Multiple sequence alignment - TraesCS3B01G386300

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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 TraesCS3B01G386300 chr3B 100.000 2150 0 0 1 2150 606559811 606557662 0.000000e+00 3971.0
1 TraesCS3B01G386300 chr3B 81.538 1040 75 54 281 1276 606421609 606420643 0.000000e+00 749.0
2 TraesCS3B01G386300 chr3B 94.681 188 10 0 1273 1460 779136368 779136181 2.090000e-75 292.0
3 TraesCS3B01G386300 chr3B 93.299 194 12 1 1267 1460 702842061 702842253 3.490000e-73 285.0
4 TraesCS3B01G386300 chr3D 88.240 1267 66 42 55 1280 459195813 459194589 0.000000e+00 1437.0
5 TraesCS3B01G386300 chr3D 84.962 532 28 25 655 1151 459160377 459159863 1.920000e-135 492.0
6 TraesCS3B01G386300 chr3D 90.000 370 30 7 1452 1820 459194599 459194236 2.500000e-129 472.0
7 TraesCS3B01G386300 chr3D 85.399 363 29 17 281 624 459160735 459160378 2.620000e-94 355.0
8 TraesCS3B01G386300 chr3D 92.593 81 5 1 1801 1880 459194225 459194145 4.850000e-22 115.0
9 TraesCS3B01G386300 chr3A 88.227 705 58 9 1452 2136 601385978 601385279 0.000000e+00 819.0
10 TraesCS3B01G386300 chr3A 80.580 1035 84 54 281 1246 601381395 601380409 0.000000e+00 689.0
11 TraesCS3B01G386300 chr3A 90.186 377 28 4 4 371 601386917 601386541 1.150000e-132 483.0
12 TraesCS3B01G386300 chr3A 86.207 406 21 13 888 1280 601386351 601385968 7.140000e-110 407.0
13 TraesCS3B01G386300 chr3A 86.093 302 24 9 989 1276 601374562 601374265 2.070000e-80 309.0
14 TraesCS3B01G386300 chr3A 76.387 631 69 44 674 1269 601368634 601368049 1.270000e-67 267.0
15 TraesCS3B01G386300 chr3A 88.136 177 12 4 414 582 601386544 601386369 3.620000e-48 202.0
16 TraesCS3B01G386300 chr3A 82.803 157 25 2 983 1137 601342631 601342475 2.880000e-29 139.0
17 TraesCS3B01G386300 chr3A 94.382 89 5 0 530 618 601375084 601374996 1.030000e-28 137.0
18 TraesCS3B01G386300 chr3A 85.938 128 12 3 803 926 601374708 601374583 4.810000e-27 132.0
19 TraesCS3B01G386300 chr3A 83.696 92 12 2 1591 1679 601374097 601374006 1.370000e-12 84.2
20 TraesCS3B01G386300 chr6B 97.175 177 5 0 1281 1457 525106242 525106418 1.250000e-77 300.0
21 TraesCS3B01G386300 chr6B 96.175 183 6 1 1281 1463 213152553 213152372 4.490000e-77 298.0
22 TraesCS3B01G386300 chr6B 94.241 191 11 0 1273 1463 19921265 19921075 2.090000e-75 292.0
23 TraesCS3B01G386300 chr7B 97.688 173 4 0 1281 1453 632273980 632274152 4.490000e-77 298.0
24 TraesCS3B01G386300 chr5B 97.143 175 5 0 1281 1455 313351129 313350955 1.610000e-76 296.0
25 TraesCS3B01G386300 chr4A 95.213 188 7 2 1276 1462 662620991 662621177 1.610000e-76 296.0
26 TraesCS3B01G386300 chr2B 95.556 180 8 0 1275 1454 385772975 385773154 2.700000e-74 289.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G386300 chr3B 606557662 606559811 2149 True 3971.000000 3971 100.000000 1 2150 1 chr3B.!!$R2 2149
1 TraesCS3B01G386300 chr3B 606420643 606421609 966 True 749.000000 749 81.538000 281 1276 1 chr3B.!!$R1 995
2 TraesCS3B01G386300 chr3D 459194145 459195813 1668 True 674.666667 1437 90.277667 55 1880 3 chr3D.!!$R2 1825
3 TraesCS3B01G386300 chr3D 459159863 459160735 872 True 423.500000 492 85.180500 281 1151 2 chr3D.!!$R1 870
4 TraesCS3B01G386300 chr3A 601380409 601386917 6508 True 520.000000 819 86.667200 4 2136 5 chr3A.!!$R4 2132
5 TraesCS3B01G386300 chr3A 601368049 601368634 585 True 267.000000 267 76.387000 674 1269 1 chr3A.!!$R2 595

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
982 1080 0.174617 GCGGAGAGGAGGAAGACAAG 59.825 60.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2008 2216 0.961753 GGTCAAGAAGCCCAACCTTG 59.038 55.0 0.0 0.0 38.79 3.61 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
61 62 3.469863 AAGCTCCACCGAACCGCAA 62.470 57.895 0.00 0.00 0.00 4.85
72 73 1.299541 GAACCGCAATGATCGATGGT 58.700 50.000 0.54 0.00 0.00 3.55
89 90 1.507141 GGTGTTGTGGAGTTGGCGAG 61.507 60.000 0.00 0.00 0.00 5.03
158 159 2.033141 CAGGCCACCAGTCACCAG 59.967 66.667 5.01 0.00 0.00 4.00
270 271 1.682684 CCACTCCCTCGTGCTAGGT 60.683 63.158 0.00 0.00 34.56 3.08
289 294 3.972276 GCGGGTGCGCCAAAAGAA 61.972 61.111 19.98 0.00 36.17 2.52
347 362 6.133392 CGTTAATCTGAATCTCTCTCTCGAC 58.867 44.000 0.00 0.00 0.00 4.20
348 363 6.238239 CGTTAATCTGAATCTCTCTCTCGACA 60.238 42.308 0.00 0.00 0.00 4.35
350 365 3.540617 TCTGAATCTCTCTCTCGACAGG 58.459 50.000 0.00 0.00 0.00 4.00
371 391 2.064434 TTGTCACCAGCAATCAACCA 57.936 45.000 0.00 0.00 0.00 3.67
372 392 1.317613 TGTCACCAGCAATCAACCAC 58.682 50.000 0.00 0.00 0.00 4.16
373 393 0.598065 GTCACCAGCAATCAACCACC 59.402 55.000 0.00 0.00 0.00 4.61
384 410 1.679977 CAACCACCCTGGCTGGATG 60.680 63.158 14.99 9.33 42.67 3.51
501 537 6.389091 TGCATTACTTAACTCAAAAGCATGG 58.611 36.000 0.00 0.00 0.00 3.66
629 671 0.835941 ACTGCTCCCTAATCTGGCTG 59.164 55.000 0.00 0.00 0.00 4.85
630 672 1.126488 CTGCTCCCTAATCTGGCTGA 58.874 55.000 0.00 0.00 0.00 4.26
633 675 1.271271 GCTCCCTAATCTGGCTGATGG 60.271 57.143 7.70 5.79 35.21 3.51
635 677 2.038295 CTCCCTAATCTGGCTGATGGTC 59.962 54.545 7.70 0.00 35.21 4.02
636 678 1.770658 CCCTAATCTGGCTGATGGTCA 59.229 52.381 7.70 0.00 35.21 4.02
637 679 2.374504 CCCTAATCTGGCTGATGGTCAT 59.625 50.000 7.70 0.00 35.21 3.06
638 680 3.558746 CCCTAATCTGGCTGATGGTCATC 60.559 52.174 7.70 4.13 35.21 2.92
639 681 2.251409 AATCTGGCTGATGGTCATCG 57.749 50.000 7.70 3.33 40.63 3.84
640 682 1.126488 ATCTGGCTGATGGTCATCGT 58.874 50.000 6.04 0.00 40.63 3.73
643 685 1.399440 CTGGCTGATGGTCATCGTTTG 59.601 52.381 6.49 0.00 40.63 2.93
644 686 1.271325 TGGCTGATGGTCATCGTTTGT 60.271 47.619 6.49 0.00 40.63 2.83
645 687 1.131126 GGCTGATGGTCATCGTTTGTG 59.869 52.381 6.49 0.00 40.63 3.33
647 689 1.805943 CTGATGGTCATCGTTTGTGCA 59.194 47.619 6.49 0.00 40.63 4.57
653 699 2.095853 GGTCATCGTTTGTGCAGTATGG 59.904 50.000 0.00 0.00 35.86 2.74
658 704 2.080693 CGTTTGTGCAGTATGGCCTTA 58.919 47.619 3.32 0.00 35.86 2.69
690 740 0.961358 CTCCCTCCTCGACGAGTGTT 60.961 60.000 22.61 0.00 0.00 3.32
692 742 0.450983 CCCTCCTCGACGAGTGTTAC 59.549 60.000 22.61 0.00 0.00 2.50
704 754 1.540267 GAGTGTTACAGTGAGAGCCGA 59.460 52.381 0.00 0.00 0.00 5.54
705 755 1.542030 AGTGTTACAGTGAGAGCCGAG 59.458 52.381 0.00 0.00 0.00 4.63
706 756 1.540267 GTGTTACAGTGAGAGCCGAGA 59.460 52.381 0.00 0.00 0.00 4.04
707 757 1.813178 TGTTACAGTGAGAGCCGAGAG 59.187 52.381 0.00 0.00 0.00 3.20
708 758 0.811915 TTACAGTGAGAGCCGAGAGC 59.188 55.000 0.00 0.00 44.25 4.09
829 912 2.029918 GCAGGGAGTAAACAAGCAAAGG 60.030 50.000 0.00 0.00 0.00 3.11
846 929 0.179073 AGGAGCACGCGCAATCTAAT 60.179 50.000 5.73 0.00 42.27 1.73
919 1010 0.926293 TCCATCCCCAAACCATCTCC 59.074 55.000 0.00 0.00 0.00 3.71
926 1017 1.604378 CAAACCATCTCCCTCGCCT 59.396 57.895 0.00 0.00 0.00 5.52
930 1021 1.764054 CCATCTCCCTCGCCTTCCT 60.764 63.158 0.00 0.00 0.00 3.36
978 1076 3.141488 GCGCGGAGAGGAGGAAGA 61.141 66.667 8.83 0.00 0.00 2.87
979 1077 2.802106 CGCGGAGAGGAGGAAGAC 59.198 66.667 0.00 0.00 0.00 3.01
980 1078 2.046864 CGCGGAGAGGAGGAAGACA 61.047 63.158 0.00 0.00 0.00 3.41
981 1079 1.595993 CGCGGAGAGGAGGAAGACAA 61.596 60.000 0.00 0.00 0.00 3.18
982 1080 0.174617 GCGGAGAGGAGGAAGACAAG 59.825 60.000 0.00 0.00 0.00 3.16
983 1081 0.174617 CGGAGAGGAGGAAGACAAGC 59.825 60.000 0.00 0.00 0.00 4.01
984 1082 1.270907 GGAGAGGAGGAAGACAAGCA 58.729 55.000 0.00 0.00 0.00 3.91
993 1116 1.809547 GGAAGACAAGCAAGGAAGAGC 59.190 52.381 0.00 0.00 0.00 4.09
1013 1136 0.179081 GGAGCAATGGAGTACGGGTC 60.179 60.000 0.00 0.00 0.00 4.46
1238 1391 1.670811 CTTGATGTGTACCGGGATTGC 59.329 52.381 6.32 0.00 0.00 3.56
1269 1425 7.690952 TGAACAAGTTGTTTTAGTTAGGTGT 57.309 32.000 21.70 0.00 41.28 4.16
1270 1426 7.531716 TGAACAAGTTGTTTTAGTTAGGTGTG 58.468 34.615 21.70 0.00 41.28 3.82
1271 1427 5.886992 ACAAGTTGTTTTAGTTAGGTGTGC 58.113 37.500 1.64 0.00 0.00 4.57
1272 1428 5.650703 ACAAGTTGTTTTAGTTAGGTGTGCT 59.349 36.000 1.64 0.00 0.00 4.40
1273 1429 6.152154 ACAAGTTGTTTTAGTTAGGTGTGCTT 59.848 34.615 1.64 0.00 0.00 3.91
1274 1430 6.373186 AGTTGTTTTAGTTAGGTGTGCTTC 57.627 37.500 0.00 0.00 0.00 3.86
1275 1431 6.120220 AGTTGTTTTAGTTAGGTGTGCTTCT 58.880 36.000 0.00 0.00 0.00 2.85
1276 1432 6.602009 AGTTGTTTTAGTTAGGTGTGCTTCTT 59.398 34.615 0.00 0.00 0.00 2.52
1277 1433 7.122204 AGTTGTTTTAGTTAGGTGTGCTTCTTT 59.878 33.333 0.00 0.00 0.00 2.52
1278 1434 6.791303 TGTTTTAGTTAGGTGTGCTTCTTTG 58.209 36.000 0.00 0.00 0.00 2.77
1279 1435 6.376018 TGTTTTAGTTAGGTGTGCTTCTTTGT 59.624 34.615 0.00 0.00 0.00 2.83
1280 1436 6.371809 TTTAGTTAGGTGTGCTTCTTTGTG 57.628 37.500 0.00 0.00 0.00 3.33
1281 1437 3.214328 AGTTAGGTGTGCTTCTTTGTGG 58.786 45.455 0.00 0.00 0.00 4.17
1282 1438 2.270352 TAGGTGTGCTTCTTTGTGGG 57.730 50.000 0.00 0.00 0.00 4.61
1283 1439 0.550914 AGGTGTGCTTCTTTGTGGGA 59.449 50.000 0.00 0.00 0.00 4.37
1284 1440 0.954452 GGTGTGCTTCTTTGTGGGAG 59.046 55.000 0.00 0.00 0.00 4.30
1285 1441 1.680338 GTGTGCTTCTTTGTGGGAGT 58.320 50.000 0.00 0.00 0.00 3.85
1286 1442 2.486548 GGTGTGCTTCTTTGTGGGAGTA 60.487 50.000 0.00 0.00 0.00 2.59
1287 1443 2.548480 GTGTGCTTCTTTGTGGGAGTAC 59.452 50.000 0.00 0.00 0.00 2.73
1288 1444 2.152016 GTGCTTCTTTGTGGGAGTACC 58.848 52.381 0.00 0.00 40.81 3.34
1289 1445 2.054799 TGCTTCTTTGTGGGAGTACCT 58.945 47.619 0.00 0.00 41.11 3.08
1290 1446 3.007614 GTGCTTCTTTGTGGGAGTACCTA 59.992 47.826 0.00 0.00 41.11 3.08
1291 1447 3.260884 TGCTTCTTTGTGGGAGTACCTAG 59.739 47.826 0.00 0.00 41.11 3.02
1292 1448 3.514309 GCTTCTTTGTGGGAGTACCTAGA 59.486 47.826 0.00 0.00 41.11 2.43
1293 1449 4.020485 GCTTCTTTGTGGGAGTACCTAGAA 60.020 45.833 0.00 0.00 41.11 2.10
1294 1450 5.479124 TTCTTTGTGGGAGTACCTAGAAC 57.521 43.478 0.00 0.00 41.11 3.01
1295 1451 4.748701 TCTTTGTGGGAGTACCTAGAACT 58.251 43.478 0.00 0.00 41.11 3.01
1296 1452 5.152934 TCTTTGTGGGAGTACCTAGAACTT 58.847 41.667 0.00 0.00 41.11 2.66
1297 1453 6.317312 TCTTTGTGGGAGTACCTAGAACTTA 58.683 40.000 0.00 0.00 41.11 2.24
1298 1454 6.958192 TCTTTGTGGGAGTACCTAGAACTTAT 59.042 38.462 0.00 0.00 41.11 1.73
1299 1455 6.786967 TTGTGGGAGTACCTAGAACTTATC 57.213 41.667 0.00 0.00 41.11 1.75
1300 1456 6.088541 TGTGGGAGTACCTAGAACTTATCT 57.911 41.667 0.00 0.00 41.11 1.98
1301 1457 7.217028 TGTGGGAGTACCTAGAACTTATCTA 57.783 40.000 0.00 0.00 41.11 1.98
1338 1494 8.961294 ATTTGGTCTCATTCATTTTGAAAACA 57.039 26.923 0.00 0.00 40.12 2.83
1339 1495 8.783833 TTTGGTCTCATTCATTTTGAAAACAA 57.216 26.923 0.00 0.00 40.12 2.83
1340 1496 8.422973 TTGGTCTCATTCATTTTGAAAACAAG 57.577 30.769 0.00 0.00 40.12 3.16
1341 1497 7.780064 TGGTCTCATTCATTTTGAAAACAAGA 58.220 30.769 0.00 0.00 40.12 3.02
1342 1498 8.256605 TGGTCTCATTCATTTTGAAAACAAGAA 58.743 29.630 0.00 0.00 40.12 2.52
1343 1499 8.542953 GGTCTCATTCATTTTGAAAACAAGAAC 58.457 33.333 0.00 0.00 40.12 3.01
1344 1500 9.086336 GTCTCATTCATTTTGAAAACAAGAACA 57.914 29.630 0.00 0.00 40.12 3.18
1345 1501 9.304731 TCTCATTCATTTTGAAAACAAGAACAG 57.695 29.630 0.00 0.00 40.12 3.16
1346 1502 9.304731 CTCATTCATTTTGAAAACAAGAACAGA 57.695 29.630 0.00 0.86 40.12 3.41
1347 1503 9.820725 TCATTCATTTTGAAAACAAGAACAGAT 57.179 25.926 0.00 0.00 40.12 2.90
1354 1510 9.567848 TTTTGAAAACAAGAACAGATACAACTC 57.432 29.630 0.00 0.00 0.00 3.01
1355 1511 7.857734 TGAAAACAAGAACAGATACAACTCA 57.142 32.000 0.00 0.00 0.00 3.41
1356 1512 7.693952 TGAAAACAAGAACAGATACAACTCAC 58.306 34.615 0.00 0.00 0.00 3.51
1357 1513 5.907197 AACAAGAACAGATACAACTCACG 57.093 39.130 0.00 0.00 0.00 4.35
1358 1514 4.945246 ACAAGAACAGATACAACTCACGT 58.055 39.130 0.00 0.00 0.00 4.49
1359 1515 4.982916 ACAAGAACAGATACAACTCACGTC 59.017 41.667 0.00 0.00 0.00 4.34
1360 1516 4.848562 AGAACAGATACAACTCACGTCA 57.151 40.909 0.00 0.00 0.00 4.35
1361 1517 4.799678 AGAACAGATACAACTCACGTCAG 58.200 43.478 0.00 0.00 0.00 3.51
1362 1518 2.947852 ACAGATACAACTCACGTCAGC 58.052 47.619 0.00 0.00 0.00 4.26
1363 1519 2.296190 ACAGATACAACTCACGTCAGCA 59.704 45.455 0.00 0.00 0.00 4.41
1364 1520 2.663602 CAGATACAACTCACGTCAGCAC 59.336 50.000 0.00 0.00 0.00 4.40
1365 1521 2.296190 AGATACAACTCACGTCAGCACA 59.704 45.455 0.00 0.00 0.00 4.57
1366 1522 1.847818 TACAACTCACGTCAGCACAC 58.152 50.000 0.00 0.00 0.00 3.82
1367 1523 0.108377 ACAACTCACGTCAGCACACA 60.108 50.000 0.00 0.00 0.00 3.72
1368 1524 0.301687 CAACTCACGTCAGCACACAC 59.698 55.000 0.00 0.00 0.00 3.82
1369 1525 1.145759 AACTCACGTCAGCACACACG 61.146 55.000 0.00 0.00 41.90 4.49
1370 1526 2.932083 CTCACGTCAGCACACACGC 61.932 63.158 0.00 0.00 39.73 5.34
1371 1527 3.261216 CACGTCAGCACACACGCA 61.261 61.111 0.00 0.00 39.73 5.24
1372 1528 2.280119 ACGTCAGCACACACGCAT 60.280 55.556 0.00 0.00 39.73 4.73
1373 1529 2.310233 ACGTCAGCACACACGCATC 61.310 57.895 0.00 0.00 39.73 3.91
1374 1530 2.023771 CGTCAGCACACACGCATCT 61.024 57.895 0.00 0.00 0.00 2.90
1375 1531 1.560004 CGTCAGCACACACGCATCTT 61.560 55.000 0.00 0.00 0.00 2.40
1376 1532 1.428448 GTCAGCACACACGCATCTTA 58.572 50.000 0.00 0.00 0.00 2.10
1377 1533 2.002586 GTCAGCACACACGCATCTTAT 58.997 47.619 0.00 0.00 0.00 1.73
1378 1534 3.186909 GTCAGCACACACGCATCTTATA 58.813 45.455 0.00 0.00 0.00 0.98
1379 1535 3.243877 GTCAGCACACACGCATCTTATAG 59.756 47.826 0.00 0.00 0.00 1.31
1380 1536 2.033407 CAGCACACACGCATCTTATAGC 60.033 50.000 0.00 0.00 0.00 2.97
1381 1537 1.933181 GCACACACGCATCTTATAGCA 59.067 47.619 0.00 0.00 0.00 3.49
1382 1538 2.545526 GCACACACGCATCTTATAGCAT 59.454 45.455 0.00 0.00 0.00 3.79
1383 1539 3.363378 GCACACACGCATCTTATAGCATC 60.363 47.826 0.00 0.00 0.00 3.91
1384 1540 3.803778 CACACACGCATCTTATAGCATCA 59.196 43.478 0.00 0.00 0.00 3.07
1385 1541 3.804325 ACACACGCATCTTATAGCATCAC 59.196 43.478 0.00 0.00 0.00 3.06
1386 1542 3.803778 CACACGCATCTTATAGCATCACA 59.196 43.478 0.00 0.00 0.00 3.58
1387 1543 4.450080 CACACGCATCTTATAGCATCACAT 59.550 41.667 0.00 0.00 0.00 3.21
1388 1544 4.687948 ACACGCATCTTATAGCATCACATC 59.312 41.667 0.00 0.00 0.00 3.06
1389 1545 4.092529 CACGCATCTTATAGCATCACATCC 59.907 45.833 0.00 0.00 0.00 3.51
1390 1546 4.248058 CGCATCTTATAGCATCACATCCA 58.752 43.478 0.00 0.00 0.00 3.41
1391 1547 4.692155 CGCATCTTATAGCATCACATCCAA 59.308 41.667 0.00 0.00 0.00 3.53
1392 1548 5.353400 CGCATCTTATAGCATCACATCCAAT 59.647 40.000 0.00 0.00 0.00 3.16
1393 1549 6.552629 GCATCTTATAGCATCACATCCAATG 58.447 40.000 0.00 0.00 0.00 2.82
1394 1550 6.373495 GCATCTTATAGCATCACATCCAATGA 59.627 38.462 0.00 0.00 0.00 2.57
1395 1551 7.625817 GCATCTTATAGCATCACATCCAATGAC 60.626 40.741 0.00 0.00 0.00 3.06
1396 1552 7.071069 TCTTATAGCATCACATCCAATGACT 57.929 36.000 0.00 0.00 0.00 3.41
1397 1553 8.193953 TCTTATAGCATCACATCCAATGACTA 57.806 34.615 0.00 0.00 0.00 2.59
1398 1554 8.819845 TCTTATAGCATCACATCCAATGACTAT 58.180 33.333 0.00 0.00 32.32 2.12
1402 1558 9.797642 ATAGCATCACATCCAATGACTATAAAA 57.202 29.630 0.00 0.00 0.00 1.52
1403 1559 8.162878 AGCATCACATCCAATGACTATAAAAG 57.837 34.615 0.00 0.00 0.00 2.27
1404 1560 7.230108 AGCATCACATCCAATGACTATAAAAGG 59.770 37.037 0.00 0.00 0.00 3.11
1405 1561 7.013655 GCATCACATCCAATGACTATAAAAGGT 59.986 37.037 0.00 0.00 0.00 3.50
1406 1562 7.864108 TCACATCCAATGACTATAAAAGGTG 57.136 36.000 0.00 0.00 0.00 4.00
1407 1563 7.629157 TCACATCCAATGACTATAAAAGGTGA 58.371 34.615 0.00 0.00 0.00 4.02
1408 1564 8.106462 TCACATCCAATGACTATAAAAGGTGAA 58.894 33.333 0.00 0.00 0.00 3.18
1409 1565 8.906867 CACATCCAATGACTATAAAAGGTGAAT 58.093 33.333 0.00 0.00 0.00 2.57
1410 1566 8.906867 ACATCCAATGACTATAAAAGGTGAATG 58.093 33.333 0.00 0.00 0.00 2.67
1411 1567 9.123902 CATCCAATGACTATAAAAGGTGAATGA 57.876 33.333 0.00 0.00 0.00 2.57
1412 1568 8.737168 TCCAATGACTATAAAAGGTGAATGAG 57.263 34.615 0.00 0.00 0.00 2.90
1413 1569 8.548025 TCCAATGACTATAAAAGGTGAATGAGA 58.452 33.333 0.00 0.00 0.00 3.27
1414 1570 8.616076 CCAATGACTATAAAAGGTGAATGAGAC 58.384 37.037 0.00 0.00 0.00 3.36
1415 1571 8.616076 CAATGACTATAAAAGGTGAATGAGACC 58.384 37.037 0.00 0.00 0.00 3.85
1416 1572 7.252612 TGACTATAAAAGGTGAATGAGACCA 57.747 36.000 0.00 0.00 35.76 4.02
1417 1573 7.685481 TGACTATAAAAGGTGAATGAGACCAA 58.315 34.615 0.00 0.00 35.76 3.67
1418 1574 8.160765 TGACTATAAAAGGTGAATGAGACCAAA 58.839 33.333 0.00 0.00 35.76 3.28
1419 1575 9.178758 GACTATAAAAGGTGAATGAGACCAAAT 57.821 33.333 0.00 0.00 35.76 2.32
1420 1576 9.533831 ACTATAAAAGGTGAATGAGACCAAATT 57.466 29.630 0.00 0.00 35.76 1.82
1426 1582 9.927081 AAAGGTGAATGAGACCAAATTATATCT 57.073 29.630 0.00 0.00 35.76 1.98
1427 1583 9.566432 AAGGTGAATGAGACCAAATTATATCTC 57.434 33.333 0.00 6.03 38.46 2.75
1475 1631 7.441458 ACTGCTTCTTTGTAGTATCGAGTTTTT 59.559 33.333 0.00 0.00 31.35 1.94
1480 1636 4.476628 TGTAGTATCGAGTTTTTCCCCC 57.523 45.455 0.00 0.00 0.00 5.40
1497 1653 3.322466 CTTCGGCCCAGTCCCTGT 61.322 66.667 0.00 0.00 0.00 4.00
1542 1698 0.316607 CTCGCTTCCTCGATCGACAG 60.317 60.000 15.15 11.40 37.87 3.51
1583 1739 4.154195 AGTGAAGAAATGTACGGTGATTGC 59.846 41.667 0.00 0.00 0.00 3.56
1601 1757 7.365741 GTGATTGCAGATAGTAATGGGAATTG 58.634 38.462 0.00 0.00 32.33 2.32
1637 1793 4.081697 TGAGATTGATGCGTCTCCAAACTA 60.082 41.667 7.58 0.00 40.06 2.24
1676 1835 4.649674 TGTCCAACTAAGTCTCTGAACTGT 59.350 41.667 0.00 0.00 0.00 3.55
1693 1852 4.342862 ACTGTATACACTGGGATGATGC 57.657 45.455 0.08 0.00 0.00 3.91
1695 1854 2.069273 GTATACACTGGGATGATGCGC 58.931 52.381 0.00 0.00 0.00 6.09
1696 1855 0.601046 ATACACTGGGATGATGCGCG 60.601 55.000 0.00 0.00 0.00 6.86
1723 1882 3.070446 ACGGTACATGTCCAACTCTGAAA 59.930 43.478 0.00 0.00 0.00 2.69
1726 1885 4.330074 GGTACATGTCCAACTCTGAAATCG 59.670 45.833 0.00 0.00 0.00 3.34
1743 1902 6.394809 TGAAATCGCTGAACTGAATACACTA 58.605 36.000 0.00 0.00 0.00 2.74
1782 1941 9.612620 GACGATATTTGACAAGTTCTGAAAAAT 57.387 29.630 0.00 0.00 32.29 1.82
1843 2034 4.982916 GTCGCATGATAGTTCTTACCGAAT 59.017 41.667 0.00 0.00 33.45 3.34
1847 2038 8.182227 TCGCATGATAGTTCTTACCGAATATAG 58.818 37.037 0.00 0.00 33.45 1.31
1859 2050 8.879759 TCTTACCGAATATAGTCTTGCAAAAAG 58.120 33.333 0.00 0.00 0.00 2.27
1877 2068 7.894376 CAAAAAGTAATTTGCAGGATGTCAT 57.106 32.000 0.00 0.00 39.31 3.06
1890 2083 8.462589 TGCAGGATGTCATAATGCTATTTTTA 57.537 30.769 17.91 0.00 39.31 1.52
1942 2147 4.057428 AGCTCTCGTGTCGCCCAC 62.057 66.667 0.00 0.00 40.89 4.61
1951 2156 3.755628 GTCGCCCACCTCGTGCTA 61.756 66.667 0.00 0.00 31.34 3.49
1952 2157 3.755628 TCGCCCACCTCGTGCTAC 61.756 66.667 0.00 0.00 31.34 3.58
1963 2171 3.746492 ACCTCGTGCTACACATTTTCTTC 59.254 43.478 0.00 0.00 33.40 2.87
1965 2173 4.452455 CCTCGTGCTACACATTTTCTTCTT 59.548 41.667 0.00 0.00 33.40 2.52
1971 2179 6.205658 GTGCTACACATTTTCTTCTTCTCCTT 59.794 38.462 0.00 0.00 34.08 3.36
1987 2195 4.093011 TCTCCTTCTTCCTCTTCTCCTTG 58.907 47.826 0.00 0.00 0.00 3.61
2008 2216 2.607038 GGACCACTTTGGAATTCAACGC 60.607 50.000 7.93 0.00 40.96 4.84
2029 2237 1.606601 GGTTGGGCTTCTTGACCCC 60.607 63.158 0.00 0.00 45.70 4.95
2031 2239 3.936408 TGGGCTTCTTGACCCCAT 58.064 55.556 4.65 0.00 45.70 4.00
2038 2246 0.321564 TTCTTGACCCCATGAGCACG 60.322 55.000 0.00 0.00 0.00 5.34
2041 2249 2.184020 TTGACCCCATGAGCACGAGG 62.184 60.000 0.00 0.00 0.00 4.63
2042 2250 3.391665 GACCCCATGAGCACGAGGG 62.392 68.421 0.00 4.07 43.88 4.30
2053 2261 1.364626 GCACGAGGGAGAGCATTGTG 61.365 60.000 0.00 0.00 0.00 3.33
2054 2262 0.247460 CACGAGGGAGAGCATTGTGA 59.753 55.000 0.00 0.00 0.00 3.58
2068 2276 2.708216 TTGTGAGTGGTCTTGCTCAA 57.292 45.000 0.00 0.00 42.51 3.02
2115 2323 8.635328 CATTCAACATATCATTGAAGGGAATGA 58.365 33.333 14.13 0.00 46.33 2.57
2124 2332 6.070656 TCATTGAAGGGAATGAAGTGAAAGT 58.929 36.000 0.00 0.00 39.00 2.66
2126 2334 4.398319 TGAAGGGAATGAAGTGAAAGTCC 58.602 43.478 0.00 0.00 0.00 3.85
2136 2344 3.771577 AGTGAAAGTCCGGTCTTTGAT 57.228 42.857 27.73 12.51 37.70 2.57
2137 2345 3.403038 AGTGAAAGTCCGGTCTTTGATG 58.597 45.455 27.73 0.00 37.70 3.07
2139 2347 3.813166 GTGAAAGTCCGGTCTTTGATGAA 59.187 43.478 27.73 8.27 37.70 2.57
2142 2350 3.268023 AGTCCGGTCTTTGATGAATCC 57.732 47.619 0.00 0.00 0.00 3.01
2143 2351 1.933853 GTCCGGTCTTTGATGAATCCG 59.066 52.381 0.00 0.00 35.69 4.18
2144 2352 1.134521 TCCGGTCTTTGATGAATCCGG 60.135 52.381 13.30 13.30 46.64 5.14
2145 2353 2.309528 CGGTCTTTGATGAATCCGGA 57.690 50.000 6.61 6.61 33.78 5.14
2147 2355 2.609459 CGGTCTTTGATGAATCCGGAAG 59.391 50.000 9.01 0.00 33.78 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.614057 GCTCGGGGATGTTTTGAGTATG 59.386 50.000 0.00 0.00 0.00 2.39
1 2 2.505819 AGCTCGGGGATGTTTTGAGTAT 59.494 45.455 0.00 0.00 0.00 2.12
2 3 1.906574 AGCTCGGGGATGTTTTGAGTA 59.093 47.619 0.00 0.00 0.00 2.59
36 37 1.947456 GTTCGGTGGAGCTTGAAGTTT 59.053 47.619 0.00 0.00 0.00 2.66
61 62 2.237143 ACTCCACAACACCATCGATCAT 59.763 45.455 0.00 0.00 0.00 2.45
72 73 1.227823 CCTCGCCAACTCCACAACA 60.228 57.895 0.00 0.00 0.00 3.33
122 123 0.040067 GCTTTTGGTTGGAGCGTGAG 60.040 55.000 0.00 0.00 0.00 3.51
124 125 0.318107 CTGCTTTTGGTTGGAGCGTG 60.318 55.000 0.00 0.00 39.23 5.34
180 181 2.242965 TGGATGGGTTCGAGGAGTAGTA 59.757 50.000 0.00 0.00 0.00 1.82
289 294 1.181098 ACGTGGTTGGTAGTACGGCT 61.181 55.000 0.00 0.00 40.56 5.52
350 365 2.100584 TGGTTGATTGCTGGTGACAAAC 59.899 45.455 0.00 0.00 42.06 2.93
371 391 3.650950 AACGCATCCAGCCAGGGT 61.651 61.111 0.00 0.00 41.38 4.34
372 392 3.136123 CAACGCATCCAGCCAGGG 61.136 66.667 0.00 0.00 41.38 4.45
373 393 1.926511 GAACAACGCATCCAGCCAGG 61.927 60.000 0.00 0.00 41.38 4.45
446 480 4.141914 CGTTAGGTAGGGCTGAAGAATCTT 60.142 45.833 0.00 0.00 0.00 2.40
501 537 4.303086 TCTATCGTTAGTGCTAAGTGGC 57.697 45.455 0.63 0.00 0.00 5.01
629 671 1.806542 ACTGCACAAACGATGACCATC 59.193 47.619 0.00 0.04 34.56 3.51
630 672 1.896220 ACTGCACAAACGATGACCAT 58.104 45.000 0.00 0.00 0.00 3.55
633 675 2.476185 GCCATACTGCACAAACGATGAC 60.476 50.000 0.00 0.00 0.00 3.06
635 677 1.202177 GGCCATACTGCACAAACGATG 60.202 52.381 0.00 0.00 0.00 3.84
636 678 1.094785 GGCCATACTGCACAAACGAT 58.905 50.000 0.00 0.00 0.00 3.73
637 679 0.036164 AGGCCATACTGCACAAACGA 59.964 50.000 5.01 0.00 0.00 3.85
638 680 0.881118 AAGGCCATACTGCACAAACG 59.119 50.000 5.01 0.00 0.00 3.60
639 681 3.669557 CGTTAAGGCCATACTGCACAAAC 60.670 47.826 5.01 0.00 0.00 2.93
640 682 2.486203 CGTTAAGGCCATACTGCACAAA 59.514 45.455 5.01 0.00 0.00 2.83
643 685 1.014352 CCGTTAAGGCCATACTGCAC 58.986 55.000 5.01 0.00 0.00 4.57
644 686 0.906066 TCCGTTAAGGCCATACTGCA 59.094 50.000 5.01 0.00 40.77 4.41
645 687 1.873591 CATCCGTTAAGGCCATACTGC 59.126 52.381 5.01 0.00 40.77 4.40
647 689 1.768870 AGCATCCGTTAAGGCCATACT 59.231 47.619 5.01 0.00 40.77 2.12
690 740 1.032657 GGCTCTCGGCTCTCACTGTA 61.033 60.000 0.00 0.00 41.46 2.74
692 742 2.493973 GGCTCTCGGCTCTCACTG 59.506 66.667 0.00 0.00 41.46 3.66
704 754 0.540830 ACTTGTCACTCTCGGGCTCT 60.541 55.000 0.00 0.00 0.00 4.09
705 755 0.389166 CACTTGTCACTCTCGGGCTC 60.389 60.000 0.00 0.00 0.00 4.70
706 756 0.827925 TCACTTGTCACTCTCGGGCT 60.828 55.000 0.00 0.00 0.00 5.19
707 757 0.667792 GTCACTTGTCACTCTCGGGC 60.668 60.000 0.00 0.00 0.00 6.13
708 758 0.962489 AGTCACTTGTCACTCTCGGG 59.038 55.000 0.00 0.00 0.00 5.14
744 805 3.056821 GTGTGGGGTAAAATTTGCTCCTC 60.057 47.826 13.70 10.57 36.76 3.71
829 912 3.280775 GTTAATTAGATTGCGCGTGCTC 58.719 45.455 23.16 12.35 43.34 4.26
919 1010 1.743252 GTTGCTGAGGAAGGCGAGG 60.743 63.158 0.00 0.00 0.00 4.63
926 1017 0.106769 TGGCTTGTGTTGCTGAGGAA 60.107 50.000 0.00 0.00 0.00 3.36
930 1021 2.186160 CGGTGGCTTGTGTTGCTGA 61.186 57.895 0.00 0.00 0.00 4.26
951 1048 0.102120 CTCTCCGCGCTTGAGATTCT 59.898 55.000 21.89 0.00 38.16 2.40
978 1076 0.321122 CTCCGCTCTTCCTTGCTTGT 60.321 55.000 0.00 0.00 0.00 3.16
979 1077 1.642952 GCTCCGCTCTTCCTTGCTTG 61.643 60.000 0.00 0.00 0.00 4.01
980 1078 1.376553 GCTCCGCTCTTCCTTGCTT 60.377 57.895 0.00 0.00 0.00 3.91
981 1079 2.116983 TTGCTCCGCTCTTCCTTGCT 62.117 55.000 0.00 0.00 0.00 3.91
982 1080 1.028868 ATTGCTCCGCTCTTCCTTGC 61.029 55.000 0.00 0.00 0.00 4.01
983 1081 0.731417 CATTGCTCCGCTCTTCCTTG 59.269 55.000 0.00 0.00 0.00 3.61
984 1082 0.393537 CCATTGCTCCGCTCTTCCTT 60.394 55.000 0.00 0.00 0.00 3.36
993 1116 1.227263 CCCGTACTCCATTGCTCCG 60.227 63.158 0.00 0.00 0.00 4.63
1033 1162 1.301677 GGCCTCTTCTCCTTGTTGCG 61.302 60.000 0.00 0.00 0.00 4.85
1153 1282 1.378250 GGCTGAGTGGCTGCTCAAT 60.378 57.895 12.01 0.00 43.92 2.57
1238 1391 2.559998 AACAACTTGTTCAACCTGCG 57.440 45.000 1.00 0.00 35.27 5.18
1269 1425 2.054799 AGGTACTCCCACAAAGAAGCA 58.945 47.619 0.00 0.00 34.66 3.91
1270 1426 2.861147 AGGTACTCCCACAAAGAAGC 57.139 50.000 0.00 0.00 34.66 3.86
1271 1427 5.246429 AGTTCTAGGTACTCCCACAAAGAAG 59.754 44.000 0.00 0.00 41.75 2.85
1272 1428 5.152934 AGTTCTAGGTACTCCCACAAAGAA 58.847 41.667 0.00 0.00 41.75 2.52
1273 1429 4.748701 AGTTCTAGGTACTCCCACAAAGA 58.251 43.478 0.00 0.00 41.75 2.52
1274 1430 5.485209 AAGTTCTAGGTACTCCCACAAAG 57.515 43.478 0.00 0.00 41.75 2.77
1275 1431 6.958192 AGATAAGTTCTAGGTACTCCCACAAA 59.042 38.462 0.00 0.00 41.75 2.83
1276 1432 6.500336 AGATAAGTTCTAGGTACTCCCACAA 58.500 40.000 0.00 0.00 41.75 3.33
1277 1433 6.088541 AGATAAGTTCTAGGTACTCCCACA 57.911 41.667 0.00 0.00 41.75 4.17
1279 1435 8.164733 CATCTAGATAAGTTCTAGGTACTCCCA 58.835 40.741 4.54 0.00 44.99 4.37
1280 1436 8.384718 TCATCTAGATAAGTTCTAGGTACTCCC 58.615 40.741 4.54 0.00 44.99 4.30
1281 1437 9.444600 CTCATCTAGATAAGTTCTAGGTACTCC 57.555 40.741 4.54 0.00 44.99 3.85
1312 1468 9.393512 TGTTTTCAAAATGAATGAGACCAAATT 57.606 25.926 0.00 0.00 36.11 1.82
1313 1469 8.961294 TGTTTTCAAAATGAATGAGACCAAAT 57.039 26.923 0.00 0.00 36.11 2.32
1314 1470 8.783833 TTGTTTTCAAAATGAATGAGACCAAA 57.216 26.923 0.00 0.00 36.11 3.28
1315 1471 8.256605 TCTTGTTTTCAAAATGAATGAGACCAA 58.743 29.630 0.00 0.00 39.47 3.67
1316 1472 7.780064 TCTTGTTTTCAAAATGAATGAGACCA 58.220 30.769 0.00 0.00 39.47 4.02
1317 1473 8.542953 GTTCTTGTTTTCAAAATGAATGAGACC 58.457 33.333 0.00 0.00 39.47 3.85
1318 1474 9.086336 TGTTCTTGTTTTCAAAATGAATGAGAC 57.914 29.630 0.00 0.00 39.47 3.36
1319 1475 9.304731 CTGTTCTTGTTTTCAAAATGAATGAGA 57.695 29.630 0.00 0.00 39.47 3.27
1320 1476 9.304731 TCTGTTCTTGTTTTCAAAATGAATGAG 57.695 29.630 0.00 0.00 39.47 2.90
1321 1477 9.820725 ATCTGTTCTTGTTTTCAAAATGAATGA 57.179 25.926 0.00 0.00 39.47 2.57
1328 1484 9.567848 GAGTTGTATCTGTTCTTGTTTTCAAAA 57.432 29.630 0.00 0.00 39.47 2.44
1329 1485 8.735315 TGAGTTGTATCTGTTCTTGTTTTCAAA 58.265 29.630 0.00 0.00 39.47 2.69
1330 1486 8.181573 GTGAGTTGTATCTGTTCTTGTTTTCAA 58.818 33.333 0.00 0.00 38.21 2.69
1331 1487 7.465379 CGTGAGTTGTATCTGTTCTTGTTTTCA 60.465 37.037 0.00 0.00 0.00 2.69
1332 1488 6.846283 CGTGAGTTGTATCTGTTCTTGTTTTC 59.154 38.462 0.00 0.00 0.00 2.29
1333 1489 6.315393 ACGTGAGTTGTATCTGTTCTTGTTTT 59.685 34.615 0.00 0.00 46.40 2.43
1334 1490 5.815740 ACGTGAGTTGTATCTGTTCTTGTTT 59.184 36.000 0.00 0.00 46.40 2.83
1335 1491 5.357257 ACGTGAGTTGTATCTGTTCTTGTT 58.643 37.500 0.00 0.00 46.40 2.83
1336 1492 4.945246 ACGTGAGTTGTATCTGTTCTTGT 58.055 39.130 0.00 0.00 46.40 3.16
1352 1508 2.932083 GCGTGTGTGCTGACGTGAG 61.932 63.158 0.00 0.00 37.89 3.51
1353 1509 2.959599 GCGTGTGTGCTGACGTGA 60.960 61.111 0.00 0.00 37.89 4.35
1354 1510 2.484631 GATGCGTGTGTGCTGACGTG 62.485 60.000 0.00 0.00 37.89 4.49
1355 1511 2.280119 ATGCGTGTGTGCTGACGT 60.280 55.556 0.00 0.00 37.89 4.34
1356 1512 1.560004 AAGATGCGTGTGTGCTGACG 61.560 55.000 0.00 0.00 38.63 4.35
1357 1513 1.428448 TAAGATGCGTGTGTGCTGAC 58.572 50.000 0.00 0.00 35.36 3.51
1358 1514 2.385013 ATAAGATGCGTGTGTGCTGA 57.615 45.000 0.00 0.00 35.36 4.26
1359 1515 2.033407 GCTATAAGATGCGTGTGTGCTG 60.033 50.000 0.00 0.00 35.36 4.41
1360 1516 2.205074 GCTATAAGATGCGTGTGTGCT 58.795 47.619 0.00 0.00 35.36 4.40
1361 1517 1.933181 TGCTATAAGATGCGTGTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
1362 1518 3.803778 TGATGCTATAAGATGCGTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
1363 1519 3.804325 GTGATGCTATAAGATGCGTGTGT 59.196 43.478 0.00 0.00 0.00 3.72
1364 1520 3.803778 TGTGATGCTATAAGATGCGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
1365 1521 4.058721 TGTGATGCTATAAGATGCGTGT 57.941 40.909 0.00 0.00 0.00 4.49
1366 1522 4.092529 GGATGTGATGCTATAAGATGCGTG 59.907 45.833 0.00 0.00 0.00 5.34
1367 1523 4.248859 GGATGTGATGCTATAAGATGCGT 58.751 43.478 0.00 0.00 0.00 5.24
1368 1524 4.248058 TGGATGTGATGCTATAAGATGCG 58.752 43.478 0.00 0.00 0.00 4.73
1369 1525 6.373495 TCATTGGATGTGATGCTATAAGATGC 59.627 38.462 0.00 0.00 0.00 3.91
1370 1526 7.606839 AGTCATTGGATGTGATGCTATAAGATG 59.393 37.037 0.00 0.00 0.00 2.90
1371 1527 7.687388 AGTCATTGGATGTGATGCTATAAGAT 58.313 34.615 0.00 0.00 0.00 2.40
1372 1528 7.071069 AGTCATTGGATGTGATGCTATAAGA 57.929 36.000 0.00 0.00 0.00 2.10
1376 1532 9.797642 TTTTATAGTCATTGGATGTGATGCTAT 57.202 29.630 0.00 0.00 32.56 2.97
1377 1533 9.276590 CTTTTATAGTCATTGGATGTGATGCTA 57.723 33.333 0.00 0.00 0.00 3.49
1378 1534 7.230108 CCTTTTATAGTCATTGGATGTGATGCT 59.770 37.037 0.00 0.00 0.00 3.79
1379 1535 7.013655 ACCTTTTATAGTCATTGGATGTGATGC 59.986 37.037 0.00 0.00 0.00 3.91
1380 1536 8.347771 CACCTTTTATAGTCATTGGATGTGATG 58.652 37.037 0.00 0.00 0.00 3.07
1381 1537 8.274322 TCACCTTTTATAGTCATTGGATGTGAT 58.726 33.333 0.00 0.00 0.00 3.06
1382 1538 7.629157 TCACCTTTTATAGTCATTGGATGTGA 58.371 34.615 0.00 0.00 0.00 3.58
1383 1539 7.864108 TCACCTTTTATAGTCATTGGATGTG 57.136 36.000 0.00 0.00 0.00 3.21
1384 1540 8.906867 CATTCACCTTTTATAGTCATTGGATGT 58.093 33.333 0.00 0.00 0.00 3.06
1385 1541 9.123902 TCATTCACCTTTTATAGTCATTGGATG 57.876 33.333 0.00 0.00 0.00 3.51
1386 1542 9.347240 CTCATTCACCTTTTATAGTCATTGGAT 57.653 33.333 0.00 0.00 0.00 3.41
1387 1543 8.548025 TCTCATTCACCTTTTATAGTCATTGGA 58.452 33.333 0.00 0.00 0.00 3.53
1388 1544 8.616076 GTCTCATTCACCTTTTATAGTCATTGG 58.384 37.037 0.00 0.00 0.00 3.16
1389 1545 8.616076 GGTCTCATTCACCTTTTATAGTCATTG 58.384 37.037 0.00 0.00 0.00 2.82
1390 1546 8.328758 TGGTCTCATTCACCTTTTATAGTCATT 58.671 33.333 0.00 0.00 34.66 2.57
1391 1547 7.861629 TGGTCTCATTCACCTTTTATAGTCAT 58.138 34.615 0.00 0.00 34.66 3.06
1392 1548 7.252612 TGGTCTCATTCACCTTTTATAGTCA 57.747 36.000 0.00 0.00 34.66 3.41
1393 1549 8.561738 TTTGGTCTCATTCACCTTTTATAGTC 57.438 34.615 0.00 0.00 34.66 2.59
1394 1550 9.533831 AATTTGGTCTCATTCACCTTTTATAGT 57.466 29.630 0.00 0.00 34.66 2.12
1400 1556 9.927081 AGATATAATTTGGTCTCATTCACCTTT 57.073 29.630 0.00 0.00 34.66 3.11
1401 1557 9.566432 GAGATATAATTTGGTCTCATTCACCTT 57.434 33.333 8.11 0.00 37.60 3.50
1402 1558 8.717717 TGAGATATAATTTGGTCTCATTCACCT 58.282 33.333 10.50 0.00 41.40 4.00
1403 1559 8.908786 TGAGATATAATTTGGTCTCATTCACC 57.091 34.615 10.50 0.00 41.40 4.02
1426 1582 8.939929 CAGTTTTGCTAGAACTCATCTAAATGA 58.060 33.333 0.00 0.00 40.12 2.57
1427 1583 7.695618 GCAGTTTTGCTAGAACTCATCTAAATG 59.304 37.037 0.00 0.00 46.95 2.32
1428 1584 7.756558 GCAGTTTTGCTAGAACTCATCTAAAT 58.243 34.615 0.00 0.00 46.95 1.40
1429 1585 7.133891 GCAGTTTTGCTAGAACTCATCTAAA 57.866 36.000 0.00 0.00 46.95 1.85
1430 1586 6.727824 GCAGTTTTGCTAGAACTCATCTAA 57.272 37.500 0.00 0.00 46.95 2.10
1445 1601 7.095607 ACTCGATACTACAAAGAAGCAGTTTTG 60.096 37.037 5.59 5.59 39.55 2.44
1446 1602 6.929606 ACTCGATACTACAAAGAAGCAGTTTT 59.070 34.615 0.00 0.00 0.00 2.43
1447 1603 6.456501 ACTCGATACTACAAAGAAGCAGTTT 58.543 36.000 0.00 0.00 0.00 2.66
1448 1604 6.026947 ACTCGATACTACAAAGAAGCAGTT 57.973 37.500 0.00 0.00 0.00 3.16
1449 1605 5.646577 ACTCGATACTACAAAGAAGCAGT 57.353 39.130 0.00 0.00 0.00 4.40
1450 1606 6.952935 AAACTCGATACTACAAAGAAGCAG 57.047 37.500 0.00 0.00 0.00 4.24
1497 1653 2.192861 CGGCAAACCTCAAGGCACA 61.193 57.895 0.00 0.00 39.32 4.57
1583 1739 6.769822 AGAACTGCAATTCCCATTACTATCTG 59.230 38.462 3.90 0.00 0.00 2.90
1601 1757 5.504337 GCATCAATCTCAGAATCAGAACTGC 60.504 44.000 0.00 0.00 34.57 4.40
1676 1835 1.336795 CGCGCATCATCCCAGTGTATA 60.337 52.381 8.75 0.00 0.00 1.47
1723 1882 4.645136 TCCTAGTGTATTCAGTTCAGCGAT 59.355 41.667 0.00 0.00 0.00 4.58
1726 1885 5.907207 TCATCCTAGTGTATTCAGTTCAGC 58.093 41.667 0.00 0.00 0.00 4.26
1743 1902 1.328279 TATCGTCCGCACATCATCCT 58.672 50.000 0.00 0.00 0.00 3.24
1794 1954 1.079127 CTGTCCGGTACCTTGCCTG 60.079 63.158 10.90 0.00 0.00 4.85
1799 1959 2.174360 GAGGTTACTGTCCGGTACCTT 58.826 52.381 10.90 0.00 0.00 3.50
1859 2050 6.742109 AGCATTATGACATCCTGCAAATTAC 58.258 36.000 18.93 0.00 35.32 1.89
1942 2147 3.997021 AGAAGAAAATGTGTAGCACGAGG 59.003 43.478 0.00 0.00 37.14 4.63
1950 2155 7.661847 GGAAGAAGGAGAAGAAGAAAATGTGTA 59.338 37.037 0.00 0.00 0.00 2.90
1951 2156 6.488344 GGAAGAAGGAGAAGAAGAAAATGTGT 59.512 38.462 0.00 0.00 0.00 3.72
1952 2157 6.714356 AGGAAGAAGGAGAAGAAGAAAATGTG 59.286 38.462 0.00 0.00 0.00 3.21
1963 2171 4.352893 AGGAGAAGAGGAAGAAGGAGAAG 58.647 47.826 0.00 0.00 0.00 2.85
1965 2173 4.093011 CAAGGAGAAGAGGAAGAAGGAGA 58.907 47.826 0.00 0.00 0.00 3.71
1971 2179 2.158158 TGGTCCAAGGAGAAGAGGAAGA 60.158 50.000 0.00 0.00 0.00 2.87
1987 2195 2.607038 GCGTTGAATTCCAAAGTGGTCC 60.607 50.000 2.27 0.00 39.03 4.46
2008 2216 0.961753 GGTCAAGAAGCCCAACCTTG 59.038 55.000 0.00 0.00 38.79 3.61
2029 2237 1.227205 GCTCTCCCTCGTGCTCATG 60.227 63.158 0.00 0.00 0.00 3.07
2031 2239 1.260538 AATGCTCTCCCTCGTGCTCA 61.261 55.000 0.00 0.00 0.00 4.26
2038 2246 1.406614 CCACTCACAATGCTCTCCCTC 60.407 57.143 0.00 0.00 0.00 4.30
2041 2249 1.277557 AGACCACTCACAATGCTCTCC 59.722 52.381 0.00 0.00 0.00 3.71
2042 2250 2.740981 CAAGACCACTCACAATGCTCTC 59.259 50.000 0.00 0.00 0.00 3.20
2073 2281 7.748691 TGTTGAATGACTTCATCTTCATGAA 57.251 32.000 8.12 8.12 45.20 2.57
2074 2282 7.933215 ATGTTGAATGACTTCATCTTCATGA 57.067 32.000 0.00 0.00 40.95 3.07
2098 2306 7.890127 ACTTTCACTTCATTCCCTTCAATGATA 59.110 33.333 0.00 0.00 41.42 2.15
2102 2310 5.478332 GGACTTTCACTTCATTCCCTTCAAT 59.522 40.000 0.00 0.00 0.00 2.57
2115 2323 3.553828 TCAAAGACCGGACTTTCACTT 57.446 42.857 25.78 5.52 37.91 3.16
2124 2332 2.309528 CGGATTCATCAAAGACCGGA 57.690 50.000 9.46 0.00 37.21 5.14
2126 2334 2.309528 TCCGGATTCATCAAAGACCG 57.690 50.000 0.00 0.00 39.14 4.79


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

AutoCloner maintained by Alex Coulton.