Multiple sequence alignment - TraesCS7D01G373900

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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 TraesCS7D01G373900 chr7D 100.000 2270 0 0 1 2270 484412508 484410239 0.000000e+00 4193
1 TraesCS7D01G373900 chr7D 91.362 683 29 13 1617 2270 108364922 108365603 0.000000e+00 907
2 TraesCS7D01G373900 chr7D 91.108 686 25 5 1613 2270 586502282 586502959 0.000000e+00 896
3 TraesCS7D01G373900 chr7D 90.922 683 32 13 1617 2270 108343253 108343934 0.000000e+00 891
4 TraesCS7D01G373900 chr7D 90.308 681 37 8 1617 2270 591021978 591021300 0.000000e+00 865
5 TraesCS7D01G373900 chr3D 92.508 614 32 9 677 1281 104814288 104814896 0.000000e+00 867
6 TraesCS7D01G373900 chr3D 93.640 456 20 5 1823 2270 461332209 461331755 0.000000e+00 673
7 TraesCS7D01G373900 chr3D 85.191 655 74 15 1633 2270 522392642 522391994 0.000000e+00 651
8 TraesCS7D01G373900 chr3D 89.216 306 17 2 330 622 104813967 104814269 3.560000e-98 368
9 TraesCS7D01G373900 chr3D 96.000 150 6 0 1 150 104812541 104812690 6.260000e-61 244
10 TraesCS7D01G373900 chr3D 83.142 261 30 11 841 1092 118422582 118422327 2.270000e-55 226
11 TraesCS7D01G373900 chr3D 78.689 366 50 18 497 843 118425129 118424773 3.800000e-53 219
12 TraesCS7D01G373900 chr3D 80.822 219 30 9 248 456 118425476 118425260 6.490000e-36 161
13 TraesCS7D01G373900 chr3D 95.833 96 2 2 151 246 104812730 104812823 1.090000e-33 154
14 TraesCS7D01G373900 chr3D 96.610 59 2 0 242 300 104813917 104813975 5.160000e-17 99
15 TraesCS7D01G373900 chr7B 91.446 643 31 15 702 1334 511298599 511297971 0.000000e+00 861
16 TraesCS7D01G373900 chr7B 93.333 360 14 6 304 658 511298951 511298597 7.180000e-145 523
17 TraesCS7D01G373900 chr7B 97.468 158 4 0 151 308 511299264 511299107 1.030000e-68 270
18 TraesCS7D01G373900 chr7B 97.297 148 3 1 4 150 511299451 511299304 1.350000e-62 250
19 TraesCS7D01G373900 chr3A 89.620 684 40 6 1617 2270 629177114 629176432 0.000000e+00 841
20 TraesCS7D01G373900 chr3A 90.231 563 22 5 369 910 550633697 550633147 0.000000e+00 704
21 TraesCS7D01G373900 chr3A 95.082 366 11 3 945 1306 550633069 550632707 9.100000e-159 569
22 TraesCS7D01G373900 chr3A 93.989 183 8 2 151 332 550633875 550633695 7.990000e-70 274
23 TraesCS7D01G373900 chr3A 98.000 150 3 0 1 150 550634064 550633915 6.220000e-66 261
24 TraesCS7D01G373900 chr2A 89.197 685 42 13 1617 2270 642578522 642579205 0.000000e+00 826
25 TraesCS7D01G373900 chr2A 82.591 247 35 4 1335 1579 667936964 667936724 6.350000e-51 211
26 TraesCS7D01G373900 chr6A 88.905 685 45 5 1617 2270 29596145 29595461 0.000000e+00 815
27 TraesCS7D01G373900 chr7A 88.873 683 44 14 1617 2269 136174524 136175204 0.000000e+00 811
28 TraesCS7D01G373900 chr1A 88.067 595 38 14 1604 2165 404481435 404480841 0.000000e+00 675
29 TraesCS7D01G373900 chr1A 81.633 245 37 4 1337 1579 392478288 392478050 1.780000e-46 196
30 TraesCS7D01G373900 chr2D 83.485 660 90 13 1617 2267 32191499 32192148 4.170000e-167 597
31 TraesCS7D01G373900 chr2D 84.021 194 27 2 1335 1524 139443252 139443445 1.380000e-42 183
32 TraesCS7D01G373900 chr6D 91.144 271 23 1 1335 1605 306594013 306594282 1.280000e-97 366
33 TraesCS7D01G373900 chr4D 86.029 272 29 6 1335 1605 122248361 122248624 1.330000e-72 283
34 TraesCS7D01G373900 chr3B 85.294 272 33 4 1335 1605 755076745 755076480 7.990000e-70 274
35 TraesCS7D01G373900 chr3B 83.969 262 26 12 841 1092 164566811 164567066 1.050000e-58 237
36 TraesCS7D01G373900 chr3B 81.369 263 33 10 1335 1592 34615808 34615557 1.380000e-47 200
37 TraesCS7D01G373900 chr3B 80.676 207 30 7 247 443 164536980 164537186 3.910000e-33 152
38 TraesCS7D01G373900 chr2B 84.783 276 32 7 1331 1605 384095710 384095976 3.720000e-68 268
39 TraesCS7D01G373900 chrUn 80.989 263 34 10 1335 1592 38545837 38545586 6.400000e-46 195


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 TraesCS7D01G373900 chr7D 484410239 484412508 2269 True 4193.0 4193 100.000000 1 2270 1 chr7D.!!$R1 2269
1 TraesCS7D01G373900 chr7D 108364922 108365603 681 False 907.0 907 91.362000 1617 2270 1 chr7D.!!$F2 653
2 TraesCS7D01G373900 chr7D 586502282 586502959 677 False 896.0 896 91.108000 1613 2270 1 chr7D.!!$F3 657
3 TraesCS7D01G373900 chr7D 108343253 108343934 681 False 891.0 891 90.922000 1617 2270 1 chr7D.!!$F1 653
4 TraesCS7D01G373900 chr7D 591021300 591021978 678 True 865.0 865 90.308000 1617 2270 1 chr7D.!!$R2 653
5 TraesCS7D01G373900 chr3D 522391994 522392642 648 True 651.0 651 85.191000 1633 2270 1 chr3D.!!$R2 637
6 TraesCS7D01G373900 chr3D 104812541 104814896 2355 False 346.4 867 94.033400 1 1281 5 chr3D.!!$F1 1280
7 TraesCS7D01G373900 chr3D 118422327 118425476 3149 True 202.0 226 80.884333 248 1092 3 chr3D.!!$R3 844
8 TraesCS7D01G373900 chr7B 511297971 511299451 1480 True 476.0 861 94.886000 4 1334 4 chr7B.!!$R1 1330
9 TraesCS7D01G373900 chr3A 629176432 629177114 682 True 841.0 841 89.620000 1617 2270 1 chr3A.!!$R1 653
10 TraesCS7D01G373900 chr3A 550632707 550634064 1357 True 452.0 704 94.325500 1 1306 4 chr3A.!!$R2 1305
11 TraesCS7D01G373900 chr2A 642578522 642579205 683 False 826.0 826 89.197000 1617 2270 1 chr2A.!!$F1 653
12 TraesCS7D01G373900 chr6A 29595461 29596145 684 True 815.0 815 88.905000 1617 2270 1 chr6A.!!$R1 653
13 TraesCS7D01G373900 chr7A 136174524 136175204 680 False 811.0 811 88.873000 1617 2269 1 chr7A.!!$F1 652
14 TraesCS7D01G373900 chr1A 404480841 404481435 594 True 675.0 675 88.067000 1604 2165 1 chr1A.!!$R2 561
15 TraesCS7D01G373900 chr2D 32191499 32192148 649 False 597.0 597 83.485000 1617 2267 1 chr2D.!!$F1 650

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
495 1842 0.249868 TGCGTCTGTTTGGGTGAGAG 60.25 55.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1499 5189 0.036875 CCCTCCCCTTTGTCACTGAC 59.963 60.0 1.86 1.86 0.0 3.51 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
280 1421 6.659242 GGAGTAGAGAGAATAGGGAGAAGATG 59.341 46.154 0.00 0.00 0.00 2.90
495 1842 0.249868 TGCGTCTGTTTGGGTGAGAG 60.250 55.000 0.00 0.00 0.00 3.20
539 1951 4.162320 TGTGCTAGGAGTTAAGATGGGAAG 59.838 45.833 0.00 0.00 0.00 3.46
617 2052 5.393352 GCACTTTCATGCCAACTATCATCAA 60.393 40.000 0.00 0.00 39.86 2.57
627 2062 5.643664 CCAACTATCATCAACAATGTGGTG 58.356 41.667 0.00 0.00 36.12 4.17
628 2063 5.183713 CCAACTATCATCAACAATGTGGTGT 59.816 40.000 0.00 0.00 36.24 4.16
695 2135 7.378194 CACTCTAACTCTATCATCATGACGTTG 59.622 40.741 0.00 0.00 0.00 4.10
910 4543 4.521256 TGGACCAAAAATACAAGCAGGTAC 59.479 41.667 0.00 0.00 0.00 3.34
911 4544 4.765339 GGACCAAAAATACAAGCAGGTACT 59.235 41.667 0.00 0.00 43.88 2.73
928 4574 3.057596 GGTACTGCTGCAATGCTAACAAA 60.058 43.478 6.82 0.00 0.00 2.83
929 4575 3.731652 ACTGCTGCAATGCTAACAAAA 57.268 38.095 6.82 0.00 0.00 2.44
930 4576 4.261578 ACTGCTGCAATGCTAACAAAAT 57.738 36.364 6.82 0.00 0.00 1.82
931 4577 4.240096 ACTGCTGCAATGCTAACAAAATC 58.760 39.130 6.82 0.00 0.00 2.17
932 4578 3.244156 TGCTGCAATGCTAACAAAATCG 58.756 40.909 6.82 0.00 0.00 3.34
933 4579 3.244976 GCTGCAATGCTAACAAAATCGT 58.755 40.909 6.82 0.00 0.00 3.73
934 4580 3.059834 GCTGCAATGCTAACAAAATCGTG 59.940 43.478 6.82 0.00 0.00 4.35
945 4591 3.914312 ACAAAATCGTGACTCGTGAGAT 58.086 40.909 3.44 0.00 40.84 2.75
949 4595 2.832672 TCGTGACTCGTGAGATCATG 57.167 50.000 3.44 9.00 40.84 3.07
1334 5024 6.258727 AGCTTTAAGTGGATGTGTGATTATCG 59.741 38.462 0.00 0.00 0.00 2.92
1335 5025 6.257849 GCTTTAAGTGGATGTGTGATTATCGA 59.742 38.462 0.00 0.00 0.00 3.59
1336 5026 7.517417 GCTTTAAGTGGATGTGTGATTATCGAG 60.517 40.741 0.00 0.00 0.00 4.04
1337 5027 5.344743 AAGTGGATGTGTGATTATCGAGT 57.655 39.130 0.00 0.00 0.00 4.18
1338 5028 4.938080 AGTGGATGTGTGATTATCGAGTC 58.062 43.478 0.00 0.00 0.00 3.36
1339 5029 4.402474 AGTGGATGTGTGATTATCGAGTCA 59.598 41.667 0.00 0.00 0.00 3.41
1340 5030 5.105351 AGTGGATGTGTGATTATCGAGTCAA 60.105 40.000 0.00 0.00 0.00 3.18
1341 5031 5.755375 GTGGATGTGTGATTATCGAGTCAAT 59.245 40.000 0.00 0.00 0.00 2.57
1342 5032 6.258727 GTGGATGTGTGATTATCGAGTCAATT 59.741 38.462 0.00 0.00 0.00 2.32
1343 5033 7.438160 GTGGATGTGTGATTATCGAGTCAATTA 59.562 37.037 0.00 0.00 0.00 1.40
1344 5034 7.438160 TGGATGTGTGATTATCGAGTCAATTAC 59.562 37.037 0.00 0.00 0.00 1.89
1345 5035 7.438160 GGATGTGTGATTATCGAGTCAATTACA 59.562 37.037 9.36 9.36 30.78 2.41
1346 5036 7.520119 TGTGTGATTATCGAGTCAATTACAC 57.480 36.000 23.71 23.71 45.06 2.90
1347 5037 6.533723 TGTGTGATTATCGAGTCAATTACACC 59.466 38.462 25.49 16.23 44.61 4.16
1348 5038 6.533723 GTGTGATTATCGAGTCAATTACACCA 59.466 38.462 21.82 6.32 41.85 4.17
1349 5039 6.756542 TGTGATTATCGAGTCAATTACACCAG 59.243 38.462 9.36 0.00 28.96 4.00
1350 5040 6.757010 GTGATTATCGAGTCAATTACACCAGT 59.243 38.462 0.00 0.00 0.00 4.00
1351 5041 6.756542 TGATTATCGAGTCAATTACACCAGTG 59.243 38.462 0.00 0.00 0.00 3.66
1352 5042 3.313012 TCGAGTCAATTACACCAGTGG 57.687 47.619 7.91 7.91 34.19 4.00
1353 5043 2.631062 TCGAGTCAATTACACCAGTGGT 59.369 45.455 9.70 9.70 35.62 4.16
1364 5054 2.550830 ACCAGTGGTGCTAGAACTTG 57.449 50.000 15.86 0.00 32.98 3.16
1365 5055 1.072331 ACCAGTGGTGCTAGAACTTGG 59.928 52.381 15.86 14.39 32.98 3.61
1366 5056 1.160137 CAGTGGTGCTAGAACTTGGC 58.840 55.000 0.00 0.00 0.00 4.52
1367 5057 0.764890 AGTGGTGCTAGAACTTGGCA 59.235 50.000 0.00 0.00 0.00 4.92
1384 5074 3.489355 TGGCACAAATGATCACTTCAGT 58.511 40.909 0.00 0.00 33.76 3.41
1385 5075 3.253921 TGGCACAAATGATCACTTCAGTG 59.746 43.478 0.00 0.00 41.23 3.66
1386 5076 3.240069 GCACAAATGATCACTTCAGTGC 58.760 45.455 14.13 14.13 42.89 4.40
1387 5077 3.057736 GCACAAATGATCACTTCAGTGCT 60.058 43.478 19.32 0.00 44.51 4.40
1388 5078 4.154737 GCACAAATGATCACTTCAGTGCTA 59.845 41.667 19.32 0.00 44.51 3.49
1389 5079 5.673068 GCACAAATGATCACTTCAGTGCTAG 60.673 44.000 19.32 0.00 44.51 3.42
1390 5080 5.640783 CACAAATGATCACTTCAGTGCTAGA 59.359 40.000 0.00 0.00 45.25 2.43
1391 5081 6.148315 CACAAATGATCACTTCAGTGCTAGAA 59.852 38.462 0.00 0.00 45.25 2.10
1392 5082 6.148480 ACAAATGATCACTTCAGTGCTAGAAC 59.852 38.462 0.00 0.00 45.25 3.01
1393 5083 5.674052 ATGATCACTTCAGTGCTAGAACT 57.326 39.130 0.00 0.00 45.25 3.01
1394 5084 5.474578 TGATCACTTCAGTGCTAGAACTT 57.525 39.130 0.00 0.00 45.25 2.66
1395 5085 5.233225 TGATCACTTCAGTGCTAGAACTTG 58.767 41.667 0.00 0.00 45.25 3.16
1396 5086 4.672587 TCACTTCAGTGCTAGAACTTGT 57.327 40.909 0.00 0.00 45.25 3.16
1397 5087 4.371786 TCACTTCAGTGCTAGAACTTGTG 58.628 43.478 16.63 16.63 45.25 3.33
1398 5088 3.496130 CACTTCAGTGCTAGAACTTGTGG 59.504 47.826 15.60 1.28 39.39 4.17
1399 5089 3.134804 ACTTCAGTGCTAGAACTTGTGGT 59.865 43.478 0.00 0.00 0.00 4.16
1400 5090 4.344102 ACTTCAGTGCTAGAACTTGTGGTA 59.656 41.667 0.00 0.00 0.00 3.25
1401 5091 5.012148 ACTTCAGTGCTAGAACTTGTGGTAT 59.988 40.000 0.00 0.00 0.00 2.73
1402 5092 6.210784 ACTTCAGTGCTAGAACTTGTGGTATA 59.789 38.462 0.00 0.00 0.00 1.47
1403 5093 5.962433 TCAGTGCTAGAACTTGTGGTATAC 58.038 41.667 0.00 0.00 0.00 1.47
1404 5094 5.479027 TCAGTGCTAGAACTTGTGGTATACA 59.521 40.000 0.00 0.00 37.56 2.29
1405 5095 6.154534 TCAGTGCTAGAACTTGTGGTATACAT 59.845 38.462 0.00 0.00 39.48 2.29
1406 5096 7.340999 TCAGTGCTAGAACTTGTGGTATACATA 59.659 37.037 0.00 0.00 39.48 2.29
1407 5097 8.144478 CAGTGCTAGAACTTGTGGTATACATAT 58.856 37.037 0.00 0.00 39.48 1.78
1408 5098 9.363401 AGTGCTAGAACTTGTGGTATACATATA 57.637 33.333 0.00 0.00 39.48 0.86
1409 5099 9.976511 GTGCTAGAACTTGTGGTATACATATAA 57.023 33.333 5.01 0.00 39.48 0.98
1414 5104 8.989131 AGAACTTGTGGTATACATATAAGTGGT 58.011 33.333 16.56 7.24 39.48 4.16
1415 5105 9.609346 GAACTTGTGGTATACATATAAGTGGTT 57.391 33.333 16.56 6.75 39.48 3.67
1416 5106 9.609346 AACTTGTGGTATACATATAAGTGGTTC 57.391 33.333 16.56 0.00 39.48 3.62
1417 5107 8.764558 ACTTGTGGTATACATATAAGTGGTTCA 58.235 33.333 15.68 0.00 39.48 3.18
1418 5108 9.607988 CTTGTGGTATACATATAAGTGGTTCAA 57.392 33.333 5.01 0.00 39.48 2.69
1419 5109 9.961264 TTGTGGTATACATATAAGTGGTTCAAA 57.039 29.630 5.01 0.00 39.48 2.69
1420 5110 9.961264 TGTGGTATACATATAAGTGGTTCAAAA 57.039 29.630 5.01 0.00 33.42 2.44
1427 5117 7.151976 ACATATAAGTGGTTCAAAAACTTGGC 58.848 34.615 0.00 0.00 35.77 4.52
1428 5118 5.869649 ATAAGTGGTTCAAAAACTTGGCT 57.130 34.783 0.00 0.00 35.77 4.75
1429 5119 4.551702 AAGTGGTTCAAAAACTTGGCTT 57.448 36.364 0.00 0.00 35.61 4.35
1430 5120 3.860641 AGTGGTTCAAAAACTTGGCTTG 58.139 40.909 0.00 0.00 35.61 4.01
1431 5121 3.513515 AGTGGTTCAAAAACTTGGCTTGA 59.486 39.130 0.00 0.00 35.61 3.02
1432 5122 4.162131 AGTGGTTCAAAAACTTGGCTTGAT 59.838 37.500 0.00 0.00 35.61 2.57
1433 5123 4.270808 GTGGTTCAAAAACTTGGCTTGATG 59.729 41.667 0.00 0.00 35.61 3.07
1434 5124 3.809279 GGTTCAAAAACTTGGCTTGATGG 59.191 43.478 0.00 0.00 35.61 3.51
1435 5125 4.441792 GTTCAAAAACTTGGCTTGATGGT 58.558 39.130 0.00 0.00 32.36 3.55
1436 5126 4.057406 TCAAAAACTTGGCTTGATGGTG 57.943 40.909 0.00 0.00 0.00 4.17
1437 5127 3.450457 TCAAAAACTTGGCTTGATGGTGT 59.550 39.130 0.00 0.00 0.00 4.16
1438 5128 4.646945 TCAAAAACTTGGCTTGATGGTGTA 59.353 37.500 0.00 0.00 0.00 2.90
1439 5129 5.127845 TCAAAAACTTGGCTTGATGGTGTAA 59.872 36.000 0.00 0.00 0.00 2.41
1440 5130 5.606348 AAAACTTGGCTTGATGGTGTAAA 57.394 34.783 0.00 0.00 0.00 2.01
1441 5131 5.806654 AAACTTGGCTTGATGGTGTAAAT 57.193 34.783 0.00 0.00 0.00 1.40
1442 5132 6.909550 AAACTTGGCTTGATGGTGTAAATA 57.090 33.333 0.00 0.00 0.00 1.40
1443 5133 7.480760 AAACTTGGCTTGATGGTGTAAATAT 57.519 32.000 0.00 0.00 0.00 1.28
1444 5134 6.455360 ACTTGGCTTGATGGTGTAAATATG 57.545 37.500 0.00 0.00 0.00 1.78
1445 5135 5.360714 ACTTGGCTTGATGGTGTAAATATGG 59.639 40.000 0.00 0.00 0.00 2.74
1446 5136 4.865905 TGGCTTGATGGTGTAAATATGGT 58.134 39.130 0.00 0.00 0.00 3.55
1447 5137 4.644234 TGGCTTGATGGTGTAAATATGGTG 59.356 41.667 0.00 0.00 0.00 4.17
1448 5138 4.499696 GGCTTGATGGTGTAAATATGGTGC 60.500 45.833 0.00 0.00 0.00 5.01
1449 5139 4.339247 GCTTGATGGTGTAAATATGGTGCT 59.661 41.667 0.00 0.00 0.00 4.40
1450 5140 5.734220 GCTTGATGGTGTAAATATGGTGCTG 60.734 44.000 0.00 0.00 0.00 4.41
1451 5141 3.631686 TGATGGTGTAAATATGGTGCTGC 59.368 43.478 0.00 0.00 0.00 5.25
1452 5142 3.078891 TGGTGTAAATATGGTGCTGCA 57.921 42.857 0.00 0.00 0.00 4.41
1453 5143 3.630168 TGGTGTAAATATGGTGCTGCAT 58.370 40.909 5.27 0.00 0.00 3.96
1454 5144 4.786425 TGGTGTAAATATGGTGCTGCATA 58.214 39.130 5.27 0.00 0.00 3.14
1455 5145 4.578516 TGGTGTAAATATGGTGCTGCATAC 59.421 41.667 5.27 2.91 0.00 2.39
1456 5146 4.319477 GGTGTAAATATGGTGCTGCATACG 60.319 45.833 5.27 0.00 0.00 3.06
1457 5147 3.249799 TGTAAATATGGTGCTGCATACGC 59.750 43.478 5.27 0.00 39.24 4.42
1458 5148 1.238439 AATATGGTGCTGCATACGCC 58.762 50.000 5.27 11.54 37.32 5.68
1459 5149 0.397941 ATATGGTGCTGCATACGCCT 59.602 50.000 17.50 8.20 38.55 5.52
1460 5150 0.532640 TATGGTGCTGCATACGCCTG 60.533 55.000 17.50 0.00 38.55 4.85
1461 5151 3.880846 GGTGCTGCATACGCCTGC 61.881 66.667 5.27 3.00 42.62 4.85
1462 5152 4.228097 GTGCTGCATACGCCTGCG 62.228 66.667 5.27 10.40 45.30 5.18
1463 5153 4.449568 TGCTGCATACGCCTGCGA 62.450 61.111 19.52 2.29 45.30 5.10
1464 5154 3.929948 GCTGCATACGCCTGCGAC 61.930 66.667 19.52 5.22 45.30 5.19
1465 5155 3.620428 CTGCATACGCCTGCGACG 61.620 66.667 19.52 6.87 45.30 5.12
1468 5158 3.620428 CATACGCCTGCGACGCTG 61.620 66.667 22.08 20.24 42.83 5.18
1469 5159 3.822192 ATACGCCTGCGACGCTGA 61.822 61.111 25.88 8.18 42.83 4.26
1470 5160 4.771356 TACGCCTGCGACGCTGAC 62.771 66.667 25.88 15.08 42.83 3.51
1472 5162 4.476410 CGCCTGCGACGCTGACTA 62.476 66.667 25.88 2.30 42.83 2.59
1473 5163 2.580867 GCCTGCGACGCTGACTAG 60.581 66.667 25.88 12.25 0.00 2.57
1474 5164 3.052620 GCCTGCGACGCTGACTAGA 62.053 63.158 25.88 0.76 0.00 2.43
1475 5165 1.226435 CCTGCGACGCTGACTAGAC 60.226 63.158 25.88 0.00 0.00 2.59
1476 5166 1.502190 CTGCGACGCTGACTAGACA 59.498 57.895 22.08 0.00 0.00 3.41
1477 5167 0.099613 CTGCGACGCTGACTAGACAT 59.900 55.000 22.08 0.00 0.00 3.06
1478 5168 0.179163 TGCGACGCTGACTAGACATG 60.179 55.000 22.08 0.00 0.00 3.21
1479 5169 1.475441 GCGACGCTGACTAGACATGC 61.475 60.000 13.73 1.81 0.00 4.06
1480 5170 0.867753 CGACGCTGACTAGACATGCC 60.868 60.000 0.00 0.00 0.00 4.40
1481 5171 0.173481 GACGCTGACTAGACATGCCA 59.827 55.000 0.00 0.00 0.00 4.92
1482 5172 0.174389 ACGCTGACTAGACATGCCAG 59.826 55.000 0.00 0.00 0.00 4.85
1483 5173 1.150567 CGCTGACTAGACATGCCAGC 61.151 60.000 0.00 0.00 44.72 4.85
1484 5174 0.107993 GCTGACTAGACATGCCAGCA 60.108 55.000 0.00 0.00 46.68 4.41
1485 5175 1.474677 GCTGACTAGACATGCCAGCAT 60.475 52.381 0.00 0.00 46.68 3.79
1500 5190 4.415150 CATGGCGGGACCTGCTGT 62.415 66.667 24.51 10.89 40.22 4.40
1501 5191 4.101448 ATGGCGGGACCTGCTGTC 62.101 66.667 24.51 9.08 43.67 3.51
1503 5193 4.767255 GGCGGGACCTGCTGTCAG 62.767 72.222 24.51 0.00 46.38 3.51
1504 5194 4.008933 GCGGGACCTGCTGTCAGT 62.009 66.667 18.66 0.00 46.38 3.41
1505 5195 2.047844 CGGGACCTGCTGTCAGTG 60.048 66.667 0.93 0.00 46.38 3.66
1506 5196 2.574018 CGGGACCTGCTGTCAGTGA 61.574 63.158 0.93 0.00 46.38 3.41
1507 5197 1.004440 GGGACCTGCTGTCAGTGAC 60.004 63.158 16.68 16.68 46.38 3.67
1508 5198 1.748403 GGACCTGCTGTCAGTGACA 59.252 57.895 24.09 24.09 46.38 3.58
1509 5199 0.106708 GGACCTGCTGTCAGTGACAA 59.893 55.000 25.41 11.99 46.38 3.18
1510 5200 1.475034 GGACCTGCTGTCAGTGACAAA 60.475 52.381 25.41 15.96 46.38 2.83
1511 5201 1.869767 GACCTGCTGTCAGTGACAAAG 59.130 52.381 25.41 22.92 42.26 2.77
1512 5202 1.233019 CCTGCTGTCAGTGACAAAGG 58.767 55.000 27.81 27.81 42.26 3.11
1513 5203 1.233019 CTGCTGTCAGTGACAAAGGG 58.767 55.000 25.41 15.32 42.26 3.95
1514 5204 0.179020 TGCTGTCAGTGACAAAGGGG 60.179 55.000 25.41 14.97 42.26 4.79
1515 5205 0.108585 GCTGTCAGTGACAAAGGGGA 59.891 55.000 25.41 2.34 42.26 4.81
1516 5206 1.879796 GCTGTCAGTGACAAAGGGGAG 60.880 57.143 25.41 13.62 42.26 4.30
1517 5207 0.764890 TGTCAGTGACAAAGGGGAGG 59.235 55.000 23.55 0.00 39.78 4.30
1518 5208 0.036875 GTCAGTGACAAAGGGGAGGG 59.963 60.000 18.54 0.00 32.09 4.30
1519 5209 1.303643 CAGTGACAAAGGGGAGGGC 60.304 63.158 0.00 0.00 0.00 5.19
1520 5210 1.774217 AGTGACAAAGGGGAGGGCA 60.774 57.895 0.00 0.00 0.00 5.36
1521 5211 1.303643 GTGACAAAGGGGAGGGCAG 60.304 63.158 0.00 0.00 0.00 4.85
1522 5212 2.356667 GACAAAGGGGAGGGCAGG 59.643 66.667 0.00 0.00 0.00 4.85
1523 5213 3.268032 ACAAAGGGGAGGGCAGGG 61.268 66.667 0.00 0.00 0.00 4.45
1524 5214 3.268032 CAAAGGGGAGGGCAGGGT 61.268 66.667 0.00 0.00 0.00 4.34
1525 5215 1.928567 CAAAGGGGAGGGCAGGGTA 60.929 63.158 0.00 0.00 0.00 3.69
1526 5216 1.619669 AAAGGGGAGGGCAGGGTAG 60.620 63.158 0.00 0.00 0.00 3.18
1527 5217 3.660092 AAGGGGAGGGCAGGGTAGG 62.660 68.421 0.00 0.00 0.00 3.18
1534 5224 4.778143 GGCAGGGTAGGGCGTGTG 62.778 72.222 0.00 0.00 0.00 3.82
1535 5225 4.778143 GCAGGGTAGGGCGTGTGG 62.778 72.222 0.00 0.00 0.00 4.17
1536 5226 4.778143 CAGGGTAGGGCGTGTGGC 62.778 72.222 0.00 0.00 42.51 5.01
1545 5235 2.639286 GCGTGTGGCCTGTTCTTG 59.361 61.111 3.32 0.00 34.80 3.02
1546 5236 2.186826 GCGTGTGGCCTGTTCTTGT 61.187 57.895 3.32 0.00 34.80 3.16
1547 5237 1.724582 GCGTGTGGCCTGTTCTTGTT 61.725 55.000 3.32 0.00 34.80 2.83
1548 5238 0.738389 CGTGTGGCCTGTTCTTGTTT 59.262 50.000 3.32 0.00 0.00 2.83
1549 5239 1.134175 CGTGTGGCCTGTTCTTGTTTT 59.866 47.619 3.32 0.00 0.00 2.43
1550 5240 2.539476 GTGTGGCCTGTTCTTGTTTTG 58.461 47.619 3.32 0.00 0.00 2.44
1551 5241 2.165437 GTGTGGCCTGTTCTTGTTTTGA 59.835 45.455 3.32 0.00 0.00 2.69
1552 5242 2.426738 TGTGGCCTGTTCTTGTTTTGAG 59.573 45.455 3.32 0.00 0.00 3.02
1553 5243 2.427095 GTGGCCTGTTCTTGTTTTGAGT 59.573 45.455 3.32 0.00 0.00 3.41
1554 5244 3.630312 GTGGCCTGTTCTTGTTTTGAGTA 59.370 43.478 3.32 0.00 0.00 2.59
1555 5245 4.097286 GTGGCCTGTTCTTGTTTTGAGTAA 59.903 41.667 3.32 0.00 0.00 2.24
1556 5246 4.707448 TGGCCTGTTCTTGTTTTGAGTAAA 59.293 37.500 3.32 0.00 0.00 2.01
1557 5247 5.163561 TGGCCTGTTCTTGTTTTGAGTAAAG 60.164 40.000 3.32 0.00 0.00 1.85
1558 5248 4.740205 GCCTGTTCTTGTTTTGAGTAAAGC 59.260 41.667 0.00 0.00 0.00 3.51
1559 5249 5.281727 CCTGTTCTTGTTTTGAGTAAAGCC 58.718 41.667 0.00 0.00 0.00 4.35
1560 5250 5.257082 TGTTCTTGTTTTGAGTAAAGCCC 57.743 39.130 0.00 0.00 0.00 5.19
1561 5251 4.098807 TGTTCTTGTTTTGAGTAAAGCCCC 59.901 41.667 0.00 0.00 0.00 5.80
1562 5252 4.178956 TCTTGTTTTGAGTAAAGCCCCT 57.821 40.909 0.00 0.00 0.00 4.79
1563 5253 4.142038 TCTTGTTTTGAGTAAAGCCCCTC 58.858 43.478 0.00 0.00 0.00 4.30
1564 5254 3.586470 TGTTTTGAGTAAAGCCCCTCA 57.414 42.857 0.00 0.00 35.97 3.86
1565 5255 3.904717 TGTTTTGAGTAAAGCCCCTCAA 58.095 40.909 0.00 0.00 43.87 3.02
1566 5256 3.634910 TGTTTTGAGTAAAGCCCCTCAAC 59.365 43.478 1.82 0.00 44.88 3.18
1567 5257 3.586470 TTTGAGTAAAGCCCCTCAACA 57.414 42.857 1.82 0.00 44.88 3.33
1568 5258 3.586470 TTGAGTAAAGCCCCTCAACAA 57.414 42.857 0.00 0.00 41.47 2.83
1569 5259 3.806949 TGAGTAAAGCCCCTCAACAAT 57.193 42.857 0.00 0.00 34.88 2.71
1570 5260 4.112634 TGAGTAAAGCCCCTCAACAATT 57.887 40.909 0.00 0.00 34.88 2.32
1571 5261 4.479158 TGAGTAAAGCCCCTCAACAATTT 58.521 39.130 0.00 0.00 34.88 1.82
1572 5262 4.898861 TGAGTAAAGCCCCTCAACAATTTT 59.101 37.500 0.00 0.00 34.88 1.82
1573 5263 5.365314 TGAGTAAAGCCCCTCAACAATTTTT 59.635 36.000 0.00 0.00 34.88 1.94
1799 5501 5.005299 CAGTTTCGTTTTCACATTTGGGTTC 59.995 40.000 0.00 0.00 0.00 3.62
2075 5814 3.332485 TGCCTACCCTGGATGTTTAGTTT 59.668 43.478 0.00 0.00 0.00 2.66
2149 5889 4.635765 TGATGTCCAGTTAACTGCTATTGC 59.364 41.667 27.05 15.13 42.47 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
196 237 1.134965 CACTACCGAAAGCCCAGAGAG 60.135 57.143 0.00 0.00 0.00 3.20
197 238 0.895530 CACTACCGAAAGCCCAGAGA 59.104 55.000 0.00 0.00 0.00 3.10
327 1629 9.436957 CGGTCAGGTTATATAGCAAGAATTAAT 57.563 33.333 0.00 0.00 0.00 1.40
416 1727 2.951642 CCCACCGCTGTGAATTAATCAT 59.048 45.455 10.15 0.00 45.76 2.45
495 1842 0.250640 CCATGGCTAGGGTGCATCTC 60.251 60.000 0.00 0.00 34.04 2.75
634 2069 9.003658 CAAAACTTATGGAGTGTCAGTCTATTT 57.996 33.333 11.37 0.00 39.00 1.40
635 2070 8.157476 ACAAAACTTATGGAGTGTCAGTCTATT 58.843 33.333 11.37 0.00 39.00 1.73
636 2071 7.680730 ACAAAACTTATGGAGTGTCAGTCTAT 58.319 34.615 10.95 10.95 39.00 1.98
670 2107 7.421599 CAACGTCATGATGATAGAGTTAGAGT 58.578 38.462 21.75 0.00 0.00 3.24
671 2108 6.860539 CCAACGTCATGATGATAGAGTTAGAG 59.139 42.308 21.75 0.00 0.00 2.43
672 2109 6.321435 ACCAACGTCATGATGATAGAGTTAGA 59.679 38.462 21.75 0.00 0.00 2.10
673 2110 6.507900 ACCAACGTCATGATGATAGAGTTAG 58.492 40.000 21.75 0.29 0.00 2.34
674 2111 6.321435 AGACCAACGTCATGATGATAGAGTTA 59.679 38.462 21.75 0.00 41.87 2.24
675 2112 5.127845 AGACCAACGTCATGATGATAGAGTT 59.872 40.000 21.75 1.22 41.87 3.01
695 2135 1.737008 GGAGACGGCGAACAAGACC 60.737 63.158 16.62 3.09 0.00 3.85
910 4543 3.302434 CGATTTTGTTAGCATTGCAGCAG 59.698 43.478 11.91 0.00 36.85 4.24
911 4544 3.244156 CGATTTTGTTAGCATTGCAGCA 58.756 40.909 11.91 0.00 36.85 4.41
914 4547 4.023279 AGTCACGATTTTGTTAGCATTGCA 60.023 37.500 11.91 0.00 0.00 4.08
915 4548 4.475944 AGTCACGATTTTGTTAGCATTGC 58.524 39.130 0.00 0.00 0.00 3.56
917 4550 4.451096 ACGAGTCACGATTTTGTTAGCATT 59.549 37.500 0.00 0.00 45.77 3.56
919 4552 3.183574 CACGAGTCACGATTTTGTTAGCA 59.816 43.478 0.00 0.00 45.77 3.49
928 4574 3.378427 TCATGATCTCACGAGTCACGATT 59.622 43.478 0.00 0.00 45.77 3.34
929 4575 2.945668 TCATGATCTCACGAGTCACGAT 59.054 45.455 0.00 0.00 45.77 3.73
930 4576 2.356135 TCATGATCTCACGAGTCACGA 58.644 47.619 0.00 0.00 45.77 4.35
932 4578 2.793790 GCATCATGATCTCACGAGTCAC 59.206 50.000 4.86 0.00 0.00 3.67
933 4579 2.428171 TGCATCATGATCTCACGAGTCA 59.572 45.455 4.86 0.00 0.00 3.41
934 4580 3.089573 TGCATCATGATCTCACGAGTC 57.910 47.619 4.86 0.00 0.00 3.36
945 4591 2.422377 CCAGTCAGGGAATGCATCATGA 60.422 50.000 0.00 0.00 0.00 3.07
949 4595 0.106819 AGCCAGTCAGGGAATGCATC 60.107 55.000 0.00 0.00 38.09 3.91
976 4658 2.425539 CATTGCAACCCAACCCAATTC 58.574 47.619 0.00 0.00 35.99 2.17
977 4659 1.545204 GCATTGCAACCCAACCCAATT 60.545 47.619 0.00 0.00 35.99 2.32
978 4660 0.036590 GCATTGCAACCCAACCCAAT 59.963 50.000 0.00 0.00 35.99 3.16
979 4661 1.340399 TGCATTGCAACCCAACCCAA 61.340 50.000 9.33 0.00 34.76 4.12
1043 4725 1.592400 CTCCCTGTAGACGGCGAACA 61.592 60.000 16.62 13.79 0.00 3.18
1319 5009 6.851222 AATTGACTCGATAATCACACATCC 57.149 37.500 0.00 0.00 0.00 3.51
1323 5013 6.533723 TGGTGTAATTGACTCGATAATCACAC 59.466 38.462 11.99 11.99 0.00 3.82
1325 5015 6.757010 ACTGGTGTAATTGACTCGATAATCAC 59.243 38.462 0.00 0.00 0.00 3.06
1345 5035 1.072331 CCAAGTTCTAGCACCACTGGT 59.928 52.381 0.00 0.00 35.62 4.00
1346 5036 1.813513 CCAAGTTCTAGCACCACTGG 58.186 55.000 0.00 0.00 0.00 4.00
1347 5037 1.160137 GCCAAGTTCTAGCACCACTG 58.840 55.000 0.00 0.00 0.00 3.66
1348 5038 0.764890 TGCCAAGTTCTAGCACCACT 59.235 50.000 0.00 0.00 0.00 4.00
1349 5039 3.322514 TGCCAAGTTCTAGCACCAC 57.677 52.632 0.00 0.00 0.00 4.16
1353 5043 3.485394 TCATTTGTGCCAAGTTCTAGCA 58.515 40.909 0.00 0.00 0.00 3.49
1354 5044 4.156556 TGATCATTTGTGCCAAGTTCTAGC 59.843 41.667 0.00 0.00 0.00 3.42
1355 5045 5.413833 AGTGATCATTTGTGCCAAGTTCTAG 59.586 40.000 0.00 0.00 0.00 2.43
1356 5046 5.316167 AGTGATCATTTGTGCCAAGTTCTA 58.684 37.500 0.00 0.00 0.00 2.10
1357 5047 4.147321 AGTGATCATTTGTGCCAAGTTCT 58.853 39.130 0.00 0.00 0.00 3.01
1358 5048 4.510038 AGTGATCATTTGTGCCAAGTTC 57.490 40.909 0.00 0.00 0.00 3.01
1359 5049 4.341806 TGAAGTGATCATTTGTGCCAAGTT 59.658 37.500 8.35 0.00 31.50 2.66
1360 5050 3.890756 TGAAGTGATCATTTGTGCCAAGT 59.109 39.130 8.35 0.00 31.50 3.16
1361 5051 4.022589 ACTGAAGTGATCATTTGTGCCAAG 60.023 41.667 8.35 0.00 37.44 3.61
1362 5052 3.890756 ACTGAAGTGATCATTTGTGCCAA 59.109 39.130 8.35 0.00 37.44 4.52
1363 5053 3.489355 ACTGAAGTGATCATTTGTGCCA 58.511 40.909 8.35 0.00 37.44 4.92
1377 5067 3.134804 ACCACAAGTTCTAGCACTGAAGT 59.865 43.478 0.00 0.00 0.00 3.01
1378 5068 3.733337 ACCACAAGTTCTAGCACTGAAG 58.267 45.455 0.00 0.00 0.00 3.02
1379 5069 3.838244 ACCACAAGTTCTAGCACTGAA 57.162 42.857 0.00 0.00 0.00 3.02
1380 5070 5.479027 TGTATACCACAAGTTCTAGCACTGA 59.521 40.000 0.00 0.00 32.95 3.41
1381 5071 5.720202 TGTATACCACAAGTTCTAGCACTG 58.280 41.667 0.00 0.00 32.95 3.66
1382 5072 5.995565 TGTATACCACAAGTTCTAGCACT 57.004 39.130 0.00 0.00 32.95 4.40
1383 5073 9.976511 TTATATGTATACCACAAGTTCTAGCAC 57.023 33.333 0.00 0.00 41.55 4.40
1388 5078 8.989131 ACCACTTATATGTATACCACAAGTTCT 58.011 33.333 0.00 0.00 41.55 3.01
1389 5079 9.609346 AACCACTTATATGTATACCACAAGTTC 57.391 33.333 0.00 0.00 41.55 3.01
1390 5080 9.609346 GAACCACTTATATGTATACCACAAGTT 57.391 33.333 0.00 0.00 41.55 2.66
1391 5081 8.764558 TGAACCACTTATATGTATACCACAAGT 58.235 33.333 0.00 2.44 41.55 3.16
1392 5082 9.607988 TTGAACCACTTATATGTATACCACAAG 57.392 33.333 0.00 1.85 41.55 3.16
1393 5083 9.961264 TTTGAACCACTTATATGTATACCACAA 57.039 29.630 0.00 0.00 41.55 3.33
1394 5084 9.961264 TTTTGAACCACTTATATGTATACCACA 57.039 29.630 0.00 0.00 42.69 4.17
1401 5091 8.301002 GCCAAGTTTTTGAACCACTTATATGTA 58.699 33.333 0.00 0.00 36.36 2.29
1402 5092 7.015195 AGCCAAGTTTTTGAACCACTTATATGT 59.985 33.333 0.00 0.00 36.36 2.29
1403 5093 7.378181 AGCCAAGTTTTTGAACCACTTATATG 58.622 34.615 0.00 0.00 36.36 1.78
1404 5094 7.539034 AGCCAAGTTTTTGAACCACTTATAT 57.461 32.000 0.00 0.00 36.36 0.86
1405 5095 6.969993 AGCCAAGTTTTTGAACCACTTATA 57.030 33.333 0.00 0.00 36.36 0.98
1406 5096 5.869649 AGCCAAGTTTTTGAACCACTTAT 57.130 34.783 0.00 0.00 36.36 1.73
1407 5097 5.186021 TCAAGCCAAGTTTTTGAACCACTTA 59.814 36.000 0.00 0.00 36.36 2.24
1408 5098 4.020662 TCAAGCCAAGTTTTTGAACCACTT 60.021 37.500 0.00 0.00 36.36 3.16
1409 5099 3.513515 TCAAGCCAAGTTTTTGAACCACT 59.486 39.130 0.00 0.00 36.36 4.00
1410 5100 3.855858 TCAAGCCAAGTTTTTGAACCAC 58.144 40.909 0.00 0.00 36.36 4.16
1411 5101 4.440880 CATCAAGCCAAGTTTTTGAACCA 58.559 39.130 0.02 0.00 36.36 3.67
1412 5102 3.809279 CCATCAAGCCAAGTTTTTGAACC 59.191 43.478 0.02 0.00 36.36 3.62
1413 5103 4.270808 CACCATCAAGCCAAGTTTTTGAAC 59.729 41.667 0.02 0.00 36.36 3.18
1414 5104 4.081198 ACACCATCAAGCCAAGTTTTTGAA 60.081 37.500 0.02 0.00 36.36 2.69
1415 5105 3.450457 ACACCATCAAGCCAAGTTTTTGA 59.550 39.130 0.00 0.00 36.36 2.69
1416 5106 3.795877 ACACCATCAAGCCAAGTTTTTG 58.204 40.909 0.00 0.00 0.00 2.44
1417 5107 5.606348 TTACACCATCAAGCCAAGTTTTT 57.394 34.783 0.00 0.00 0.00 1.94
1418 5108 5.606348 TTTACACCATCAAGCCAAGTTTT 57.394 34.783 0.00 0.00 0.00 2.43
1419 5109 5.806654 ATTTACACCATCAAGCCAAGTTT 57.193 34.783 0.00 0.00 0.00 2.66
1420 5110 6.127366 CCATATTTACACCATCAAGCCAAGTT 60.127 38.462 0.00 0.00 0.00 2.66
1421 5111 5.360714 CCATATTTACACCATCAAGCCAAGT 59.639 40.000 0.00 0.00 0.00 3.16
1422 5112 5.360714 ACCATATTTACACCATCAAGCCAAG 59.639 40.000 0.00 0.00 0.00 3.61
1423 5113 5.126869 CACCATATTTACACCATCAAGCCAA 59.873 40.000 0.00 0.00 0.00 4.52
1424 5114 4.644234 CACCATATTTACACCATCAAGCCA 59.356 41.667 0.00 0.00 0.00 4.75
1425 5115 4.499696 GCACCATATTTACACCATCAAGCC 60.500 45.833 0.00 0.00 0.00 4.35
1426 5116 4.339247 AGCACCATATTTACACCATCAAGC 59.661 41.667 0.00 0.00 0.00 4.01
1427 5117 5.734220 GCAGCACCATATTTACACCATCAAG 60.734 44.000 0.00 0.00 0.00 3.02
1428 5118 4.097741 GCAGCACCATATTTACACCATCAA 59.902 41.667 0.00 0.00 0.00 2.57
1429 5119 3.631686 GCAGCACCATATTTACACCATCA 59.368 43.478 0.00 0.00 0.00 3.07
1430 5120 3.631686 TGCAGCACCATATTTACACCATC 59.368 43.478 0.00 0.00 0.00 3.51
1431 5121 3.630168 TGCAGCACCATATTTACACCAT 58.370 40.909 0.00 0.00 0.00 3.55
1432 5122 3.078891 TGCAGCACCATATTTACACCA 57.921 42.857 0.00 0.00 0.00 4.17
1433 5123 4.319477 CGTATGCAGCACCATATTTACACC 60.319 45.833 0.00 0.00 31.01 4.16
1434 5124 4.772434 CGTATGCAGCACCATATTTACAC 58.228 43.478 0.00 0.00 31.01 2.90
1435 5125 3.249799 GCGTATGCAGCACCATATTTACA 59.750 43.478 0.00 0.00 42.15 2.41
1436 5126 3.364964 GGCGTATGCAGCACCATATTTAC 60.365 47.826 9.59 0.00 45.35 2.01
1437 5127 2.811431 GGCGTATGCAGCACCATATTTA 59.189 45.455 9.59 0.00 45.35 1.40
1438 5128 1.608590 GGCGTATGCAGCACCATATTT 59.391 47.619 9.59 0.00 45.35 1.40
1439 5129 1.202806 AGGCGTATGCAGCACCATATT 60.203 47.619 9.59 0.00 45.35 1.28
1440 5130 0.397941 AGGCGTATGCAGCACCATAT 59.602 50.000 9.59 0.00 45.35 1.78
1441 5131 0.532640 CAGGCGTATGCAGCACCATA 60.533 55.000 9.59 0.00 45.35 2.74
1442 5132 1.820906 CAGGCGTATGCAGCACCAT 60.821 57.895 9.59 0.00 45.35 3.55
1443 5133 2.436469 CAGGCGTATGCAGCACCA 60.436 61.111 9.59 0.00 45.35 4.17
1444 5134 3.880846 GCAGGCGTATGCAGCACC 61.881 66.667 16.05 0.00 45.77 5.01
1445 5135 4.228097 CGCAGGCGTATGCAGCAC 62.228 66.667 19.47 0.00 46.87 4.40
1446 5136 4.449568 TCGCAGGCGTATGCAGCA 62.450 61.111 19.47 0.00 46.87 4.41
1447 5137 3.929948 GTCGCAGGCGTATGCAGC 61.930 66.667 13.83 11.09 46.87 5.25
1456 5146 2.580867 CTAGTCAGCGTCGCAGGC 60.581 66.667 21.09 13.74 0.00 4.85
1457 5147 1.226435 GTCTAGTCAGCGTCGCAGG 60.226 63.158 21.09 11.31 0.00 4.85
1458 5148 0.099613 ATGTCTAGTCAGCGTCGCAG 59.900 55.000 21.09 12.22 0.00 5.18
1459 5149 0.179163 CATGTCTAGTCAGCGTCGCA 60.179 55.000 21.09 0.00 0.00 5.10
1460 5150 1.475441 GCATGTCTAGTCAGCGTCGC 61.475 60.000 9.80 9.80 0.00 5.19
1461 5151 0.867753 GGCATGTCTAGTCAGCGTCG 60.868 60.000 0.00 0.00 0.00 5.12
1462 5152 0.173481 TGGCATGTCTAGTCAGCGTC 59.827 55.000 0.00 0.00 0.00 5.19
1463 5153 0.174389 CTGGCATGTCTAGTCAGCGT 59.826 55.000 0.00 0.00 0.00 5.07
1464 5154 1.150567 GCTGGCATGTCTAGTCAGCG 61.151 60.000 3.91 0.00 40.81 5.18
1465 5155 2.687842 GCTGGCATGTCTAGTCAGC 58.312 57.895 3.91 3.91 42.89 4.26
1466 5156 2.210961 CATGCTGGCATGTCTAGTCAG 58.789 52.381 22.78 0.00 46.20 3.51
1467 5157 2.320745 CATGCTGGCATGTCTAGTCA 57.679 50.000 22.78 0.00 46.20 3.41
1483 5173 4.415150 ACAGCAGGTCCCGCCATG 62.415 66.667 0.00 0.00 40.61 3.66
1484 5174 4.101448 GACAGCAGGTCCCGCCAT 62.101 66.667 0.00 0.00 40.83 4.40
1486 5176 4.767255 CTGACAGCAGGTCCCGCC 62.767 72.222 6.14 0.00 46.38 6.13
1487 5177 4.008933 ACTGACAGCAGGTCCCGC 62.009 66.667 1.25 0.00 46.38 6.13
1488 5178 2.047844 CACTGACAGCAGGTCCCG 60.048 66.667 1.25 1.05 46.38 5.14
1489 5179 1.004440 GTCACTGACAGCAGGTCCC 60.004 63.158 1.25 0.00 46.38 4.46
1490 5180 0.106708 TTGTCACTGACAGCAGGTCC 59.893 55.000 11.67 0.00 46.38 4.46
1491 5181 1.869767 CTTTGTCACTGACAGCAGGTC 59.130 52.381 11.67 1.89 46.60 3.85
1492 5182 1.475751 CCTTTGTCACTGACAGCAGGT 60.476 52.381 21.53 0.00 46.60 4.00
1493 5183 1.233019 CCTTTGTCACTGACAGCAGG 58.767 55.000 18.57 18.57 46.60 4.85
1494 5184 1.233019 CCCTTTGTCACTGACAGCAG 58.767 55.000 11.67 11.43 43.69 4.24
1495 5185 0.179020 CCCCTTTGTCACTGACAGCA 60.179 55.000 11.67 3.01 43.69 4.41
1496 5186 0.108585 TCCCCTTTGTCACTGACAGC 59.891 55.000 11.67 0.00 43.69 4.40
1497 5187 1.271054 CCTCCCCTTTGTCACTGACAG 60.271 57.143 11.67 0.00 43.69 3.51
1498 5188 0.764890 CCTCCCCTTTGTCACTGACA 59.235 55.000 7.84 7.84 41.09 3.58
1499 5189 0.036875 CCCTCCCCTTTGTCACTGAC 59.963 60.000 1.86 1.86 0.00 3.51
1500 5190 1.779061 GCCCTCCCCTTTGTCACTGA 61.779 60.000 0.00 0.00 0.00 3.41
1501 5191 1.303643 GCCCTCCCCTTTGTCACTG 60.304 63.158 0.00 0.00 0.00 3.66
1502 5192 1.774217 TGCCCTCCCCTTTGTCACT 60.774 57.895 0.00 0.00 0.00 3.41
1503 5193 1.303643 CTGCCCTCCCCTTTGTCAC 60.304 63.158 0.00 0.00 0.00 3.67
1504 5194 2.538141 CCTGCCCTCCCCTTTGTCA 61.538 63.158 0.00 0.00 0.00 3.58
1505 5195 2.356667 CCTGCCCTCCCCTTTGTC 59.643 66.667 0.00 0.00 0.00 3.18
1506 5196 2.723334 TACCCTGCCCTCCCCTTTGT 62.723 60.000 0.00 0.00 0.00 2.83
1507 5197 1.926426 CTACCCTGCCCTCCCCTTTG 61.926 65.000 0.00 0.00 0.00 2.77
1508 5198 1.619669 CTACCCTGCCCTCCCCTTT 60.620 63.158 0.00 0.00 0.00 3.11
1509 5199 2.042930 CTACCCTGCCCTCCCCTT 59.957 66.667 0.00 0.00 0.00 3.95
1510 5200 4.109656 CCTACCCTGCCCTCCCCT 62.110 72.222 0.00 0.00 0.00 4.79
1517 5207 4.778143 CACACGCCCTACCCTGCC 62.778 72.222 0.00 0.00 0.00 4.85
1518 5208 4.778143 CCACACGCCCTACCCTGC 62.778 72.222 0.00 0.00 0.00 4.85
1519 5209 4.778143 GCCACACGCCCTACCCTG 62.778 72.222 0.00 0.00 0.00 4.45
1528 5218 1.724582 AACAAGAACAGGCCACACGC 61.725 55.000 5.01 0.00 0.00 5.34
1529 5219 0.738389 AAACAAGAACAGGCCACACG 59.262 50.000 5.01 0.00 0.00 4.49
1530 5220 2.165437 TCAAAACAAGAACAGGCCACAC 59.835 45.455 5.01 0.00 0.00 3.82
1531 5221 2.426738 CTCAAAACAAGAACAGGCCACA 59.573 45.455 5.01 0.00 0.00 4.17
1532 5222 2.427095 ACTCAAAACAAGAACAGGCCAC 59.573 45.455 5.01 0.00 0.00 5.01
1533 5223 2.733956 ACTCAAAACAAGAACAGGCCA 58.266 42.857 5.01 0.00 0.00 5.36
1534 5224 4.911514 TTACTCAAAACAAGAACAGGCC 57.088 40.909 0.00 0.00 0.00 5.19
1535 5225 4.740205 GCTTTACTCAAAACAAGAACAGGC 59.260 41.667 0.00 0.00 0.00 4.85
1536 5226 5.281727 GGCTTTACTCAAAACAAGAACAGG 58.718 41.667 0.00 0.00 0.00 4.00
1537 5227 5.281727 GGGCTTTACTCAAAACAAGAACAG 58.718 41.667 0.00 0.00 0.00 3.16
1538 5228 4.098807 GGGGCTTTACTCAAAACAAGAACA 59.901 41.667 0.00 0.00 0.00 3.18
1539 5229 4.341235 AGGGGCTTTACTCAAAACAAGAAC 59.659 41.667 0.00 0.00 0.00 3.01
1540 5230 4.542697 AGGGGCTTTACTCAAAACAAGAA 58.457 39.130 0.00 0.00 0.00 2.52
1541 5231 4.142038 GAGGGGCTTTACTCAAAACAAGA 58.858 43.478 0.00 0.00 33.95 3.02
1542 5232 3.888930 TGAGGGGCTTTACTCAAAACAAG 59.111 43.478 0.00 0.00 40.51 3.16
1543 5233 3.904717 TGAGGGGCTTTACTCAAAACAA 58.095 40.909 0.00 0.00 40.51 2.83
1544 5234 3.586470 TGAGGGGCTTTACTCAAAACA 57.414 42.857 0.00 0.00 40.51 2.83
1549 5239 3.806949 ATTGTTGAGGGGCTTTACTCA 57.193 42.857 0.00 0.00 41.63 3.41
1550 5240 5.468540 AAAATTGTTGAGGGGCTTTACTC 57.531 39.130 0.00 0.00 0.00 2.59
1551 5241 5.887214 AAAAATTGTTGAGGGGCTTTACT 57.113 34.783 0.00 0.00 0.00 2.24
1585 5275 9.458374 CACGTCCATTTATTTTCTGTACTTTTT 57.542 29.630 0.00 0.00 0.00 1.94
1586 5276 8.079809 CCACGTCCATTTATTTTCTGTACTTTT 58.920 33.333 0.00 0.00 0.00 2.27
1587 5277 7.590279 CCACGTCCATTTATTTTCTGTACTTT 58.410 34.615 0.00 0.00 0.00 2.66
1588 5278 6.349033 GCCACGTCCATTTATTTTCTGTACTT 60.349 38.462 0.00 0.00 0.00 2.24
1589 5279 5.123344 GCCACGTCCATTTATTTTCTGTACT 59.877 40.000 0.00 0.00 0.00 2.73
1590 5280 5.123344 AGCCACGTCCATTTATTTTCTGTAC 59.877 40.000 0.00 0.00 0.00 2.90
1591 5281 5.250200 AGCCACGTCCATTTATTTTCTGTA 58.750 37.500 0.00 0.00 0.00 2.74
1592 5282 4.079253 AGCCACGTCCATTTATTTTCTGT 58.921 39.130 0.00 0.00 0.00 3.41
1593 5283 4.701956 AGCCACGTCCATTTATTTTCTG 57.298 40.909 0.00 0.00 0.00 3.02
1594 5284 5.741011 TCTAGCCACGTCCATTTATTTTCT 58.259 37.500 0.00 0.00 0.00 2.52
1595 5285 5.504173 GCTCTAGCCACGTCCATTTATTTTC 60.504 44.000 0.00 0.00 34.31 2.29
1596 5286 4.335594 GCTCTAGCCACGTCCATTTATTTT 59.664 41.667 0.00 0.00 34.31 1.82
1597 5287 3.877508 GCTCTAGCCACGTCCATTTATTT 59.122 43.478 0.00 0.00 34.31 1.40
1598 5288 3.467803 GCTCTAGCCACGTCCATTTATT 58.532 45.455 0.00 0.00 34.31 1.40
1599 5289 2.545952 CGCTCTAGCCACGTCCATTTAT 60.546 50.000 0.00 0.00 37.91 1.40
1600 5290 1.202371 CGCTCTAGCCACGTCCATTTA 60.202 52.381 0.00 0.00 37.91 1.40
1601 5291 0.460284 CGCTCTAGCCACGTCCATTT 60.460 55.000 0.00 0.00 37.91 2.32
1602 5292 1.141881 CGCTCTAGCCACGTCCATT 59.858 57.895 0.00 0.00 37.91 3.16
2075 5814 3.628942 GCAACTGGACATCAATGATAGCA 59.371 43.478 0.00 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.