 0.00 4.01
2626 7345 6.665992 ATATTAGGTTCTCGTATCTGGCAA 57.334 37.500 0.00 0.00 0.00 4.52
2627 7346 6.665992 AATATTAGGTTCTCGTATCTGGCA 57.334 37.500 0.00 0.00 0.00 4.92
2628 7347 9.485206 TTTTAATATTAGGTTCTCGTATCTGGC 57.515 33.333 0.00 0.00 0.00 4.85
2635 7354 9.614792 ATTCTGCTTTTAATATTAGGTTCTCGT 57.385 29.630 0.00 0.00 0.00 4.18
2677 7396 1.417517 AGTGCACACAGATTCTGGACA 59.582 47.619 21.04 7.24 35.51 4.02


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

AutoCloner maintained by Alex Coulton.