Multiple sequence alignment - TraesCS4D01G077700

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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 TraesCS4D01G077700 chr4D 100.000 6510 0 0 1 6510 51799730 51793221 0.000000e+00 12022
1 TraesCS4D01G077700 chr4A 93.398 4150 164 45 2134 6204 544888284 544892402 0.000000e+00 6045
2 TraesCS4D01G077700 chr4A 92.980 1567 61 28 1 1557 544886203 544887730 0.000000e+00 2239
3 TraesCS4D01G077700 chr4A 93.249 474 21 3 1669 2135 544887733 544888202 0.000000e+00 688
4 TraesCS4D01G077700 chr4A 88.014 292 29 2 6224 6509 544898444 544898735 2.250000e-89 340
5 TraesCS4D01G077700 chr4B 96.861 2485 74 3 3095 5577 76046278 76043796 0.000000e+00 4154
6 TraesCS4D01G077700 chr4B 95.417 1571 46 9 1 1557 76049202 76047644 0.000000e+00 2479
7 TraesCS4D01G077700 chr4B 95.554 1372 50 6 1669 3039 76047641 76046280 0.000000e+00 2185
8 TraesCS4D01G077700 chr4B 91.477 352 19 6 5621 5961 76043788 76043437 2.120000e-129 473
9 TraesCS4D01G077700 chr4B 84.665 463 41 11 5995 6455 76043070 76042636 1.000000e-117 435
10 TraesCS4D01G077700 chrUn 83.439 314 36 10 5985 6286 328862958 328862649 1.790000e-70 278
11 TraesCS4D01G077700 chrUn 83.439 314 36 10 5985 6286 345779029 345779338 1.790000e-70 278
12 TraesCS4D01G077700 chrUn 94.915 118 6 0 1553 1670 112678690 112678807 1.110000e-42 185
13 TraesCS4D01G077700 chr1B 83.439 314 36 10 5985 6286 656092986 656092677 1.790000e-70 278
14 TraesCS4D01G077700 chr5A 82.569 327 35 11 5959 6278 546396214 546396525 1.080000e-67 268
15 TraesCS4D01G077700 chr7B 86.777 242 25 7 5989 6227 103563024 103562787 5.010000e-66 263
16 TraesCS4D01G077700 chr7B 94.915 118 6 0 1553 1670 81424986 81425103 1.110000e-42 185
17 TraesCS4D01G077700 chr7D 83.113 302 31 12 5987 6274 195286710 195287005 2.330000e-64 257
18 TraesCS4D01G077700 chr2A 85.714 245 30 5 5985 6227 204626199 204626440 3.010000e-63 254
19 TraesCS4D01G077700 chr2A 95.726 117 5 0 1554 1670 78845691 78845575 8.620000e-44 189
20 TraesCS4D01G077700 chr3A 82.450 302 40 7 5985 6274 714484377 714484077 1.080000e-62 252
21 TraesCS4D01G077700 chr7A 93.023 129 8 1 1543 1670 105313865 105313737 3.100000e-43 187
22 TraesCS4D01G077700 chr6A 95.652 115 5 0 1556 1670 147303660 147303774 1.110000e-42 185
23 TraesCS4D01G077700 chr5D 92.969 128 7 2 1556 1681 118840568 118840441 1.110000e-42 185
24 TraesCS4D01G077700 chr1A 95.652 115 5 0 1556 1670 168567516 168567630 1.110000e-42 185
25 TraesCS4D01G077700 chr2D 85.976 164 18 5 1556 1715 535222185 535222023 3.120000e-38 171
26 TraesCS4D01G077700 chr2B 85.976 164 18 5 1556 1715 636551437 636551275 3.120000e-38 171


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 TraesCS4D01G077700 chr4D 51793221 51799730 6509 True 12022.000000 12022 100.0000 1 6510 1 chr4D.!!$R1 6509
1 TraesCS4D01G077700 chr4A 544886203 544892402 6199 False 2990.666667 6045 93.2090 1 6204 3 chr4A.!!$F2 6203
2 TraesCS4D01G077700 chr4B 76042636 76049202 6566 True 1945.200000 4154 92.7948 1 6455 5 chr4B.!!$R1 6454

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
991 1007 0.820871 TTGCAGGCTGTTTTTCGGTT 59.179 45.000 17.16 0.00 0.00 4.44 F
1571 1591 0.038744 AAGTACTCCCTCCGTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30 F
1573 1593 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29 F
1997 2024 1.200020 GTACTTTGAGGGCATGTGCAC 59.800 52.381 10.75 10.75 46.94 4.57 F
2006 2033 2.553086 GGGCATGTGCACATTTAATGG 58.447 47.619 29.48 17.69 45.57 3.16 F
3832 3976 1.597742 ATGTTCTTGCTGCTCGTTGT 58.402 45.000 0.00 0.00 0.00 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2932 3063 4.223320 ACCTGAAAAGCATGTTAACACG 57.777 40.909 11.22 3.31 0.00 4.49 R
3045 3176 2.095869 GTCACAGCATGAGAGCAACAAG 60.096 50.000 0.00 0.00 36.06 3.16 R
3421 3563 4.301628 CTTGAAAGCACTTCCATGTTTCC 58.698 43.478 0.00 0.00 32.53 3.13 R
3733 3877 0.606401 AAGCACCACCAGGAATGTCG 60.606 55.000 0.00 0.00 38.69 4.35 R
3895 4039 2.524569 TGCTCGATGTCAAGAACACA 57.475 45.000 0.00 0.00 41.75 3.72 R
5605 5750 0.175989 GGCAGGGCAGTCAGTAGTAC 59.824 60.000 0.00 0.00 0.00 2.73 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
323 331 2.867429 CACATTTCGATCTTGTTGCCC 58.133 47.619 0.00 0.00 0.00 5.36
381 389 6.929606 GGTCTACGGATTGCAATTCTATAACT 59.070 38.462 14.33 0.00 0.00 2.24
633 641 3.377656 TCCAGCTTGGACGAGGAC 58.622 61.111 0.00 0.00 42.67 3.85
863 871 4.100344 GGTTTGGTACTTTGTTGATGGGTT 59.900 41.667 0.00 0.00 0.00 4.11
991 1007 0.820871 TTGCAGGCTGTTTTTCGGTT 59.179 45.000 17.16 0.00 0.00 4.44
992 1008 0.820871 TGCAGGCTGTTTTTCGGTTT 59.179 45.000 17.16 0.00 0.00 3.27
1068 1084 3.142174 GGGCAGCAATATCAGGTTAGTC 58.858 50.000 0.00 0.00 0.00 2.59
1070 1086 3.812053 GGCAGCAATATCAGGTTAGTCAG 59.188 47.826 0.00 0.00 0.00 3.51
1084 1100 2.690173 AGTCAGTTCGTCTCTGTTCG 57.310 50.000 0.00 0.00 34.86 3.95
1151 1167 2.128035 CGCTTGGTCTGGATATCGTTC 58.872 52.381 0.00 0.00 0.00 3.95
1232 1248 4.940046 GGCTGAAATTCTGAGATCTGTTCA 59.060 41.667 0.00 0.00 0.00 3.18
1303 1323 4.471386 AGAATCGAGGGGATCTTCTTTTGA 59.529 41.667 0.00 0.00 33.02 2.69
1379 1399 2.500098 ACTGGTTACTGGTCATATGCGT 59.500 45.455 0.00 0.00 0.00 5.24
1431 1451 3.618690 ACTGGCCTTGATCTGTAGTTC 57.381 47.619 3.32 0.00 0.00 3.01
1518 1538 9.587772 TCTTTGATTTCAGTTACTAGTATGAGC 57.412 33.333 2.79 1.00 0.00 4.26
1522 1542 8.531982 TGATTTCAGTTACTAGTATGAGCTTGT 58.468 33.333 2.79 0.00 0.00 3.16
1532 1552 1.376543 ATGAGCTTGTGAATCTGCGG 58.623 50.000 0.00 0.00 0.00 5.69
1557 1577 6.481954 AAACGTCCAATCATTCTGAAGTAC 57.518 37.500 0.00 0.00 0.00 2.73
1559 1579 5.411781 ACGTCCAATCATTCTGAAGTACTC 58.588 41.667 0.00 0.00 0.00 2.59
1560 1580 4.806247 CGTCCAATCATTCTGAAGTACTCC 59.194 45.833 0.00 0.00 0.00 3.85
1561 1581 5.119694 GTCCAATCATTCTGAAGTACTCCC 58.880 45.833 0.00 0.00 0.00 4.30
1562 1582 5.032846 TCCAATCATTCTGAAGTACTCCCT 58.967 41.667 0.00 0.00 0.00 4.20
1563 1583 5.129485 TCCAATCATTCTGAAGTACTCCCTC 59.871 44.000 0.00 0.00 0.00 4.30
1564 1584 5.363939 CAATCATTCTGAAGTACTCCCTCC 58.636 45.833 0.00 0.00 0.00 4.30
1565 1585 3.024547 TCATTCTGAAGTACTCCCTCCG 58.975 50.000 0.00 0.00 0.00 4.63
1566 1586 2.599408 TTCTGAAGTACTCCCTCCGT 57.401 50.000 0.00 0.00 0.00 4.69
1567 1587 2.125773 TCTGAAGTACTCCCTCCGTC 57.874 55.000 0.00 0.00 0.00 4.79
1568 1588 1.104630 CTGAAGTACTCCCTCCGTCC 58.895 60.000 0.00 0.00 0.00 4.79
1569 1589 0.679002 TGAAGTACTCCCTCCGTCCG 60.679 60.000 0.00 0.00 0.00 4.79
1570 1590 0.393537 GAAGTACTCCCTCCGTCCGA 60.394 60.000 0.00 0.00 0.00 4.55
1571 1591 0.038744 AAGTACTCCCTCCGTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
1572 1592 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
1573 1593 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
1574 1594 1.273327 GTACTCCCTCCGTCCGAAAAA 59.727 52.381 0.00 0.00 0.00 1.94
1593 1613 4.639135 AAAACTTGTCTCAAGCTTGTCC 57.361 40.909 25.19 14.48 0.00 4.02
1594 1614 3.567478 AACTTGTCTCAAGCTTGTCCT 57.433 42.857 25.19 0.67 0.00 3.85
1595 1615 3.567478 ACTTGTCTCAAGCTTGTCCTT 57.433 42.857 25.19 2.99 0.00 3.36
1596 1616 3.471680 ACTTGTCTCAAGCTTGTCCTTC 58.528 45.455 25.19 12.90 0.00 3.46
1597 1617 3.118261 ACTTGTCTCAAGCTTGTCCTTCA 60.118 43.478 25.19 15.00 0.00 3.02
1598 1618 3.558931 TGTCTCAAGCTTGTCCTTCAA 57.441 42.857 25.19 3.99 34.61 2.69
1599 1619 3.884895 TGTCTCAAGCTTGTCCTTCAAA 58.115 40.909 25.19 3.24 35.48 2.69
1600 1620 4.464008 TGTCTCAAGCTTGTCCTTCAAAT 58.536 39.130 25.19 0.00 35.48 2.32
1601 1621 4.276678 TGTCTCAAGCTTGTCCTTCAAATG 59.723 41.667 25.19 0.00 35.48 2.32
1602 1622 3.822735 TCTCAAGCTTGTCCTTCAAATGG 59.177 43.478 25.19 0.00 35.48 3.16
1603 1623 3.822735 CTCAAGCTTGTCCTTCAAATGGA 59.177 43.478 25.19 1.02 35.48 3.41
1604 1624 4.410099 TCAAGCTTGTCCTTCAAATGGAT 58.590 39.130 25.19 0.00 35.87 3.41
1605 1625 4.219070 TCAAGCTTGTCCTTCAAATGGATG 59.781 41.667 25.19 0.00 35.87 3.51
1606 1626 3.771216 AGCTTGTCCTTCAAATGGATGT 58.229 40.909 0.00 0.00 35.87 3.06
1607 1627 4.922206 AGCTTGTCCTTCAAATGGATGTA 58.078 39.130 0.00 0.00 35.87 2.29
1608 1628 5.513233 AGCTTGTCCTTCAAATGGATGTAT 58.487 37.500 0.00 0.00 35.87 2.29
1609 1629 5.591877 AGCTTGTCCTTCAAATGGATGTATC 59.408 40.000 0.00 0.00 35.87 2.24
1610 1630 5.591877 GCTTGTCCTTCAAATGGATGTATCT 59.408 40.000 0.00 0.00 35.87 1.98
1611 1631 6.767902 GCTTGTCCTTCAAATGGATGTATCTA 59.232 38.462 0.00 0.00 35.87 1.98
1612 1632 7.041508 GCTTGTCCTTCAAATGGATGTATCTAG 60.042 40.741 0.00 0.00 35.87 2.43
1613 1633 6.291377 TGTCCTTCAAATGGATGTATCTAGC 58.709 40.000 0.00 0.00 35.87 3.42
1614 1634 6.126796 TGTCCTTCAAATGGATGTATCTAGCA 60.127 38.462 0.00 0.00 35.87 3.49
1615 1635 6.203723 GTCCTTCAAATGGATGTATCTAGCAC 59.796 42.308 0.00 0.00 35.87 4.40
1616 1636 6.100279 TCCTTCAAATGGATGTATCTAGCACT 59.900 38.462 0.00 0.00 0.00 4.40
1617 1637 7.290014 TCCTTCAAATGGATGTATCTAGCACTA 59.710 37.037 0.00 0.00 0.00 2.74
1618 1638 7.933577 CCTTCAAATGGATGTATCTAGCACTAA 59.066 37.037 0.00 0.00 0.00 2.24
1619 1639 8.662781 TTCAAATGGATGTATCTAGCACTAAC 57.337 34.615 0.00 0.00 0.00 2.34
1620 1640 8.023021 TCAAATGGATGTATCTAGCACTAACT 57.977 34.615 0.00 0.00 0.00 2.24
1621 1641 8.486210 TCAAATGGATGTATCTAGCACTAACTT 58.514 33.333 0.00 0.00 0.00 2.66
1622 1642 8.554528 CAAATGGATGTATCTAGCACTAACTTG 58.445 37.037 0.00 0.00 0.00 3.16
1623 1643 6.161855 TGGATGTATCTAGCACTAACTTGG 57.838 41.667 0.00 0.00 0.00 3.61
1624 1644 5.661312 TGGATGTATCTAGCACTAACTTGGT 59.339 40.000 0.00 0.00 0.00 3.67
1625 1645 5.986135 GGATGTATCTAGCACTAACTTGGTG 59.014 44.000 0.97 0.97 37.70 4.17
1634 1654 4.471904 CACTAACTTGGTGCTAGATCCA 57.528 45.455 0.00 0.00 0.00 3.41
1635 1655 5.028549 CACTAACTTGGTGCTAGATCCAT 57.971 43.478 7.07 0.00 33.50 3.41
1636 1656 5.053145 CACTAACTTGGTGCTAGATCCATC 58.947 45.833 7.07 0.00 33.50 3.51
1637 1657 3.567478 AACTTGGTGCTAGATCCATCC 57.433 47.619 7.07 0.00 33.50 3.51
1638 1658 2.481441 ACTTGGTGCTAGATCCATCCA 58.519 47.619 7.07 0.00 33.50 3.41
1639 1659 3.051581 ACTTGGTGCTAGATCCATCCAT 58.948 45.455 7.07 0.00 33.50 3.41
1640 1660 3.461085 ACTTGGTGCTAGATCCATCCATT 59.539 43.478 7.07 0.00 33.50 3.16
1641 1661 4.079558 ACTTGGTGCTAGATCCATCCATTT 60.080 41.667 7.07 0.00 33.50 2.32
1642 1662 3.824133 TGGTGCTAGATCCATCCATTTG 58.176 45.455 0.00 0.00 0.00 2.32
1643 1663 3.459227 TGGTGCTAGATCCATCCATTTGA 59.541 43.478 0.00 0.00 0.00 2.69
1644 1664 4.070716 GGTGCTAGATCCATCCATTTGAG 58.929 47.826 0.00 0.00 0.00 3.02
1645 1665 4.070716 GTGCTAGATCCATCCATTTGAGG 58.929 47.826 0.00 0.00 0.00 3.86
1646 1666 3.073503 TGCTAGATCCATCCATTTGAGGG 59.926 47.826 0.00 0.00 46.56 4.30
1651 1671 3.370840 TCCATCCATTTGAGGGACAAG 57.629 47.619 0.00 0.00 46.66 3.16
1652 1672 2.649312 TCCATCCATTTGAGGGACAAGT 59.351 45.455 0.00 0.00 46.66 3.16
1653 1673 3.075882 TCCATCCATTTGAGGGACAAGTT 59.924 43.478 0.00 0.00 46.66 2.66
1654 1674 4.449081 TCCATCCATTTGAGGGACAAGTTT 60.449 41.667 0.00 0.00 46.66 2.66
1655 1675 5.473066 CATCCATTTGAGGGACAAGTTTT 57.527 39.130 0.00 0.00 39.77 2.43
1656 1676 5.857268 CATCCATTTGAGGGACAAGTTTTT 58.143 37.500 0.00 0.00 39.77 1.94
1677 1697 1.212688 TCGGACGGAGGGACATTACTA 59.787 52.381 0.00 0.00 0.00 1.82
1680 1700 3.552273 CGGACGGAGGGACATTACTATTG 60.552 52.174 0.00 0.00 0.00 1.90
1997 2024 1.200020 GTACTTTGAGGGCATGTGCAC 59.800 52.381 10.75 10.75 46.94 4.57
2006 2033 2.553086 GGGCATGTGCACATTTAATGG 58.447 47.619 29.48 17.69 45.57 3.16
2123 2150 8.375506 TCTTGGAGCTCAATTAAGTTCTCTTTA 58.624 33.333 17.19 0.00 34.45 1.85
2635 2758 3.904339 ACTACCATCTGCCCCTTGTATAG 59.096 47.826 0.00 0.00 0.00 1.31
2646 2769 3.117888 CCCCTTGTATAGTTCATGCCTGT 60.118 47.826 0.00 0.00 0.00 4.00
2811 2942 4.992319 TCTGTTGTGGTTATGTAAAGACCG 59.008 41.667 0.00 0.00 36.22 4.79
2829 2960 2.562298 ACCGTCAATTCCAATGTTGCAT 59.438 40.909 0.00 0.00 0.00 3.96
2932 3063 3.813529 AACAGCTTTGACGCTAATGTC 57.186 42.857 0.00 0.00 38.41 3.06
3054 3185 9.372369 ACTTCTTATCTGTATAACTTGTTGCTC 57.628 33.333 0.00 0.00 0.00 4.26
3704 3848 7.119262 TGCAAAGATTAGTAGCTTCAAGTAACC 59.881 37.037 0.00 0.00 0.00 2.85
3733 3877 5.403246 AGCGACGATGAAGTGAATATATCC 58.597 41.667 0.00 0.00 0.00 2.59
3832 3976 1.597742 ATGTTCTTGCTGCTCGTTGT 58.402 45.000 0.00 0.00 0.00 3.32
4277 4421 5.777802 CACTAAGAGTCTATGCATTCCGAT 58.222 41.667 3.54 0.00 0.00 4.18
4446 4590 2.617532 GCTTGCTGGAATCTGGAGAGTT 60.618 50.000 0.00 0.00 0.00 3.01
4552 4696 7.039784 AGTGCTGAAAATGGTGTGTATAATGTT 60.040 33.333 0.00 0.00 0.00 2.71
4697 4841 1.006571 CTGGCAGTTGCAAAGCTGG 60.007 57.895 20.44 11.96 44.36 4.85
4872 5016 6.595716 ACATACATCTTCTGTTTCCAGTTAGC 59.404 38.462 0.00 0.00 39.39 3.09
5035 5179 2.704572 CAGAATGAACGGCTTCCTCTT 58.295 47.619 0.00 0.00 39.69 2.85
5041 5185 0.319641 AACGGCTTCCTCTTCGTGTC 60.320 55.000 0.00 0.00 35.93 3.67
5161 5305 0.318441 CCAGAGAGAACGGCAACTCA 59.682 55.000 0.00 0.00 35.83 3.41
5209 5353 0.875059 CAACAACCGAAGAGGAAGGC 59.125 55.000 0.00 0.00 45.00 4.35
5236 5380 0.753848 TCCCGACATCCAGCGACATA 60.754 55.000 0.00 0.00 0.00 2.29
5239 5383 1.593006 CCGACATCCAGCGACATAAAC 59.407 52.381 0.00 0.00 0.00 2.01
5425 5569 2.047844 GGCGAGAACAGCAGCTCA 60.048 61.111 0.00 0.00 36.08 4.26
5429 5573 1.069924 CGAGAACAGCAGCTCAGACG 61.070 60.000 0.00 0.00 0.00 4.18
5436 5580 4.406173 CAGCTCAGACGCGTCGGT 62.406 66.667 32.77 22.20 34.40 4.69
5605 5750 7.201478 CGAGAGTAGCAATCTTAAAAAGTGGAG 60.201 40.741 0.00 0.00 0.00 3.86
5612 5757 8.376270 AGCAATCTTAAAAAGTGGAGTACTACT 58.624 33.333 6.66 0.00 39.18 2.57
5613 5758 8.443937 GCAATCTTAAAAAGTGGAGTACTACTG 58.556 37.037 6.66 0.00 39.18 2.74
5614 5759 9.706691 CAATCTTAAAAAGTGGAGTACTACTGA 57.293 33.333 6.66 0.00 39.18 3.41
5615 5760 9.708092 AATCTTAAAAAGTGGAGTACTACTGAC 57.292 33.333 6.66 0.00 39.18 3.51
5616 5761 8.474710 TCTTAAAAAGTGGAGTACTACTGACT 57.525 34.615 6.66 0.00 39.18 3.41
5617 5762 8.358148 TCTTAAAAAGTGGAGTACTACTGACTG 58.642 37.037 6.66 0.00 39.18 3.51
5618 5763 4.522722 AAAGTGGAGTACTACTGACTGC 57.477 45.455 6.66 0.00 39.18 4.40
5619 5764 2.448453 AGTGGAGTACTACTGACTGCC 58.552 52.381 6.66 0.00 38.04 4.85
5646 5791 3.305267 CCTGTCGCCAATGATGTTTTTGA 60.305 43.478 0.00 0.00 0.00 2.69
5689 5835 1.455217 TAGCCCGTAGAGGTCTGGC 60.455 63.158 0.00 0.00 42.48 4.85
5796 5946 0.174617 GAGGCAGACTGGCAGAGTAC 59.825 60.000 28.64 9.34 46.46 2.73
5810 5963 4.095483 GGCAGAGTACAGAAAATCCATGTG 59.905 45.833 0.00 0.00 0.00 3.21
5815 5968 7.592533 CAGAGTACAGAAAATCCATGTGTTTTG 59.407 37.037 9.27 1.78 0.00 2.44
5824 5977 3.430453 TCCATGTGTTTTGGAATCCTCC 58.570 45.455 0.00 0.00 40.29 4.30
5830 5983 3.058224 GTGTTTTGGAATCCTCCGTCAAG 60.058 47.826 0.00 0.00 45.85 3.02
5843 5996 3.861840 TCCGTCAAGGATTCAGTTCATC 58.138 45.455 0.00 0.00 45.98 2.92
5847 6000 4.034858 CGTCAAGGATTCAGTTCATCCATG 59.965 45.833 1.89 0.29 42.63 3.66
5883 6036 6.110543 TGTGAATTATCTGTTGATGAAGCG 57.889 37.500 0.00 0.00 34.32 4.68
6008 6524 5.063691 TGACAAAATTTTCAAGTGCTTGCAG 59.936 36.000 0.00 0.00 40.24 4.41
6040 6556 6.825721 GTCATGGAATCACATTTCTAGAAGGT 59.174 38.462 5.12 5.72 0.00 3.50
6045 6561 4.974645 TCACATTTCTAGAAGGTGTGGT 57.025 40.909 31.48 15.09 38.32 4.16
6174 6691 7.426929 TTTTTGCAAGCACTTGAAACTTTTA 57.573 28.000 14.44 0.00 42.93 1.52
6252 6769 5.779806 TTTTACTGTTTATCGAGCTCAGC 57.220 39.130 15.40 0.00 0.00 4.26
6274 6791 3.154710 TCGAGAGCAGAAGGACACTTTA 58.845 45.455 0.00 0.00 36.97 1.85
6276 6793 3.674682 CGAGAGCAGAAGGACACTTTAGG 60.675 52.174 0.00 0.00 36.97 2.69
6277 6794 3.243724 AGAGCAGAAGGACACTTTAGGT 58.756 45.455 0.00 0.00 36.97 3.08
6304 6821 7.604657 AAGAATATCTACAACCAGACCCTAG 57.395 40.000 0.00 0.00 0.00 3.02
6310 6827 3.191888 ACAACCAGACCCTAGACATCT 57.808 47.619 0.00 0.00 0.00 2.90
6314 6831 0.755686 CAGACCCTAGACATCTGGGC 59.244 60.000 5.78 0.00 44.56 5.36
6377 6894 6.187480 CACAAATACTATGTGTCGCTCATTG 58.813 40.000 0.00 0.00 42.48 2.82
6396 6913 3.510388 TGTGAGCATTAAGTCTCCGAG 57.490 47.619 4.82 0.00 0.00 4.63
6422 6939 0.753262 CTAGCGTAGAACATGGGCCT 59.247 55.000 4.53 0.00 0.00 5.19
6442 6959 2.208074 CTCATTAGCGAGCGAACCG 58.792 57.895 0.00 0.00 0.00 4.44
6450 6967 1.440850 CGAGCGAACCGTTACGACA 60.441 57.895 6.24 0.00 0.00 4.35
6455 6972 1.258720 GCGAACCGTTACGACAAGTTT 59.741 47.619 6.24 0.00 0.00 2.66
6456 6973 2.285776 GCGAACCGTTACGACAAGTTTT 60.286 45.455 6.24 0.00 0.00 2.43
6457 6974 3.060607 GCGAACCGTTACGACAAGTTTTA 60.061 43.478 6.24 0.00 0.00 1.52
6458 6975 4.680979 CGAACCGTTACGACAAGTTTTAG 58.319 43.478 6.24 0.00 0.00 1.85
6459 6976 4.375305 CGAACCGTTACGACAAGTTTTAGG 60.375 45.833 6.24 0.00 0.00 2.69
6460 6977 4.320608 ACCGTTACGACAAGTTTTAGGA 57.679 40.909 6.24 0.00 0.00 2.94
6461 6978 4.692228 ACCGTTACGACAAGTTTTAGGAA 58.308 39.130 6.24 0.00 0.00 3.36
6462 6979 5.115480 ACCGTTACGACAAGTTTTAGGAAA 58.885 37.500 6.24 0.00 0.00 3.13
6463 6980 5.584251 ACCGTTACGACAAGTTTTAGGAAAA 59.416 36.000 6.24 0.00 0.00 2.29
6476 6993 7.154435 GTTTTAGGAAAACCTTGTAGATCCC 57.846 40.000 3.88 0.00 43.78 3.85
6477 6994 5.446260 TTAGGAAAACCTTGTAGATCCCC 57.554 43.478 0.00 0.00 0.00 4.81
6478 6995 3.542604 AGGAAAACCTTGTAGATCCCCT 58.457 45.455 0.00 0.00 0.00 4.79
6479 6996 4.706616 AGGAAAACCTTGTAGATCCCCTA 58.293 43.478 0.00 0.00 0.00 3.53
6480 6997 5.105853 AGGAAAACCTTGTAGATCCCCTAA 58.894 41.667 0.00 0.00 0.00 2.69
6481 6998 5.554350 AGGAAAACCTTGTAGATCCCCTAAA 59.446 40.000 0.00 0.00 0.00 1.85
6482 6999 6.046286 AGGAAAACCTTGTAGATCCCCTAAAA 59.954 38.462 0.00 0.00 0.00 1.52
6483 7000 6.722590 GGAAAACCTTGTAGATCCCCTAAAAA 59.277 38.462 0.00 0.00 0.00 1.94
6504 7021 7.597288 AAAAAGGTAAAACCATGTAGAAGCT 57.403 32.000 0.00 0.00 41.95 3.74
6505 7022 7.597288 AAAAGGTAAAACCATGTAGAAGCTT 57.403 32.000 0.00 0.00 41.95 3.74
6506 7023 6.819397 AAGGTAAAACCATGTAGAAGCTTC 57.181 37.500 19.11 19.11 41.95 3.86
6507 7024 6.128138 AGGTAAAACCATGTAGAAGCTTCT 57.872 37.500 30.63 30.63 41.95 2.85
6508 7025 5.940470 AGGTAAAACCATGTAGAAGCTTCTG 59.060 40.000 34.26 21.28 41.95 3.02
6509 7026 5.123979 GGTAAAACCATGTAGAAGCTTCTGG 59.876 44.000 34.26 28.62 38.42 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 113 8.638873 TCTCAACAAAAAGTACACTCTATCTCA 58.361 33.333 0.00 0.00 0.00 3.27
323 331 1.528129 GGTTGCTTCTCCTCTTGGTG 58.472 55.000 0.00 0.00 34.23 4.17
381 389 4.314961 CACATGTAGGCAGTCAAACAGTA 58.685 43.478 0.00 0.00 0.00 2.74
594 602 0.910088 ACACAGGGAGAGTAAGGGGC 60.910 60.000 0.00 0.00 0.00 5.80
596 604 1.938585 TCACACAGGGAGAGTAAGGG 58.061 55.000 0.00 0.00 0.00 3.95
597 605 2.432510 GGATCACACAGGGAGAGTAAGG 59.567 54.545 0.00 0.00 0.00 2.69
598 606 3.099905 TGGATCACACAGGGAGAGTAAG 58.900 50.000 0.00 0.00 0.00 2.34
599 607 3.099905 CTGGATCACACAGGGAGAGTAA 58.900 50.000 0.00 0.00 32.38 2.24
601 609 1.566211 CTGGATCACACAGGGAGAGT 58.434 55.000 0.00 0.00 32.38 3.24
633 641 1.157870 ACAACGGCAACAAGGACTCG 61.158 55.000 0.00 0.00 0.00 4.18
710 718 2.204059 AGCCCAAGCAGACCTCCT 60.204 61.111 0.00 0.00 43.56 3.69
863 871 3.697045 CCTCAACAAACCCACAACACTTA 59.303 43.478 0.00 0.00 0.00 2.24
917 925 1.755380 CTACTTTCCCCTACCTCACCG 59.245 57.143 0.00 0.00 0.00 4.94
991 1007 5.402997 TTCATATGCTTCATTGTGCCAAA 57.597 34.783 0.00 0.00 0.00 3.28
992 1008 4.678574 GCTTCATATGCTTCATTGTGCCAA 60.679 41.667 0.00 0.00 0.00 4.52
1020 1036 3.254639 CTGAAAGACATCCGGCTTGGAG 61.255 54.545 0.00 0.00 45.14 3.86
1068 1084 1.267261 AGGACGAACAGAGACGAACTG 59.733 52.381 0.00 0.00 40.68 3.16
1070 1086 1.266175 TGAGGACGAACAGAGACGAAC 59.734 52.381 0.00 0.00 0.00 3.95
1084 1100 5.868801 CAGAATCTGAAGAAACTCTGAGGAC 59.131 44.000 3.77 0.14 34.19 3.85
1128 1144 1.506493 GATATCCAGACCAAGCGCTG 58.494 55.000 12.58 0.57 0.00 5.18
1151 1167 9.205719 GGTACTAAACTGGAGTAAAAGAAGAAG 57.794 37.037 0.00 0.00 31.33 2.85
1232 1248 6.571150 GCATACAAAAGCCAAATCTCTCAAGT 60.571 38.462 0.00 0.00 0.00 3.16
1379 1399 5.945784 ACCACAGAGCTAATTAATTGCTGAA 59.054 36.000 21.85 0.00 37.16 3.02
1431 1451 2.760650 GTTTAAGAAATGGAGCCCAGGG 59.239 50.000 0.00 0.00 36.75 4.45
1518 1538 2.032030 ACGTTTTCCGCAGATTCACAAG 60.032 45.455 0.00 0.00 41.42 3.16
1522 1542 1.153353 GGACGTTTTCCGCAGATTCA 58.847 50.000 0.00 0.00 41.42 2.57
1571 1591 4.706962 AGGACAAGCTTGAGACAAGTTTTT 59.293 37.500 32.50 5.43 0.00 1.94
1572 1592 4.273318 AGGACAAGCTTGAGACAAGTTTT 58.727 39.130 32.50 5.99 0.00 2.43
1573 1593 3.891049 AGGACAAGCTTGAGACAAGTTT 58.109 40.909 32.50 6.80 0.00 2.66
1574 1594 3.567478 AGGACAAGCTTGAGACAAGTT 57.433 42.857 32.50 7.60 0.00 2.66
1575 1595 3.118261 TGAAGGACAAGCTTGAGACAAGT 60.118 43.478 32.50 8.41 0.00 3.16
1576 1596 3.470709 TGAAGGACAAGCTTGAGACAAG 58.529 45.455 32.50 4.70 0.00 3.16
1577 1597 3.558931 TGAAGGACAAGCTTGAGACAA 57.441 42.857 32.50 10.48 0.00 3.18
1578 1598 3.558931 TTGAAGGACAAGCTTGAGACA 57.441 42.857 32.50 19.34 34.20 3.41
1579 1599 4.320788 CCATTTGAAGGACAAGCTTGAGAC 60.321 45.833 32.50 19.96 39.77 3.36
1580 1600 3.822735 CCATTTGAAGGACAAGCTTGAGA 59.177 43.478 32.50 4.85 39.77 3.27
1581 1601 3.822735 TCCATTTGAAGGACAAGCTTGAG 59.177 43.478 32.50 7.94 39.77 3.02
1582 1602 3.831323 TCCATTTGAAGGACAAGCTTGA 58.169 40.909 32.50 8.10 39.77 3.02
1583 1603 4.021719 ACATCCATTTGAAGGACAAGCTTG 60.022 41.667 24.84 24.84 39.77 4.01
1584 1604 4.154942 ACATCCATTTGAAGGACAAGCTT 58.845 39.130 0.00 0.00 39.77 3.74
1585 1605 3.771216 ACATCCATTTGAAGGACAAGCT 58.229 40.909 0.00 0.00 39.77 3.74
1586 1606 5.591877 AGATACATCCATTTGAAGGACAAGC 59.408 40.000 0.00 0.00 39.77 4.01
1587 1607 7.041508 GCTAGATACATCCATTTGAAGGACAAG 60.042 40.741 0.00 0.00 39.77 3.16
1588 1608 6.767902 GCTAGATACATCCATTTGAAGGACAA 59.232 38.462 0.00 0.00 38.13 3.18
1589 1609 6.126796 TGCTAGATACATCCATTTGAAGGACA 60.127 38.462 0.00 0.00 38.13 4.02
1590 1610 6.203723 GTGCTAGATACATCCATTTGAAGGAC 59.796 42.308 0.00 0.00 38.13 3.85
1591 1611 6.100279 AGTGCTAGATACATCCATTTGAAGGA 59.900 38.462 0.00 0.00 39.97 3.36
1592 1612 6.294473 AGTGCTAGATACATCCATTTGAAGG 58.706 40.000 0.00 0.00 0.00 3.46
1593 1613 8.768955 GTTAGTGCTAGATACATCCATTTGAAG 58.231 37.037 0.00 0.00 0.00 3.02
1594 1614 8.486210 AGTTAGTGCTAGATACATCCATTTGAA 58.514 33.333 0.00 0.00 0.00 2.69
1595 1615 8.023021 AGTTAGTGCTAGATACATCCATTTGA 57.977 34.615 0.00 0.00 0.00 2.69
1596 1616 8.554528 CAAGTTAGTGCTAGATACATCCATTTG 58.445 37.037 0.00 0.00 0.00 2.32
1597 1617 7.716998 CCAAGTTAGTGCTAGATACATCCATTT 59.283 37.037 0.00 0.00 0.00 2.32
1598 1618 7.147479 ACCAAGTTAGTGCTAGATACATCCATT 60.147 37.037 0.00 0.00 0.00 3.16
1599 1619 6.327626 ACCAAGTTAGTGCTAGATACATCCAT 59.672 38.462 0.00 0.00 0.00 3.41
1600 1620 5.661312 ACCAAGTTAGTGCTAGATACATCCA 59.339 40.000 0.00 0.00 0.00 3.41
1601 1621 5.986135 CACCAAGTTAGTGCTAGATACATCC 59.014 44.000 0.00 0.00 0.00 3.51
1613 1633 4.471904 TGGATCTAGCACCAAGTTAGTG 57.528 45.455 0.00 0.00 38.30 2.74
1614 1634 4.101741 GGATGGATCTAGCACCAAGTTAGT 59.898 45.833 10.77 0.00 39.69 2.24
1615 1635 4.101585 TGGATGGATCTAGCACCAAGTTAG 59.898 45.833 10.77 0.00 39.69 2.34
1616 1636 4.037222 TGGATGGATCTAGCACCAAGTTA 58.963 43.478 10.77 0.00 39.69 2.24
1617 1637 2.846206 TGGATGGATCTAGCACCAAGTT 59.154 45.455 10.77 0.00 39.69 2.66
1618 1638 2.481441 TGGATGGATCTAGCACCAAGT 58.519 47.619 10.77 0.00 39.69 3.16
1619 1639 3.784511 ATGGATGGATCTAGCACCAAG 57.215 47.619 10.77 0.00 39.69 3.61
1620 1640 4.079844 TCAAATGGATGGATCTAGCACCAA 60.080 41.667 10.77 0.00 39.69 3.67
1621 1641 3.459227 TCAAATGGATGGATCTAGCACCA 59.541 43.478 9.49 9.49 40.57 4.17
1622 1642 4.070716 CTCAAATGGATGGATCTAGCACC 58.929 47.826 0.00 0.00 0.00 5.01
1623 1643 4.070716 CCTCAAATGGATGGATCTAGCAC 58.929 47.826 0.00 0.00 0.00 4.40
1624 1644 3.073503 CCCTCAAATGGATGGATCTAGCA 59.926 47.826 0.00 0.00 33.42 3.49
1625 1645 3.328931 TCCCTCAAATGGATGGATCTAGC 59.671 47.826 0.00 0.00 35.63 3.42
1626 1646 4.349048 TGTCCCTCAAATGGATGGATCTAG 59.651 45.833 0.00 0.00 41.58 2.43
1627 1647 4.306391 TGTCCCTCAAATGGATGGATCTA 58.694 43.478 0.00 0.00 41.58 1.98
1628 1648 3.125656 TGTCCCTCAAATGGATGGATCT 58.874 45.455 0.00 0.00 41.58 2.75
1629 1649 3.582998 TGTCCCTCAAATGGATGGATC 57.417 47.619 0.00 0.00 41.58 3.36
1630 1650 3.270433 ACTTGTCCCTCAAATGGATGGAT 59.730 43.478 0.00 0.00 41.58 3.41
1631 1651 2.649312 ACTTGTCCCTCAAATGGATGGA 59.351 45.455 0.00 0.00 37.91 3.41
1632 1652 3.091633 ACTTGTCCCTCAAATGGATGG 57.908 47.619 0.00 0.00 35.48 3.51
1633 1653 5.473066 AAAACTTGTCCCTCAAATGGATG 57.527 39.130 0.00 0.00 35.48 3.51
1653 1673 0.688487 ATGTCCCTCCGTCCGAAAAA 59.312 50.000 0.00 0.00 0.00 1.94
1654 1674 0.688487 AATGTCCCTCCGTCCGAAAA 59.312 50.000 0.00 0.00 0.00 2.29
1655 1675 1.205417 GTAATGTCCCTCCGTCCGAAA 59.795 52.381 0.00 0.00 0.00 3.46
1656 1676 0.819582 GTAATGTCCCTCCGTCCGAA 59.180 55.000 0.00 0.00 0.00 4.30
1657 1677 0.033796 AGTAATGTCCCTCCGTCCGA 60.034 55.000 0.00 0.00 0.00 4.55
1658 1678 1.683943 TAGTAATGTCCCTCCGTCCG 58.316 55.000 0.00 0.00 0.00 4.79
1659 1679 3.802675 GCAATAGTAATGTCCCTCCGTCC 60.803 52.174 0.00 0.00 0.00 4.79
1660 1680 3.181469 TGCAATAGTAATGTCCCTCCGTC 60.181 47.826 0.00 0.00 0.00 4.79
1661 1681 2.769663 TGCAATAGTAATGTCCCTCCGT 59.230 45.455 0.00 0.00 0.00 4.69
1662 1682 3.469008 TGCAATAGTAATGTCCCTCCG 57.531 47.619 0.00 0.00 0.00 4.63
1663 1683 6.715347 AATTTGCAATAGTAATGTCCCTCC 57.285 37.500 0.00 0.00 0.00 4.30
1664 1684 8.682710 TGTAAATTTGCAATAGTAATGTCCCTC 58.317 33.333 6.49 0.00 0.00 4.30
1665 1685 8.588290 TGTAAATTTGCAATAGTAATGTCCCT 57.412 30.769 6.49 0.00 0.00 4.20
1666 1686 9.816354 AATGTAAATTTGCAATAGTAATGTCCC 57.184 29.630 13.11 0.00 0.00 4.46
1677 1697 8.825667 AAGGTTTCGTAATGTAAATTTGCAAT 57.174 26.923 13.11 7.54 0.00 3.56
1783 1803 9.072294 CAATCCGTATGGTGAATCTTTTAAAAC 57.928 33.333 0.00 0.00 36.30 2.43
1997 2024 7.136289 AGAAAAGCATTGCAACCATTAAATG 57.864 32.000 11.91 0.00 33.98 2.32
2006 2033 6.588348 ACAAACTAAGAAAAGCATTGCAAC 57.412 33.333 11.91 0.00 0.00 4.17
2496 2619 5.894298 TGTGAGGATATTGGCAGATTACT 57.106 39.130 0.00 0.00 0.00 2.24
2635 2758 5.760253 ACTAGCATATTACACAGGCATGAAC 59.240 40.000 4.84 0.00 0.00 3.18
2811 2942 4.813027 ACAGATGCAACATTGGAATTGAC 58.187 39.130 0.00 0.00 30.51 3.18
2932 3063 4.223320 ACCTGAAAAGCATGTTAACACG 57.777 40.909 11.22 3.31 0.00 4.49
3045 3176 2.095869 GTCACAGCATGAGAGCAACAAG 60.096 50.000 0.00 0.00 36.06 3.16
3054 3185 5.180680 TCTTCTCAAAATGTCACAGCATGAG 59.819 40.000 0.00 9.25 39.69 2.90
3085 3227 9.366216 TCACGCTTAATAGCCAATATTAGTATG 57.634 33.333 0.00 0.00 44.86 2.39
3218 3360 4.718276 GGGGTCATCTTACCAACCTTAGTA 59.282 45.833 0.00 0.00 41.67 1.82
3268 3410 8.246180 CACAAATAACAAAGGATGTAATGCTCT 58.754 33.333 0.00 0.00 43.79 4.09
3421 3563 4.301628 CTTGAAAGCACTTCCATGTTTCC 58.698 43.478 0.00 0.00 32.53 3.13
3512 3656 9.959721 ACATGTATAAACAGTTCCTTCAGTTAT 57.040 29.630 0.00 0.00 39.49 1.89
3513 3657 9.431887 GACATGTATAAACAGTTCCTTCAGTTA 57.568 33.333 0.00 0.00 39.49 2.24
3704 3848 1.391485 CACTTCATCGTCGCTTTCCTG 59.609 52.381 0.00 0.00 0.00 3.86
3733 3877 0.606401 AAGCACCACCAGGAATGTCG 60.606 55.000 0.00 0.00 38.69 4.35
3832 3976 3.515502 ACATTTCTAGGTACTCAGCTGCA 59.484 43.478 9.47 0.00 41.75 4.41
3895 4039 2.524569 TGCTCGATGTCAAGAACACA 57.475 45.000 0.00 0.00 41.75 3.72
4015 4159 0.447406 TTGACGCCTTCGATGCAATG 59.553 50.000 8.02 0.00 39.41 2.82
4446 4590 9.932207 TTCTCTTTACCAAGTTATCACGATAAA 57.068 29.630 1.12 0.00 35.30 1.40
4540 4684 6.767423 CCATGATCAGGTCAACATTATACACA 59.233 38.462 6.62 0.00 40.97 3.72
4552 4696 4.901250 TCTACTATTGCCATGATCAGGTCA 59.099 41.667 6.62 0.00 42.06 4.02
4697 4841 5.570973 CGATCTCACCAAGATATTCATCGAC 59.429 44.000 0.00 0.00 45.06 4.20
4872 5016 1.901591 AACTCCCAACAGCAGACATG 58.098 50.000 0.00 0.00 0.00 3.21
5035 5179 0.648441 GAACTTGCACAACGACACGA 59.352 50.000 0.00 0.00 0.00 4.35
5041 5185 3.951979 AAGAAGAGAACTTGCACAACG 57.048 42.857 0.00 0.00 36.39 4.10
5161 5305 0.176680 CTGACCTTGAGCTGCCGTAT 59.823 55.000 0.00 0.00 0.00 3.06
5209 5353 1.257750 TGGATGTCGGGACTCCACTG 61.258 60.000 12.81 0.00 35.34 3.66
5236 5380 2.069273 CGCATCGACCTGAAAGAGTTT 58.931 47.619 0.00 0.00 34.07 2.66
5239 5383 1.424493 GCCGCATCGACCTGAAAGAG 61.424 60.000 0.00 0.00 34.07 2.85
5599 5744 2.448453 GGCAGTCAGTAGTACTCCACT 58.552 52.381 0.00 2.82 41.62 4.00
5605 5750 0.175989 GGCAGGGCAGTCAGTAGTAC 59.824 60.000 0.00 0.00 0.00 2.73
5612 5757 3.640407 GACAGGGCAGGGCAGTCA 61.640 66.667 11.07 0.00 0.00 3.41
5613 5758 4.767255 CGACAGGGCAGGGCAGTC 62.767 72.222 7.35 7.35 0.00 3.51
5796 5946 6.369615 GGATTCCAAAACACATGGATTTTCTG 59.630 38.462 0.00 0.00 45.99 3.02
5810 5963 2.488153 CCTTGACGGAGGATTCCAAAAC 59.512 50.000 5.29 0.00 44.26 2.43
5824 5977 3.599343 TGGATGAACTGAATCCTTGACG 58.401 45.455 4.23 0.00 43.52 4.35
5830 5983 2.034305 GCAGCATGGATGAACTGAATCC 59.966 50.000 0.00 0.00 43.44 3.01
5843 5996 2.678934 AGTTGCCAGGCAGCATGG 60.679 61.111 28.29 22.30 43.64 3.66
5847 6000 1.530013 ATTCACAGTTGCCAGGCAGC 61.530 55.000 20.35 20.35 40.61 5.25
5883 6036 5.452356 CCAATGCTCCACCTAAATTCCAATC 60.452 44.000 0.00 0.00 0.00 2.67
5983 6166 5.163874 TGCAAGCACTTGAAAATTTTGTCAC 60.164 36.000 14.44 0.00 42.93 3.67
5984 6167 4.934001 TGCAAGCACTTGAAAATTTTGTCA 59.066 33.333 14.44 0.00 42.93 3.58
5985 6168 5.291614 TCTGCAAGCACTTGAAAATTTTGTC 59.708 36.000 14.44 0.00 42.93 3.18
5992 6186 4.503734 CGAATTTCTGCAAGCACTTGAAAA 59.496 37.500 14.44 10.47 42.93 2.29
6008 6524 7.253422 AGAAATGTGATTCCATGACGAATTTC 58.747 34.615 0.00 1.31 32.56 2.17
6059 6575 6.544928 TGAAGTAGCATTTCCAGAGTATCA 57.455 37.500 0.00 0.00 37.82 2.15
6115 6632 5.601583 TCACATTTCTATAAGGCGTGGTA 57.398 39.130 0.00 0.00 0.00 3.25
6130 6647 8.011106 GCAAAAATTCGTCATGAAATCACATTT 58.989 29.630 0.00 0.00 40.71 2.32
6146 6663 4.775440 TTCAAGTGCTTGCAAAAATTCG 57.225 36.364 0.00 0.00 40.24 3.34
6252 6769 1.173043 AGTGTCCTTCTGCTCTCGAG 58.827 55.000 5.93 5.93 0.00 4.04
6255 6772 3.259625 ACCTAAAGTGTCCTTCTGCTCTC 59.740 47.826 0.00 0.00 0.00 3.20
6274 6791 7.147707 GGTCTGGTTGTAGATATTCTTACACCT 60.148 40.741 0.00 0.00 0.00 4.00
6276 6793 6.985059 GGGTCTGGTTGTAGATATTCTTACAC 59.015 42.308 0.00 0.00 0.00 2.90
6277 6794 6.901300 AGGGTCTGGTTGTAGATATTCTTACA 59.099 38.462 0.00 0.00 0.00 2.41
6304 6821 2.512515 GCTGTCCGCCCAGATGTC 60.513 66.667 3.98 0.00 34.23 3.06
6314 6831 2.811317 GTCAAGGCGAGCTGTCCG 60.811 66.667 0.00 0.00 0.00 4.79
6322 6839 1.503818 GCGTTTCTTGGTCAAGGCGA 61.504 55.000 18.72 4.04 38.88 5.54
6327 6844 1.104577 GGGTGGCGTTTCTTGGTCAA 61.105 55.000 0.00 0.00 0.00 3.18
6377 6894 2.197577 GCTCGGAGACTTAATGCTCAC 58.802 52.381 9.69 0.00 32.83 3.51
6389 6906 2.473760 GCTAGTGAGCGCTCGGAGA 61.474 63.158 30.75 12.13 39.39 3.71
6408 6925 0.253044 TGAGCAGGCCCATGTTCTAC 59.747 55.000 0.00 0.00 32.21 2.59
6412 6929 2.062971 CTAATGAGCAGGCCCATGTT 57.937 50.000 0.00 0.00 0.00 2.71
6413 6930 3.815133 CTAATGAGCAGGCCCATGT 57.185 52.632 0.00 0.00 0.00 3.21
6441 6958 6.941590 GTTTTCCTAAAACTTGTCGTAACG 57.058 37.500 7.78 0.00 45.55 3.18
6458 6975 5.446260 TTAGGGGATCTACAAGGTTTTCC 57.554 43.478 0.00 0.00 41.05 3.13
6459 6976 7.770366 TTTTTAGGGGATCTACAAGGTTTTC 57.230 36.000 0.00 0.00 0.00 2.29
6480 6997 7.597288 AGCTTCTACATGGTTTTACCTTTTT 57.403 32.000 0.00 0.00 39.58 1.94
6481 6998 7.505923 AGAAGCTTCTACATGGTTTTACCTTTT 59.494 33.333 27.47 0.00 35.88 2.27
6482 6999 7.004691 AGAAGCTTCTACATGGTTTTACCTTT 58.995 34.615 27.47 0.00 35.88 3.11
6483 7000 6.431234 CAGAAGCTTCTACATGGTTTTACCTT 59.569 38.462 28.02 0.00 35.88 3.50
6484 7001 5.940470 CAGAAGCTTCTACATGGTTTTACCT 59.060 40.000 28.02 0.00 35.88 3.08
6485 7002 5.123979 CCAGAAGCTTCTACATGGTTTTACC 59.876 44.000 28.02 0.00 35.59 2.85
6486 7003 6.183309 CCAGAAGCTTCTACATGGTTTTAC 57.817 41.667 28.02 0.00 35.34 2.01


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

AutoCloner maintained by Alex Coulton.