Multiple sequence alignment - TraesCS4B01G295600

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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 TraesCS4B01G295600 chr4B 100.000 2363 0 0 1 2363 581155226 581152864 0.000000e+00 4364.0
1 TraesCS4B01G295600 chr4B 81.916 1399 243 9 2 1397 96444469 96443078 0.000000e+00 1173.0
2 TraesCS4B01G295600 chr4B 91.162 611 52 2 1753 2363 67923560 67922952 0.000000e+00 828.0
3 TraesCS4B01G295600 chr4B 90.835 611 54 1 1753 2363 436251437 436250829 0.000000e+00 817.0
4 TraesCS4B01G295600 chr5A 99.571 1399 5 1 1 1399 700353231 700351834 0.000000e+00 2549.0
5 TraesCS4B01G295600 chr2B 99.357 1399 9 0 1 1399 712834669 712836067 0.000000e+00 2534.0
6 TraesCS4B01G295600 chr2B 90.998 611 53 1 1753 2363 651133974 651134582 0.000000e+00 822.0
7 TraesCS4B01G295600 chr2B 72.492 618 162 8 2 615 135779122 135779735 2.400000e-45 193.0
8 TraesCS4B01G295600 chr3A 99.142 1399 12 0 1 1399 714546470 714547868 0.000000e+00 2518.0
9 TraesCS4B01G295600 chr2D 98.634 952 13 0 448 1399 91223041 91222090 0.000000e+00 1687.0
10 TraesCS4B01G295600 chrUn 99.455 917 5 0 470 1386 460081766 460080850 0.000000e+00 1666.0
11 TraesCS4B01G295600 chr5B 99.346 765 5 0 1 765 267883290 267882526 0.000000e+00 1386.0
12 TraesCS4B01G295600 chr5B 91.461 609 50 1 1753 2361 614364919 614364313 0.000000e+00 835.0
13 TraesCS4B01G295600 chr5B 90.998 611 53 1 1753 2363 356688446 356687838 0.000000e+00 822.0
14 TraesCS4B01G295600 chr5B 90.850 612 53 2 1752 2363 403154921 403154313 0.000000e+00 817.0
15 TraesCS4B01G295600 chr5B 90.850 612 51 4 1753 2363 699242907 699242300 0.000000e+00 815.0
16 TraesCS4B01G295600 chr2A 99.346 765 5 0 1 765 756810386 756809622 0.000000e+00 1386.0
17 TraesCS4B01G295600 chr2A 81.429 1400 245 15 2 1397 768252747 768251359 0.000000e+00 1131.0
18 TraesCS4B01G295600 chr4A 81.085 1401 252 13 2 1398 523355989 523357380 0.000000e+00 1107.0
19 TraesCS4B01G295600 chr4A 89.860 286 26 3 1471 1754 5542369 5542653 4.800000e-97 364.0
20 TraesCS4B01G295600 chr1A 99.665 597 2 0 803 1399 488243371 488242775 0.000000e+00 1092.0
21 TraesCS4B01G295600 chr7B 91.326 611 50 2 1753 2363 526845738 526846345 0.000000e+00 832.0
22 TraesCS4B01G295600 chr6B 90.671 611 55 1 1753 2363 705177030 705177638 0.000000e+00 811.0
23 TraesCS4B01G295600 chr4D 89.535 172 14 4 1584 1754 464749657 464749489 5.120000e-52 215.0
24 TraesCS4B01G295600 chr4D 94.286 140 6 2 1396 1534 464750354 464750216 1.840000e-51 213.0
25 TraesCS4B01G295600 chr4D 94.444 54 3 0 1533 1586 464749978 464749925 1.500000e-12 84.2


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 TraesCS4B01G295600 chr4B 581152864 581155226 2362 True 4364 4364 100.000 1 2363 1 chr4B.!!$R4 2362
1 TraesCS4B01G295600 chr4B 96443078 96444469 1391 True 1173 1173 81.916 2 1397 1 chr4B.!!$R2 1395
2 TraesCS4B01G295600 chr4B 67922952 67923560 608 True 828 828 91.162 1753 2363 1 chr4B.!!$R1 610
3 TraesCS4B01G295600 chr4B 436250829 436251437 608 True 817 817 90.835 1753 2363 1 chr4B.!!$R3 610
4 TraesCS4B01G295600 chr5A 700351834 700353231 1397 True 2549 2549 99.571 1 1399 1 chr5A.!!$R1 1398
5 TraesCS4B01G295600 chr2B 712834669 712836067 1398 False 2534 2534 99.357 1 1399 1 chr2B.!!$F3 1398
6 TraesCS4B01G295600 chr2B 651133974 651134582 608 False 822 822 90.998 1753 2363 1 chr2B.!!$F2 610
7 TraesCS4B01G295600 chr3A 714546470 714547868 1398 False 2518 2518 99.142 1 1399 1 chr3A.!!$F1 1398
8 TraesCS4B01G295600 chr2D 91222090 91223041 951 True 1687 1687 98.634 448 1399 1 chr2D.!!$R1 951
9 TraesCS4B01G295600 chrUn 460080850 460081766 916 True 1666 1666 99.455 470 1386 1 chrUn.!!$R1 916
10 TraesCS4B01G295600 chr5B 267882526 267883290 764 True 1386 1386 99.346 1 765 1 chr5B.!!$R1 764
11 TraesCS4B01G295600 chr5B 614364313 614364919 606 True 835 835 91.461 1753 2361 1 chr5B.!!$R4 608
12 TraesCS4B01G295600 chr5B 356687838 356688446 608 True 822 822 90.998 1753 2363 1 chr5B.!!$R2 610
13 TraesCS4B01G295600 chr5B 403154313 403154921 608 True 817 817 90.850 1752 2363 1 chr5B.!!$R3 611
14 TraesCS4B01G295600 chr5B 699242300 699242907 607 True 815 815 90.850 1753 2363 1 chr5B.!!$R5 610
15 TraesCS4B01G295600 chr2A 756809622 756810386 764 True 1386 1386 99.346 1 765 1 chr2A.!!$R1 764
16 TraesCS4B01G295600 chr2A 768251359 768252747 1388 True 1131 1131 81.429 2 1397 1 chr2A.!!$R2 1395
17 TraesCS4B01G295600 chr4A 523355989 523357380 1391 False 1107 1107 81.085 2 1398 1 chr4A.!!$F2 1396
18 TraesCS4B01G295600 chr1A 488242775 488243371 596 True 1092 1092 99.665 803 1399 1 chr1A.!!$R1 596
19 TraesCS4B01G295600 chr7B 526845738 526846345 607 False 832 832 91.326 1753 2363 1 chr7B.!!$F1 610
20 TraesCS4B01G295600 chr6B 705177030 705177638 608 False 811 811 90.671 1753 2363 1 chr6B.!!$F1 610

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
985 986 1.219124 GCTGTAGCTGCAGGTGCTA 59.781 57.895 29.65 17.26 41.46 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2047 2052 0.030369 GAGTTCGATGGCGTATCCGT 59.97 55.0 0.0 0.0 38.98 4.69 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
256 257 2.109425 TCATCTCGAGGACTTCACGA 57.891 50.000 13.56 0.00 34.90 4.35
765 766 2.314549 AGGGAAGGCCATTAAACCATCA 59.685 45.455 5.01 0.00 35.15 3.07
985 986 1.219124 GCTGTAGCTGCAGGTGCTA 59.781 57.895 29.65 17.26 41.46 3.49
1420 1423 2.281761 CCTGTTGGGCGCTGACTT 60.282 61.111 7.64 0.00 0.00 3.01
1421 1424 2.328099 CCTGTTGGGCGCTGACTTC 61.328 63.158 7.64 0.00 0.00 3.01
1422 1425 1.597854 CTGTTGGGCGCTGACTTCA 60.598 57.895 7.64 0.00 0.00 3.02
1423 1426 1.572085 CTGTTGGGCGCTGACTTCAG 61.572 60.000 7.64 1.56 46.40 3.02
1424 1427 1.301716 GTTGGGCGCTGACTTCAGA 60.302 57.895 7.64 0.00 46.59 3.27
1425 1428 0.884704 GTTGGGCGCTGACTTCAGAA 60.885 55.000 7.64 0.00 46.59 3.02
1426 1429 0.603707 TTGGGCGCTGACTTCAGAAG 60.604 55.000 7.64 8.77 46.59 2.85
1427 1430 1.293498 GGGCGCTGACTTCAGAAGA 59.707 57.895 17.56 0.00 46.59 2.87
1428 1431 0.320771 GGGCGCTGACTTCAGAAGAA 60.321 55.000 17.56 3.85 46.59 2.52
1439 1442 3.737850 CTTCAGAAGAAGTGGCAGAACT 58.262 45.455 3.82 0.00 44.97 3.01
1440 1443 3.117491 TCAGAAGAAGTGGCAGAACTG 57.883 47.619 0.00 0.00 0.00 3.16
1441 1444 2.149578 CAGAAGAAGTGGCAGAACTGG 58.850 52.381 3.99 0.00 0.00 4.00
1442 1445 1.771255 AGAAGAAGTGGCAGAACTGGT 59.229 47.619 3.99 0.00 0.00 4.00
1443 1446 1.876156 GAAGAAGTGGCAGAACTGGTG 59.124 52.381 3.99 0.00 0.00 4.17
1444 1447 0.109342 AGAAGTGGCAGAACTGGTGG 59.891 55.000 3.99 0.00 0.00 4.61
1445 1448 1.518903 GAAGTGGCAGAACTGGTGGC 61.519 60.000 3.99 0.00 40.81 5.01
1446 1449 1.999634 AAGTGGCAGAACTGGTGGCT 62.000 55.000 3.99 0.00 41.01 4.75
1447 1450 2.113774 TGGCAGAACTGGTGGCTG 59.886 61.111 3.99 0.00 41.01 4.85
1448 1451 2.113986 GGCAGAACTGGTGGCTGT 59.886 61.111 3.99 0.00 37.50 4.40
1449 1452 1.968540 GGCAGAACTGGTGGCTGTC 60.969 63.158 3.99 0.00 37.50 3.51
1450 1453 1.072159 GCAGAACTGGTGGCTGTCT 59.928 57.895 3.99 0.00 32.39 3.41
1451 1454 0.952984 GCAGAACTGGTGGCTGTCTC 60.953 60.000 3.99 0.00 32.39 3.36
1452 1455 0.683973 CAGAACTGGTGGCTGTCTCT 59.316 55.000 0.00 0.00 0.00 3.10
1453 1456 1.895798 CAGAACTGGTGGCTGTCTCTA 59.104 52.381 0.00 0.00 0.00 2.43
1454 1457 1.896465 AGAACTGGTGGCTGTCTCTAC 59.104 52.381 0.00 0.00 0.00 2.59
1455 1458 1.618837 GAACTGGTGGCTGTCTCTACA 59.381 52.381 0.00 0.00 0.00 2.74
1468 1471 2.859526 CTCTACAGAGAGCGATGCAA 57.140 50.000 0.00 0.00 42.86 4.08
1469 1472 3.156511 CTCTACAGAGAGCGATGCAAA 57.843 47.619 0.00 0.00 42.86 3.68
1470 1473 3.515630 CTCTACAGAGAGCGATGCAAAA 58.484 45.455 0.00 0.00 42.86 2.44
1471 1474 3.925379 TCTACAGAGAGCGATGCAAAAA 58.075 40.909 0.00 0.00 0.00 1.94
1489 1492 4.937201 AAAAAGGGCACTAGGTTTTGAG 57.063 40.909 0.00 0.00 0.00 3.02
1490 1493 3.876309 AAAGGGCACTAGGTTTTGAGA 57.124 42.857 0.00 0.00 0.00 3.27
1491 1494 3.876309 AAGGGCACTAGGTTTTGAGAA 57.124 42.857 0.00 0.00 0.00 2.87
1492 1495 3.876309 AGGGCACTAGGTTTTGAGAAA 57.124 42.857 0.00 0.00 0.00 2.52
1493 1496 3.756117 AGGGCACTAGGTTTTGAGAAAG 58.244 45.455 0.00 0.00 0.00 2.62
1494 1497 3.138468 AGGGCACTAGGTTTTGAGAAAGT 59.862 43.478 0.00 0.00 0.00 2.66
1495 1498 4.349930 AGGGCACTAGGTTTTGAGAAAGTA 59.650 41.667 0.00 0.00 0.00 2.24
1496 1499 4.454847 GGGCACTAGGTTTTGAGAAAGTAC 59.545 45.833 0.00 0.00 0.00 2.73
1497 1500 5.061179 GGCACTAGGTTTTGAGAAAGTACA 58.939 41.667 0.00 0.00 0.00 2.90
1498 1501 5.705905 GGCACTAGGTTTTGAGAAAGTACAT 59.294 40.000 0.00 0.00 0.00 2.29
1499 1502 6.877322 GGCACTAGGTTTTGAGAAAGTACATA 59.123 38.462 0.00 0.00 0.00 2.29
1500 1503 7.389607 GGCACTAGGTTTTGAGAAAGTACATAA 59.610 37.037 0.00 0.00 0.00 1.90
1501 1504 8.780249 GCACTAGGTTTTGAGAAAGTACATAAA 58.220 33.333 0.00 0.00 0.00 1.40
1517 1520 9.449719 AAGTACATAAAATAGTGTAAGCAAGCT 57.550 29.630 0.00 0.00 33.05 3.74
1570 1573 9.974980 ACTTAGTTAAAAGAGAGTGAAGAGAAG 57.025 33.333 0.00 0.00 0.00 2.85
1571 1574 8.819643 TTAGTTAAAAGAGAGTGAAGAGAAGC 57.180 34.615 0.00 0.00 0.00 3.86
1572 1575 6.821388 AGTTAAAAGAGAGTGAAGAGAAGCA 58.179 36.000 0.00 0.00 0.00 3.91
1573 1576 6.928492 AGTTAAAAGAGAGTGAAGAGAAGCAG 59.072 38.462 0.00 0.00 0.00 4.24
1574 1577 3.959535 AAGAGAGTGAAGAGAAGCAGG 57.040 47.619 0.00 0.00 0.00 4.85
1575 1578 2.888212 AGAGAGTGAAGAGAAGCAGGT 58.112 47.619 0.00 0.00 0.00 4.00
1576 1579 3.238597 AGAGAGTGAAGAGAAGCAGGTT 58.761 45.455 0.00 0.00 0.00 3.50
1577 1580 3.006752 AGAGAGTGAAGAGAAGCAGGTTG 59.993 47.826 0.00 0.00 0.00 3.77
1578 1581 2.703007 AGAGTGAAGAGAAGCAGGTTGT 59.297 45.455 0.00 0.00 0.00 3.32
1579 1582 3.898123 AGAGTGAAGAGAAGCAGGTTGTA 59.102 43.478 0.00 0.00 0.00 2.41
1580 1583 4.530161 AGAGTGAAGAGAAGCAGGTTGTAT 59.470 41.667 0.00 0.00 0.00 2.29
1581 1584 5.717178 AGAGTGAAGAGAAGCAGGTTGTATA 59.283 40.000 0.00 0.00 0.00 1.47
1582 1585 6.382570 AGAGTGAAGAGAAGCAGGTTGTATAT 59.617 38.462 0.00 0.00 0.00 0.86
1583 1586 6.951971 AGTGAAGAGAAGCAGGTTGTATATT 58.048 36.000 0.00 0.00 0.00 1.28
1584 1587 8.079211 AGTGAAGAGAAGCAGGTTGTATATTA 57.921 34.615 0.00 0.00 0.00 0.98
1585 1588 8.200792 AGTGAAGAGAAGCAGGTTGTATATTAG 58.799 37.037 0.00 0.00 0.00 1.73
1586 1589 7.982354 GTGAAGAGAAGCAGGTTGTATATTAGT 59.018 37.037 0.00 0.00 0.00 2.24
1587 1590 9.197306 TGAAGAGAAGCAGGTTGTATATTAGTA 57.803 33.333 0.00 0.00 0.00 1.82
1588 1591 9.685828 GAAGAGAAGCAGGTTGTATATTAGTAG 57.314 37.037 0.00 0.00 0.00 2.57
1589 1592 7.662897 AGAGAAGCAGGTTGTATATTAGTAGC 58.337 38.462 0.00 0.00 0.00 3.58
1590 1593 6.760291 AGAAGCAGGTTGTATATTAGTAGCC 58.240 40.000 0.00 0.00 0.00 3.93
1591 1594 6.326583 AGAAGCAGGTTGTATATTAGTAGCCA 59.673 38.462 0.00 0.00 0.00 4.75
1592 1595 6.102897 AGCAGGTTGTATATTAGTAGCCAG 57.897 41.667 0.00 0.00 0.00 4.85
1593 1596 5.602978 AGCAGGTTGTATATTAGTAGCCAGT 59.397 40.000 0.00 0.00 0.00 4.00
1594 1597 6.099845 AGCAGGTTGTATATTAGTAGCCAGTT 59.900 38.462 0.00 0.00 0.00 3.16
1595 1598 6.202954 GCAGGTTGTATATTAGTAGCCAGTTG 59.797 42.308 0.00 0.00 0.00 3.16
1596 1599 7.272978 CAGGTTGTATATTAGTAGCCAGTTGT 58.727 38.462 0.00 0.00 0.00 3.32
1597 1600 8.418662 CAGGTTGTATATTAGTAGCCAGTTGTA 58.581 37.037 0.00 0.00 0.00 2.41
1598 1601 8.639761 AGGTTGTATATTAGTAGCCAGTTGTAG 58.360 37.037 0.00 0.00 0.00 2.74
1599 1602 7.384387 GGTTGTATATTAGTAGCCAGTTGTAGC 59.616 40.741 0.00 0.00 0.00 3.58
1600 1603 7.591421 TGTATATTAGTAGCCAGTTGTAGCA 57.409 36.000 0.00 0.00 0.00 3.49
1601 1604 7.431249 TGTATATTAGTAGCCAGTTGTAGCAC 58.569 38.462 0.00 0.00 0.00 4.40
1602 1605 2.933495 TAGTAGCCAGTTGTAGCACG 57.067 50.000 0.00 0.00 0.00 5.34
1603 1606 0.966920 AGTAGCCAGTTGTAGCACGT 59.033 50.000 0.00 0.00 0.00 4.49
1604 1607 1.068474 GTAGCCAGTTGTAGCACGTG 58.932 55.000 12.28 12.28 0.00 4.49
1605 1608 0.669318 TAGCCAGTTGTAGCACGTGC 60.669 55.000 32.79 32.79 42.49 5.34
1606 1609 2.966309 GCCAGTTGTAGCACGTGCC 61.966 63.158 35.51 22.20 43.38 5.01
1607 1610 1.301716 CCAGTTGTAGCACGTGCCT 60.302 57.895 35.51 22.33 43.38 4.75
1608 1611 0.037697 CCAGTTGTAGCACGTGCCTA 60.038 55.000 35.51 23.19 43.38 3.93
1609 1612 1.606994 CCAGTTGTAGCACGTGCCTAA 60.607 52.381 35.51 24.20 43.38 2.69
1610 1613 2.139917 CAGTTGTAGCACGTGCCTAAA 58.860 47.619 35.51 23.48 43.38 1.85
1611 1614 2.546368 CAGTTGTAGCACGTGCCTAAAA 59.454 45.455 35.51 23.32 43.38 1.52
1612 1615 3.002862 CAGTTGTAGCACGTGCCTAAAAA 59.997 43.478 35.51 19.97 43.38 1.94
1634 1637 7.751768 AAAACTTTATGAGAGAGGAAAGTGG 57.248 36.000 0.01 0.00 40.36 4.00
1635 1638 4.837972 ACTTTATGAGAGAGGAAAGTGGC 58.162 43.478 0.00 0.00 39.90 5.01
1636 1639 3.914426 TTATGAGAGAGGAAAGTGGCC 57.086 47.619 0.00 0.00 0.00 5.36
1637 1640 1.661463 ATGAGAGAGGAAAGTGGCCA 58.339 50.000 0.00 0.00 0.00 5.36
1638 1641 1.434188 TGAGAGAGGAAAGTGGCCAA 58.566 50.000 7.24 0.00 0.00 4.52
1639 1642 1.349026 TGAGAGAGGAAAGTGGCCAAG 59.651 52.381 7.24 0.00 0.00 3.61
1640 1643 1.349357 GAGAGAGGAAAGTGGCCAAGT 59.651 52.381 7.24 0.00 0.00 3.16
1641 1644 2.567615 GAGAGAGGAAAGTGGCCAAGTA 59.432 50.000 7.24 0.00 0.00 2.24
1642 1645 2.979678 AGAGAGGAAAGTGGCCAAGTAA 59.020 45.455 7.24 0.00 0.00 2.24
1643 1646 3.589288 AGAGAGGAAAGTGGCCAAGTAAT 59.411 43.478 7.24 0.00 0.00 1.89
1644 1647 3.690460 AGAGGAAAGTGGCCAAGTAATG 58.310 45.455 7.24 0.00 0.00 1.90
1645 1648 3.330701 AGAGGAAAGTGGCCAAGTAATGA 59.669 43.478 7.24 0.00 0.00 2.57
1646 1649 4.018050 AGAGGAAAGTGGCCAAGTAATGAT 60.018 41.667 7.24 0.00 0.00 2.45
1647 1650 5.191722 AGAGGAAAGTGGCCAAGTAATGATA 59.808 40.000 7.24 0.00 0.00 2.15
1648 1651 5.826643 AGGAAAGTGGCCAAGTAATGATAA 58.173 37.500 7.24 0.00 0.00 1.75
1649 1652 6.252995 AGGAAAGTGGCCAAGTAATGATAAA 58.747 36.000 7.24 0.00 0.00 1.40
1650 1653 6.723977 AGGAAAGTGGCCAAGTAATGATAAAA 59.276 34.615 7.24 0.00 0.00 1.52
1651 1654 7.400052 AGGAAAGTGGCCAAGTAATGATAAAAT 59.600 33.333 7.24 0.00 0.00 1.82
1652 1655 8.691797 GGAAAGTGGCCAAGTAATGATAAAATA 58.308 33.333 7.24 0.00 0.00 1.40
1653 1656 9.736023 GAAAGTGGCCAAGTAATGATAAAATAG 57.264 33.333 7.24 0.00 0.00 1.73
1654 1657 8.823220 AAGTGGCCAAGTAATGATAAAATAGT 57.177 30.769 7.24 0.00 0.00 2.12
1655 1658 9.914834 AAGTGGCCAAGTAATGATAAAATAGTA 57.085 29.630 7.24 0.00 0.00 1.82
1656 1659 9.914834 AGTGGCCAAGTAATGATAAAATAGTAA 57.085 29.630 7.24 0.00 0.00 2.24
1704 1707 9.877178 ATGAGTTGACTTTTAGGTTGACTATAG 57.123 33.333 0.00 0.00 0.00 1.31
1705 1708 9.085645 TGAGTTGACTTTTAGGTTGACTATAGA 57.914 33.333 6.78 0.00 0.00 1.98
1718 1721 9.245481 AGGTTGACTATAGATTACATAGCTACC 57.755 37.037 6.78 5.54 33.55 3.18
1719 1722 8.468399 GGTTGACTATAGATTACATAGCTACCC 58.532 40.741 6.78 0.00 30.90 3.69
1720 1723 7.860918 TGACTATAGATTACATAGCTACCCG 57.139 40.000 6.78 0.00 30.45 5.28
1721 1724 6.827251 TGACTATAGATTACATAGCTACCCGG 59.173 42.308 6.78 0.00 30.45 5.73
1722 1725 6.729428 ACTATAGATTACATAGCTACCCGGT 58.271 40.000 6.78 0.00 30.45 5.28
1723 1726 5.916661 ATAGATTACATAGCTACCCGGTG 57.083 43.478 0.00 0.00 0.00 4.94
1724 1727 2.299297 AGATTACATAGCTACCCGGTGC 59.701 50.000 0.00 1.40 0.00 5.01
1725 1728 1.784358 TTACATAGCTACCCGGTGCT 58.216 50.000 16.16 16.16 42.67 4.40
1726 1729 2.662535 TACATAGCTACCCGGTGCTA 57.337 50.000 18.80 18.80 44.47 3.49
1728 1731 3.165087 ACATAGCTACCCGGTGCTATA 57.835 47.619 23.97 9.03 46.82 1.31
1729 1732 3.090037 ACATAGCTACCCGGTGCTATAG 58.910 50.000 23.97 20.52 46.82 1.31
1730 1733 1.542492 TAGCTACCCGGTGCTATAGC 58.458 55.000 18.18 18.18 40.35 2.97
1731 1734 1.186267 AGCTACCCGGTGCTATAGCC 61.186 60.000 21.84 12.70 40.80 3.93
1732 1735 1.469335 GCTACCCGGTGCTATAGCCA 61.469 60.000 21.84 7.47 41.18 4.75
1733 1736 1.045407 CTACCCGGTGCTATAGCCAA 58.955 55.000 21.84 1.03 41.18 4.52
1734 1737 0.754472 TACCCGGTGCTATAGCCAAC 59.246 55.000 21.84 13.78 41.18 3.77
1735 1738 1.268992 ACCCGGTGCTATAGCCAACA 61.269 55.000 21.84 0.00 41.18 3.33
1736 1739 0.532862 CCCGGTGCTATAGCCAACAG 60.533 60.000 21.84 14.04 41.18 3.16
1737 1740 0.178068 CCGGTGCTATAGCCAACAGT 59.822 55.000 21.84 0.00 41.18 3.55
1738 1741 1.406887 CCGGTGCTATAGCCAACAGTT 60.407 52.381 21.84 0.00 41.18 3.16
1739 1742 1.665679 CGGTGCTATAGCCAACAGTTG 59.334 52.381 21.84 6.28 41.18 3.16
1789 1792 9.631452 AGTAATACGTGTCTCATTCATATCATG 57.369 33.333 0.00 0.00 0.00 3.07
1790 1793 7.895975 AATACGTGTCTCATTCATATCATGG 57.104 36.000 0.00 0.00 0.00 3.66
1810 1813 7.676004 TCATGGAGATTAAAGTACAAGTCACA 58.324 34.615 0.00 0.00 0.00 3.58
1824 1827 4.464951 ACAAGTCACATAAGGACCGACATA 59.535 41.667 0.00 0.00 35.89 2.29
1825 1828 5.128827 ACAAGTCACATAAGGACCGACATAT 59.871 40.000 0.00 0.00 35.89 1.78
1834 1837 4.280436 AGGACCGACATATGACAAAACA 57.720 40.909 10.38 0.00 0.00 2.83
1840 1843 7.214467 ACCGACATATGACAAAACAGAAAAT 57.786 32.000 10.38 0.00 0.00 1.82
1879 1882 1.911293 CTTGACACCAACGCCCATCG 61.911 60.000 0.00 0.00 45.38 3.84
1884 1887 4.776322 CCAACGCCCATCGCCTGA 62.776 66.667 0.00 0.00 43.23 3.86
1909 1912 1.817520 CACCACGACAGCAACCACA 60.818 57.895 0.00 0.00 0.00 4.17
1924 1927 4.978580 GCAACCACAGAAGAAAAGAATGAC 59.021 41.667 0.00 0.00 0.00 3.06
1954 1957 2.664851 CACCCAAGCTTGACGCGA 60.665 61.111 28.05 0.00 45.59 5.87
1987 1991 3.435186 GCAGCTTTGCGGACCTCC 61.435 66.667 0.00 0.00 0.00 4.30
1989 1993 1.600636 CAGCTTTGCGGACCTCCAA 60.601 57.895 0.00 0.00 35.14 3.53
1991 1995 2.335712 GCTTTGCGGACCTCCAAGG 61.336 63.158 0.00 0.00 42.49 3.61
2047 2052 1.426251 ATCAGACCAGGGCAACACCA 61.426 55.000 0.00 0.00 42.05 4.17
2052 2057 2.034066 CAGGGCAACACCACGGAT 59.966 61.111 0.00 0.00 42.05 4.18
2075 2080 2.550180 CGCCATCGAACTCTAGATCTGA 59.450 50.000 5.18 0.03 38.10 3.27
2110 2115 1.523758 AAGACGCCGCAGAAGAAAAT 58.476 45.000 0.00 0.00 0.00 1.82
2138 2143 0.320421 CCATCCACGAACCACGAACT 60.320 55.000 0.00 0.00 45.77 3.01
2146 2151 0.582005 GAACCACGAACTCAGCACAC 59.418 55.000 0.00 0.00 0.00 3.82
2153 2158 2.159272 GAACTCAGCACACGTTCCGC 62.159 60.000 0.00 0.00 32.88 5.54
2199 2204 1.558294 ACAATCTGCATCAGCTCCTGA 59.442 47.619 0.00 0.00 44.99 3.86
2218 2223 0.544595 AACTACCTCCCAAGCTCCGT 60.545 55.000 0.00 0.00 0.00 4.69
2237 2242 2.539338 GCCGACGTTGGAGCAAACA 61.539 57.895 26.69 0.00 0.00 2.83
2239 2244 1.083657 CGACGTTGGAGCAAACACG 60.084 57.895 0.00 0.00 0.00 4.49
2258 2263 2.577059 TCGCAACGACAGATCCCC 59.423 61.111 0.00 0.00 0.00 4.81
2349 2354 4.625225 ATCCATCCCCAACCATAAAACT 57.375 40.909 0.00 0.00 0.00 2.66
2358 2363 3.131046 CCAACCATAAAACTGATGGCCTC 59.869 47.826 3.32 0.00 46.76 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
796 797 9.265901 CTCCTGTACCTTCATGACATTTATAAG 57.734 37.037 0.00 0.00 0.00 1.73
985 986 2.756760 CAGCCATATGTTCCAGTTTGCT 59.243 45.455 1.24 0.00 0.00 3.91
1403 1406 2.281761 AAGTCAGCGCCCAACAGG 60.282 61.111 2.29 0.00 39.47 4.00
1404 1407 1.572085 CTGAAGTCAGCGCCCAACAG 61.572 60.000 2.29 3.05 37.15 3.16
1405 1408 1.597854 CTGAAGTCAGCGCCCAACA 60.598 57.895 2.29 0.00 37.15 3.33
1406 1409 0.884704 TTCTGAAGTCAGCGCCCAAC 60.885 55.000 2.29 0.00 43.46 3.77
1407 1410 0.603707 CTTCTGAAGTCAGCGCCCAA 60.604 55.000 2.29 0.00 43.46 4.12
1408 1411 1.004560 CTTCTGAAGTCAGCGCCCA 60.005 57.895 2.29 0.00 43.46 5.36
1409 1412 0.320771 TTCTTCTGAAGTCAGCGCCC 60.321 55.000 16.43 0.00 43.46 6.13
1410 1413 1.074752 CTTCTTCTGAAGTCAGCGCC 58.925 55.000 16.43 0.00 43.38 6.53
1419 1422 3.470709 CAGTTCTGCCACTTCTTCTGAA 58.529 45.455 0.00 0.00 0.00 3.02
1420 1423 2.224378 CCAGTTCTGCCACTTCTTCTGA 60.224 50.000 0.00 0.00 0.00 3.27
1421 1424 2.149578 CCAGTTCTGCCACTTCTTCTG 58.850 52.381 0.00 0.00 0.00 3.02
1422 1425 1.771255 ACCAGTTCTGCCACTTCTTCT 59.229 47.619 0.00 0.00 0.00 2.85
1423 1426 1.876156 CACCAGTTCTGCCACTTCTTC 59.124 52.381 0.00 0.00 0.00 2.87
1424 1427 1.477558 CCACCAGTTCTGCCACTTCTT 60.478 52.381 0.00 0.00 0.00 2.52
1425 1428 0.109342 CCACCAGTTCTGCCACTTCT 59.891 55.000 0.00 0.00 0.00 2.85
1426 1429 1.518903 GCCACCAGTTCTGCCACTTC 61.519 60.000 0.00 0.00 0.00 3.01
1427 1430 1.529244 GCCACCAGTTCTGCCACTT 60.529 57.895 0.00 0.00 0.00 3.16
1428 1431 2.113986 GCCACCAGTTCTGCCACT 59.886 61.111 0.00 0.00 0.00 4.00
1429 1432 2.113986 AGCCACCAGTTCTGCCAC 59.886 61.111 0.00 0.00 0.00 5.01
1430 1433 2.113774 CAGCCACCAGTTCTGCCA 59.886 61.111 0.00 0.00 0.00 4.92
1431 1434 1.968540 GACAGCCACCAGTTCTGCC 60.969 63.158 0.00 0.00 0.00 4.85
1432 1435 0.952984 GAGACAGCCACCAGTTCTGC 60.953 60.000 0.00 0.00 0.00 4.26
1433 1436 0.683973 AGAGACAGCCACCAGTTCTG 59.316 55.000 0.00 0.00 0.00 3.02
1434 1437 1.896465 GTAGAGACAGCCACCAGTTCT 59.104 52.381 0.00 0.00 0.00 3.01
1435 1438 1.618837 TGTAGAGACAGCCACCAGTTC 59.381 52.381 0.00 0.00 0.00 3.01
1436 1439 1.620819 CTGTAGAGACAGCCACCAGTT 59.379 52.381 0.00 0.00 46.41 3.16
1437 1440 1.261480 CTGTAGAGACAGCCACCAGT 58.739 55.000 0.00 0.00 46.41 4.00
1450 1453 3.592898 TTTTGCATCGCTCTCTGTAGA 57.407 42.857 0.00 0.00 0.00 2.59
1468 1471 4.542697 TCTCAAAACCTAGTGCCCTTTTT 58.457 39.130 0.00 0.00 0.00 1.94
1469 1472 4.178956 TCTCAAAACCTAGTGCCCTTTT 57.821 40.909 0.00 0.00 0.00 2.27
1470 1473 3.876309 TCTCAAAACCTAGTGCCCTTT 57.124 42.857 0.00 0.00 0.00 3.11
1471 1474 3.876309 TTCTCAAAACCTAGTGCCCTT 57.124 42.857 0.00 0.00 0.00 3.95
1472 1475 3.138468 ACTTTCTCAAAACCTAGTGCCCT 59.862 43.478 0.00 0.00 0.00 5.19
1473 1476 3.487372 ACTTTCTCAAAACCTAGTGCCC 58.513 45.455 0.00 0.00 0.00 5.36
1474 1477 5.061179 TGTACTTTCTCAAAACCTAGTGCC 58.939 41.667 0.00 0.00 0.00 5.01
1475 1478 6.803154 ATGTACTTTCTCAAAACCTAGTGC 57.197 37.500 0.00 0.00 0.00 4.40
1491 1494 9.449719 AGCTTGCTTACACTATTTTATGTACTT 57.550 29.630 0.00 0.00 31.09 2.24
1544 1547 9.974980 CTTCTCTTCACTCTCTTTTAACTAAGT 57.025 33.333 0.00 0.00 0.00 2.24
1545 1548 8.921670 GCTTCTCTTCACTCTCTTTTAACTAAG 58.078 37.037 0.00 0.00 0.00 2.18
1546 1549 8.421784 TGCTTCTCTTCACTCTCTTTTAACTAA 58.578 33.333 0.00 0.00 0.00 2.24
1547 1550 7.952671 TGCTTCTCTTCACTCTCTTTTAACTA 58.047 34.615 0.00 0.00 0.00 2.24
1548 1551 6.821388 TGCTTCTCTTCACTCTCTTTTAACT 58.179 36.000 0.00 0.00 0.00 2.24
1549 1552 6.147000 CCTGCTTCTCTTCACTCTCTTTTAAC 59.853 42.308 0.00 0.00 0.00 2.01
1550 1553 6.183361 ACCTGCTTCTCTTCACTCTCTTTTAA 60.183 38.462 0.00 0.00 0.00 1.52
1551 1554 5.305644 ACCTGCTTCTCTTCACTCTCTTTTA 59.694 40.000 0.00 0.00 0.00 1.52
1552 1555 4.102367 ACCTGCTTCTCTTCACTCTCTTTT 59.898 41.667 0.00 0.00 0.00 2.27
1553 1556 3.645687 ACCTGCTTCTCTTCACTCTCTTT 59.354 43.478 0.00 0.00 0.00 2.52
1554 1557 3.238597 ACCTGCTTCTCTTCACTCTCTT 58.761 45.455 0.00 0.00 0.00 2.85
1555 1558 2.888212 ACCTGCTTCTCTTCACTCTCT 58.112 47.619 0.00 0.00 0.00 3.10
1556 1559 3.244044 ACAACCTGCTTCTCTTCACTCTC 60.244 47.826 0.00 0.00 0.00 3.20
1557 1560 2.703007 ACAACCTGCTTCTCTTCACTCT 59.297 45.455 0.00 0.00 0.00 3.24
1558 1561 3.118905 ACAACCTGCTTCTCTTCACTC 57.881 47.619 0.00 0.00 0.00 3.51
1559 1562 4.899352 ATACAACCTGCTTCTCTTCACT 57.101 40.909 0.00 0.00 0.00 3.41
1560 1563 7.982354 ACTAATATACAACCTGCTTCTCTTCAC 59.018 37.037 0.00 0.00 0.00 3.18
1561 1564 8.079211 ACTAATATACAACCTGCTTCTCTTCA 57.921 34.615 0.00 0.00 0.00 3.02
1562 1565 9.685828 CTACTAATATACAACCTGCTTCTCTTC 57.314 37.037 0.00 0.00 0.00 2.87
1563 1566 8.145122 GCTACTAATATACAACCTGCTTCTCTT 58.855 37.037 0.00 0.00 0.00 2.85
1564 1567 7.256012 GGCTACTAATATACAACCTGCTTCTCT 60.256 40.741 0.00 0.00 0.00 3.10
1565 1568 6.869388 GGCTACTAATATACAACCTGCTTCTC 59.131 42.308 0.00 0.00 0.00 2.87
1566 1569 6.326583 TGGCTACTAATATACAACCTGCTTCT 59.673 38.462 0.00 0.00 0.00 2.85
1567 1570 6.522054 TGGCTACTAATATACAACCTGCTTC 58.478 40.000 0.00 0.00 0.00 3.86
1568 1571 6.099845 ACTGGCTACTAATATACAACCTGCTT 59.900 38.462 0.00 0.00 0.00 3.91
1569 1572 5.602978 ACTGGCTACTAATATACAACCTGCT 59.397 40.000 0.00 0.00 0.00 4.24
1570 1573 5.855045 ACTGGCTACTAATATACAACCTGC 58.145 41.667 0.00 0.00 0.00 4.85
1571 1574 7.272978 ACAACTGGCTACTAATATACAACCTG 58.727 38.462 0.00 0.00 0.00 4.00
1572 1575 7.433537 ACAACTGGCTACTAATATACAACCT 57.566 36.000 0.00 0.00 0.00 3.50
1573 1576 7.384387 GCTACAACTGGCTACTAATATACAACC 59.616 40.741 0.00 0.00 0.00 3.77
1574 1577 7.924412 TGCTACAACTGGCTACTAATATACAAC 59.076 37.037 0.00 0.00 0.00 3.32
1575 1578 7.924412 GTGCTACAACTGGCTACTAATATACAA 59.076 37.037 0.00 0.00 0.00 2.41
1576 1579 7.431249 GTGCTACAACTGGCTACTAATATACA 58.569 38.462 0.00 0.00 0.00 2.29
1577 1580 6.581542 CGTGCTACAACTGGCTACTAATATAC 59.418 42.308 0.00 0.00 0.00 1.47
1578 1581 6.263842 ACGTGCTACAACTGGCTACTAATATA 59.736 38.462 0.00 0.00 0.00 0.86
1579 1582 5.068723 ACGTGCTACAACTGGCTACTAATAT 59.931 40.000 0.00 0.00 0.00 1.28
1580 1583 4.400251 ACGTGCTACAACTGGCTACTAATA 59.600 41.667 0.00 0.00 0.00 0.98
1581 1584 3.194968 ACGTGCTACAACTGGCTACTAAT 59.805 43.478 0.00 0.00 0.00 1.73
1582 1585 2.559668 ACGTGCTACAACTGGCTACTAA 59.440 45.455 0.00 0.00 0.00 2.24
1583 1586 2.094906 CACGTGCTACAACTGGCTACTA 60.095 50.000 0.82 0.00 0.00 1.82
1584 1587 0.966920 ACGTGCTACAACTGGCTACT 59.033 50.000 0.00 0.00 0.00 2.57
1585 1588 1.068474 CACGTGCTACAACTGGCTAC 58.932 55.000 0.82 0.00 0.00 3.58
1586 1589 0.669318 GCACGTGCTACAACTGGCTA 60.669 55.000 32.55 0.00 38.21 3.93
1587 1590 1.961277 GCACGTGCTACAACTGGCT 60.961 57.895 32.55 0.00 38.21 4.75
1588 1591 2.556287 GCACGTGCTACAACTGGC 59.444 61.111 32.55 1.87 38.21 4.85
1589 1592 0.037697 TAGGCACGTGCTACAACTGG 60.038 55.000 36.84 0.00 41.70 4.00
1590 1593 1.790755 TTAGGCACGTGCTACAACTG 58.209 50.000 36.84 0.00 41.70 3.16
1591 1594 2.536761 TTTAGGCACGTGCTACAACT 57.463 45.000 36.84 26.82 41.70 3.16
1592 1595 3.612472 TTTTTAGGCACGTGCTACAAC 57.388 42.857 36.84 21.55 41.70 3.32
1609 1612 7.255625 GCCACTTTCCTCTCTCATAAAGTTTTT 60.256 37.037 0.00 0.00 39.50 1.94
1610 1613 6.207614 GCCACTTTCCTCTCTCATAAAGTTTT 59.792 38.462 0.00 0.00 39.50 2.43
1611 1614 5.707764 GCCACTTTCCTCTCTCATAAAGTTT 59.292 40.000 0.00 0.00 39.50 2.66
1612 1615 5.249420 GCCACTTTCCTCTCTCATAAAGTT 58.751 41.667 0.00 0.00 39.50 2.66
1613 1616 4.323868 GGCCACTTTCCTCTCTCATAAAGT 60.324 45.833 0.00 0.00 41.56 2.66
1614 1617 4.195416 GGCCACTTTCCTCTCTCATAAAG 58.805 47.826 0.00 0.00 35.54 1.85
1615 1618 3.587061 TGGCCACTTTCCTCTCTCATAAA 59.413 43.478 0.00 0.00 0.00 1.40
1616 1619 3.181329 TGGCCACTTTCCTCTCTCATAA 58.819 45.455 0.00 0.00 0.00 1.90
1617 1620 2.832838 TGGCCACTTTCCTCTCTCATA 58.167 47.619 0.00 0.00 0.00 2.15
1618 1621 1.661463 TGGCCACTTTCCTCTCTCAT 58.339 50.000 0.00 0.00 0.00 2.90
1619 1622 1.349026 CTTGGCCACTTTCCTCTCTCA 59.651 52.381 3.88 0.00 0.00 3.27
1620 1623 1.349357 ACTTGGCCACTTTCCTCTCTC 59.651 52.381 3.88 0.00 0.00 3.20
1621 1624 1.439543 ACTTGGCCACTTTCCTCTCT 58.560 50.000 3.88 0.00 0.00 3.10
1622 1625 3.418684 TTACTTGGCCACTTTCCTCTC 57.581 47.619 3.88 0.00 0.00 3.20
1623 1626 3.330701 TCATTACTTGGCCACTTTCCTCT 59.669 43.478 3.88 0.00 0.00 3.69
1624 1627 3.686016 TCATTACTTGGCCACTTTCCTC 58.314 45.455 3.88 0.00 0.00 3.71
1625 1628 3.806949 TCATTACTTGGCCACTTTCCT 57.193 42.857 3.88 0.00 0.00 3.36
1626 1629 6.524101 TTTATCATTACTTGGCCACTTTCC 57.476 37.500 3.88 0.00 0.00 3.13
1627 1630 9.736023 CTATTTTATCATTACTTGGCCACTTTC 57.264 33.333 3.88 0.00 0.00 2.62
1628 1631 9.255029 ACTATTTTATCATTACTTGGCCACTTT 57.745 29.630 3.88 0.00 0.00 2.66
1629 1632 8.823220 ACTATTTTATCATTACTTGGCCACTT 57.177 30.769 3.88 0.00 0.00 3.16
1630 1633 9.914834 TTACTATTTTATCATTACTTGGCCACT 57.085 29.630 3.88 0.00 0.00 4.00
1678 1681 9.877178 CTATAGTCAACCTAAAAGTCAACTCAT 57.123 33.333 0.00 0.00 0.00 2.90
1679 1682 9.085645 TCTATAGTCAACCTAAAAGTCAACTCA 57.914 33.333 0.00 0.00 0.00 3.41
1692 1695 9.245481 GGTAGCTATGTAATCTATAGTCAACCT 57.755 37.037 0.00 0.00 32.09 3.50
1693 1696 8.468399 GGGTAGCTATGTAATCTATAGTCAACC 58.532 40.741 0.00 0.00 32.09 3.77
1694 1697 8.182881 CGGGTAGCTATGTAATCTATAGTCAAC 58.817 40.741 0.00 0.00 32.09 3.18
1695 1698 7.338703 CCGGGTAGCTATGTAATCTATAGTCAA 59.661 40.741 0.00 0.00 32.09 3.18
1696 1699 6.827251 CCGGGTAGCTATGTAATCTATAGTCA 59.173 42.308 0.00 0.00 32.09 3.41
1697 1700 6.827762 ACCGGGTAGCTATGTAATCTATAGTC 59.172 42.308 6.32 0.00 32.09 2.59
1698 1701 6.602406 CACCGGGTAGCTATGTAATCTATAGT 59.398 42.308 6.32 0.00 32.09 2.12
1699 1702 6.459848 GCACCGGGTAGCTATGTAATCTATAG 60.460 46.154 6.32 0.00 0.00 1.31
1700 1703 5.359009 GCACCGGGTAGCTATGTAATCTATA 59.641 44.000 6.32 0.00 0.00 1.31
1701 1704 4.159879 GCACCGGGTAGCTATGTAATCTAT 59.840 45.833 6.32 0.00 0.00 1.98
1702 1705 3.508793 GCACCGGGTAGCTATGTAATCTA 59.491 47.826 6.32 0.00 0.00 1.98
1703 1706 2.299297 GCACCGGGTAGCTATGTAATCT 59.701 50.000 6.32 0.00 0.00 2.40
1704 1707 2.299297 AGCACCGGGTAGCTATGTAATC 59.701 50.000 18.42 0.00 39.78 1.75
1705 1708 2.326428 AGCACCGGGTAGCTATGTAAT 58.674 47.619 18.42 0.00 39.78 1.89
1706 1709 1.784358 AGCACCGGGTAGCTATGTAA 58.216 50.000 18.42 0.00 39.78 2.41
1707 1710 2.662535 TAGCACCGGGTAGCTATGTA 57.337 50.000 20.26 7.22 42.05 2.29
1708 1711 3.526211 TAGCACCGGGTAGCTATGT 57.474 52.632 20.26 6.72 42.05 2.29
1711 1714 1.542492 GCTATAGCACCGGGTAGCTA 58.458 55.000 23.87 23.87 46.28 3.32
1712 1715 1.186267 GGCTATAGCACCGGGTAGCT 61.186 60.000 25.53 21.83 44.36 3.32
1713 1716 1.292541 GGCTATAGCACCGGGTAGC 59.707 63.158 25.53 9.86 44.36 3.58
1714 1717 1.045407 TTGGCTATAGCACCGGGTAG 58.955 55.000 25.53 1.07 44.36 3.18
1715 1718 0.754472 GTTGGCTATAGCACCGGGTA 59.246 55.000 25.53 0.00 44.36 3.69
1716 1719 1.268992 TGTTGGCTATAGCACCGGGT 61.269 55.000 25.53 0.00 44.36 5.28
1717 1720 0.532862 CTGTTGGCTATAGCACCGGG 60.533 60.000 25.53 9.08 44.36 5.73
1718 1721 0.178068 ACTGTTGGCTATAGCACCGG 59.822 55.000 25.53 17.99 44.36 5.28
1719 1722 1.665679 CAACTGTTGGCTATAGCACCG 59.334 52.381 25.53 14.52 44.36 4.94
1720 1723 2.017049 CCAACTGTTGGCTATAGCACC 58.983 52.381 25.21 12.83 45.17 5.01
1763 1766 9.631452 CATGATATGAATGAGACACGTATTACT 57.369 33.333 0.00 0.00 0.00 2.24
1789 1792 9.099454 CCTTATGTGACTTGTACTTTAATCTCC 57.901 37.037 0.00 0.00 0.00 3.71
1790 1793 9.871238 TCCTTATGTGACTTGTACTTTAATCTC 57.129 33.333 0.00 0.00 0.00 2.75
1810 1813 6.411376 TGTTTTGTCATATGTCGGTCCTTAT 58.589 36.000 1.90 0.00 0.00 1.73
1884 1887 3.991051 CTGTCGTGGTGCCGGAGT 61.991 66.667 5.05 0.00 0.00 3.85
1909 1912 4.938226 GGTGATCCGTCATTCTTTTCTTCT 59.062 41.667 0.00 0.00 36.60 2.85
1954 1957 2.452295 CTGCATATCAGCGATGGAGT 57.548 50.000 0.00 0.00 37.81 3.85
2047 2052 0.030369 GAGTTCGATGGCGTATCCGT 59.970 55.000 0.00 0.00 38.98 4.69
2052 2057 3.498777 CAGATCTAGAGTTCGATGGCGTA 59.501 47.826 0.00 0.00 38.98 4.42
2075 2080 2.918802 TTAGTCGCGGTGGGGTGT 60.919 61.111 6.13 0.00 0.00 4.16
2097 2102 3.242870 GCAGGTATGATTTTCTTCTGCGG 60.243 47.826 0.00 0.00 37.10 5.69
2110 2115 1.134521 GTTCGTGGATGGCAGGTATGA 60.135 52.381 0.00 0.00 0.00 2.15
2153 2158 1.845266 CATCGACGACATCTGGAAGG 58.155 55.000 0.00 0.00 0.00 3.46
2199 2204 0.544595 ACGGAGCTTGGGAGGTAGTT 60.545 55.000 0.00 0.00 32.79 2.24
2218 2223 2.203084 TTTGCTCCAACGTCGGCA 60.203 55.556 0.00 0.00 0.00 5.69
2226 2231 2.539338 GCGACCGTGTTTGCTCCAA 61.539 57.895 0.00 0.00 0.00 3.53
2251 2256 0.618968 GACCTGTGTCCTGGGGATCT 60.619 60.000 0.00 0.00 35.34 2.75
2301 2306 1.230635 CCAGTCTGTTCAAGCACGGG 61.231 60.000 0.00 0.00 0.00 5.28
2304 2309 3.128589 TGAAAACCAGTCTGTTCAAGCAC 59.871 43.478 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.