Multiple sequence alignment - TraesCS5D01G221800

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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 TraesCS5D01G221800 chr5D 100.000 3677 0 0 1 3677 329277828 329274152 0.000000e+00 6791.0
1 TraesCS5D01G221800 chr5D 90.997 1555 69 18 1 1545 329434210 329432717 0.000000e+00 2030.0
2 TraesCS5D01G221800 chr5D 96.154 1066 37 2 1627 2692 329432718 329431657 0.000000e+00 1738.0
3 TraesCS5D01G221800 chr5D 96.100 359 13 1 1 359 329434692 329434335 5.290000e-163 584.0
4 TraesCS5D01G221800 chr5B 93.734 1548 81 12 1 1540 382383189 382381650 0.000000e+00 2307.0
5 TraesCS5D01G221800 chr5B 94.008 1452 68 9 1 1437 382594260 382595707 0.000000e+00 2182.0
6 TraesCS5D01G221800 chr5B 96.718 1158 34 4 1537 2692 382381350 382380195 0.000000e+00 1925.0
7 TraesCS5D01G221800 chr5B 95.122 1066 48 2 1627 2692 382596486 382597547 0.000000e+00 1677.0
8 TraesCS5D01G221800 chr5B 95.792 808 33 1 1 808 382384809 382384003 0.000000e+00 1303.0
9 TraesCS5D01G221800 chr5B 92.812 320 16 4 2690 3009 382380148 382379836 1.200000e-124 457.0
10 TraesCS5D01G221800 chr5B 86.697 218 17 3 2685 2890 382597588 382597805 7.940000e-57 231.0
11 TraesCS5D01G221800 chr5B 95.726 117 5 0 1429 1545 382596371 382596487 4.850000e-44 189.0
12 TraesCS5D01G221800 chr5A 93.609 1549 87 6 1 1545 427320165 427321705 0.000000e+00 2302.0
13 TraesCS5D01G221800 chr5A 95.872 1066 40 2 1627 2692 427206468 427207529 0.000000e+00 1722.0
14 TraesCS5D01G221800 chr5A 95.685 1066 40 3 1627 2692 427321704 427322763 0.000000e+00 1709.0
15 TraesCS5D01G221800 chr5A 94.935 770 25 6 3 760 427204973 427205740 0.000000e+00 1194.0
16 TraesCS5D01G221800 chr5A 92.960 696 36 7 855 1545 427205782 427206469 0.000000e+00 1002.0
17 TraesCS5D01G221800 chr5A 91.906 593 33 3 2690 3280 427322810 427323389 0.000000e+00 815.0
18 TraesCS5D01G221800 chr5A 86.957 207 16 2 2690 2885 427207576 427207782 4.780000e-54 222.0
19 TraesCS5D01G221800 chr5A 90.698 172 9 4 3498 3665 427324100 427324268 4.780000e-54 222.0
20 TraesCS5D01G221800 chr5A 97.826 46 1 0 790 835 427205736 427205781 3.040000e-11 80.5
21 TraesCS5D01G221800 chr3B 87.332 371 34 7 901 1263 793140925 793141290 2.640000e-111 412.0
22 TraesCS5D01G221800 chr7D 76.424 509 75 27 844 1344 402030090 402030561 2.210000e-57 233.0
23 TraesCS5D01G221800 chr7D 76.181 508 76 29 845 1344 402048244 402048714 3.690000e-55 226.0
24 TraesCS5D01G221800 chr7D 96.703 91 3 0 1544 1634 5068086 5068176 6.360000e-33 152.0
25 TraesCS5D01G221800 chr7A 84.756 164 19 4 855 1014 29439358 29439519 3.800000e-35 159.0
26 TraesCS5D01G221800 chr4D 96.842 95 1 2 1542 1634 352142604 352142510 1.370000e-34 158.0
27 TraesCS5D01G221800 chr1D 94.118 102 5 1 1535 1636 295954208 295954308 1.770000e-33 154.0
28 TraesCS5D01G221800 chr1D 93.269 104 5 2 1535 1637 301353496 301353598 6.360000e-33 152.0
29 TraesCS5D01G221800 chr2B 93.204 103 5 2 1534 1636 785826012 785825912 2.290000e-32 150.0
30 TraesCS5D01G221800 chrUn 94.792 96 3 2 1533 1628 68883259 68883352 8.230000e-32 148.0
31 TraesCS5D01G221800 chr7B 92.233 103 5 2 1531 1633 625161325 625161226 3.830000e-30 143.0
32 TraesCS5D01G221800 chr3D 90.741 108 6 4 1530 1636 303788445 303788549 1.380000e-29 141.0
33 TraesCS5D01G221800 chr3D 93.243 74 3 1 1093 1166 401020905 401020834 1.400000e-19 108.0
34 TraesCS5D01G221800 chr3D 81.890 127 19 4 1055 1179 60520416 60520540 1.810000e-18 104.0
35 TraesCS5D01G221800 chr2D 92.308 78 4 1 1089 1166 612497562 612497637 3.880000e-20 110.0
36 TraesCS5D01G221800 chr6A 93.243 74 3 2 596 668 583724402 583724330 1.400000e-19 108.0


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 TraesCS5D01G221800 chr5D 329274152 329277828 3676 True 6791.000000 6791 100.00000 1 3677 1 chr5D.!!$R1 3676
1 TraesCS5D01G221800 chr5D 329431657 329434692 3035 True 1450.666667 2030 94.41700 1 2692 3 chr5D.!!$R2 2691
2 TraesCS5D01G221800 chr5B 382379836 382384809 4973 True 1498.000000 2307 94.76400 1 3009 4 chr5B.!!$R1 3008
3 TraesCS5D01G221800 chr5B 382594260 382597805 3545 False 1069.750000 2182 92.88825 1 2890 4 chr5B.!!$F1 2889
4 TraesCS5D01G221800 chr5A 427320165 427324268 4103 False 1262.000000 2302 92.97450 1 3665 4 chr5A.!!$F2 3664
5 TraesCS5D01G221800 chr5A 427204973 427207782 2809 False 844.100000 1722 93.71000 3 2885 5 chr5A.!!$F1 2882

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
299 765 0.895530 GGCTGTAGACCTGTAGTGCA 59.104 55.0 0.00 0.0 0.00 4.57 F
1814 5004 0.243095 CTCTGGCTGGCAAAGAAAGC 59.757 55.0 5.14 0.0 36.17 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1841 5031 1.138568 AGGCCTGAATCTGGGATCTG 58.861 55.0 3.11 0.0 0.00 2.90 R
3157 6410 0.036010 CCTTCCGCAACATGGACTCT 60.036 55.0 0.00 0.0 34.56 3.24 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
106 111 5.942236 TGTCTAATCTACCTGTTCTGTACGT 59.058 40.000 0.00 0.00 0.00 3.57
184 189 1.377202 GCTCGAATGCCCAAGTGGA 60.377 57.895 0.00 0.00 37.39 4.02
229 234 2.607635 CGTATACGCTTGCTGATTGGTT 59.392 45.455 13.08 0.00 0.00 3.67
299 765 0.895530 GGCTGTAGACCTGTAGTGCA 59.104 55.000 0.00 0.00 0.00 4.57
556 1035 4.684484 ATCTATGTTCATCTCTGCAGCA 57.316 40.909 9.47 0.00 0.00 4.41
576 1055 6.288419 CAGCATTGTAATTTTGTACAAACGC 58.712 36.000 20.43 12.11 44.80 4.84
656 1136 7.686438 TGAAAATCAAGCATCAGTAAAGCTA 57.314 32.000 0.00 0.00 37.70 3.32
837 2950 8.749841 TTAATAATGTGTGAAAATTTGGACGG 57.250 30.769 0.00 0.00 0.00 4.79
838 2951 4.927978 AATGTGTGAAAATTTGGACGGA 57.072 36.364 0.00 0.00 0.00 4.69
839 2952 4.927978 ATGTGTGAAAATTTGGACGGAA 57.072 36.364 0.00 0.00 0.00 4.30
871 2984 4.935205 TGTCATGTAGTTGCTATTGGTGAC 59.065 41.667 0.00 0.00 35.32 3.67
876 2989 8.700973 TCATGTAGTTGCTATTGGTGACTTATA 58.299 33.333 0.00 0.00 0.00 0.98
1035 3156 1.295792 GCTGTGTTCAAGTCGACCAA 58.704 50.000 13.01 0.00 0.00 3.67
1041 3162 4.038763 TGTGTTCAAGTCGACCAATCTACT 59.961 41.667 13.01 0.00 32.39 2.57
1173 3294 4.175489 CAGCTGGATGTGCGCTGC 62.175 66.667 9.73 1.68 43.75 5.25
1239 3362 7.093322 ACAAAATGGATGCTTAGATGTCTTC 57.907 36.000 0.00 0.00 0.00 2.87
1247 3370 7.930325 TGGATGCTTAGATGTCTTCTATTTCTG 59.070 37.037 0.00 0.00 36.81 3.02
1265 3388 4.038271 TCTGAAGAAAATGGTGCCATCT 57.962 40.909 3.96 0.00 35.31 2.90
1328 3454 5.724854 TCTTATAGTAGGTCTTTGTGGGCTT 59.275 40.000 0.00 0.00 0.00 4.35
1398 3530 5.885912 ACCTTCTATGTAAAATGAACGGCAT 59.114 36.000 0.00 0.00 39.43 4.40
1485 4289 5.353938 CATTTTGGTTTGCCATCTGGATAG 58.646 41.667 0.00 0.00 45.56 2.08
1517 4321 3.624861 GTGACTGCCACATGAGATTAAGG 59.375 47.826 0.00 0.00 45.03 2.69
1552 4742 9.377312 CGTATAACTATACTTACTACTCCCTCC 57.623 40.741 5.57 0.00 37.10 4.30
1555 4745 9.978336 ATAACTATACTTACTACTCCCTCCATC 57.022 37.037 0.00 0.00 0.00 3.51
1556 4746 6.792424 ACTATACTTACTACTCCCTCCATCC 58.208 44.000 0.00 0.00 0.00 3.51
1557 4747 3.331718 ACTTACTACTCCCTCCATCCC 57.668 52.381 0.00 0.00 0.00 3.85
1558 4748 2.590611 ACTTACTACTCCCTCCATCCCA 59.409 50.000 0.00 0.00 0.00 4.37
1559 4749 3.210074 ACTTACTACTCCCTCCATCCCAT 59.790 47.826 0.00 0.00 0.00 4.00
1560 4750 4.422592 ACTTACTACTCCCTCCATCCCATA 59.577 45.833 0.00 0.00 0.00 2.74
1561 4751 5.102783 ACTTACTACTCCCTCCATCCCATAA 60.103 44.000 0.00 0.00 0.00 1.90
1562 4752 4.510303 ACTACTCCCTCCATCCCATAAT 57.490 45.455 0.00 0.00 0.00 1.28
1563 4753 5.633473 ACTACTCCCTCCATCCCATAATA 57.367 43.478 0.00 0.00 0.00 0.98
1564 4754 6.185677 ACTACTCCCTCCATCCCATAATAT 57.814 41.667 0.00 0.00 0.00 1.28
1565 4755 7.312162 ACTACTCCCTCCATCCCATAATATA 57.688 40.000 0.00 0.00 0.00 0.86
1566 4756 7.729350 ACTACTCCCTCCATCCCATAATATAA 58.271 38.462 0.00 0.00 0.00 0.98
1567 4757 7.846823 ACTACTCCCTCCATCCCATAATATAAG 59.153 40.741 0.00 0.00 0.00 1.73
1568 4758 6.826727 ACTCCCTCCATCCCATAATATAAGA 58.173 40.000 0.00 0.00 0.00 2.10
1569 4759 6.905776 ACTCCCTCCATCCCATAATATAAGAG 59.094 42.308 0.00 0.00 0.00 2.85
1570 4760 5.667626 TCCCTCCATCCCATAATATAAGAGC 59.332 44.000 0.00 0.00 0.00 4.09
1571 4761 5.429762 CCCTCCATCCCATAATATAAGAGCA 59.570 44.000 0.00 0.00 0.00 4.26
1572 4762 6.102321 CCCTCCATCCCATAATATAAGAGCAT 59.898 42.308 0.00 0.00 0.00 3.79
1573 4763 7.367186 CCCTCCATCCCATAATATAAGAGCATT 60.367 40.741 0.00 0.00 0.00 3.56
1574 4764 8.057623 CCTCCATCCCATAATATAAGAGCATTT 58.942 37.037 0.00 0.00 0.00 2.32
1575 4765 9.471702 CTCCATCCCATAATATAAGAGCATTTT 57.528 33.333 0.00 0.00 0.00 1.82
1576 4766 9.827198 TCCATCCCATAATATAAGAGCATTTTT 57.173 29.630 0.00 0.00 0.00 1.94
1603 4793 6.127403 CACTAGTTTAGTGTCAAAAACGCTC 58.873 40.000 7.84 0.00 45.69 5.03
1604 4794 6.018994 CACTAGTTTAGTGTCAAAAACGCTCT 60.019 38.462 7.84 0.00 45.69 4.09
1605 4795 5.813080 AGTTTAGTGTCAAAAACGCTCTT 57.187 34.783 0.00 0.00 45.69 2.85
1606 4796 6.913873 AGTTTAGTGTCAAAAACGCTCTTA 57.086 33.333 0.00 0.00 45.69 2.10
1607 4797 7.492352 AGTTTAGTGTCAAAAACGCTCTTAT 57.508 32.000 0.00 0.00 45.69 1.73
1608 4798 8.597662 AGTTTAGTGTCAAAAACGCTCTTATA 57.402 30.769 0.00 0.00 45.69 0.98
1609 4799 9.216117 AGTTTAGTGTCAAAAACGCTCTTATAT 57.784 29.630 0.00 0.00 45.69 0.86
1610 4800 9.821662 GTTTAGTGTCAAAAACGCTCTTATATT 57.178 29.630 0.00 0.00 45.69 1.28
1614 4804 8.612619 AGTGTCAAAAACGCTCTTATATTATGG 58.387 33.333 0.00 0.00 45.69 2.74
1615 4805 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
1616 4806 7.771361 TGTCAAAAACGCTCTTATATTATGGGA 59.229 33.333 0.00 0.00 0.00 4.37
1617 4807 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
1618 4808 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
1619 4809 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
1620 4810 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
1621 4811 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
1622 4812 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
1623 4813 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
1624 4814 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
1625 4815 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
1626 4816 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
1627 4817 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
1814 5004 0.243095 CTCTGGCTGGCAAAGAAAGC 59.757 55.000 5.14 0.00 36.17 3.51
1841 5031 4.083484 GCATACTACAAACTGACCAACACC 60.083 45.833 0.00 0.00 0.00 4.16
1924 5114 8.648557 TTACTATATGCTGTTTCAGTAGCTTG 57.351 34.615 0.00 0.00 40.52 4.01
1958 5148 9.485206 CATATCATCACTGATACAACTGAATGA 57.515 33.333 0.00 0.00 44.94 2.57
1983 5173 8.608185 AAATTTGTTCACCATATCCCACTATT 57.392 30.769 0.00 0.00 0.00 1.73
1984 5174 7.823745 ATTTGTTCACCATATCCCACTATTC 57.176 36.000 0.00 0.00 0.00 1.75
1985 5175 5.304686 TGTTCACCATATCCCACTATTCC 57.695 43.478 0.00 0.00 0.00 3.01
2226 5419 5.163591 TGAGATCAATGCAGGTTATTTGCTG 60.164 40.000 0.00 0.00 42.02 4.41
2255 5448 3.498018 TGATGTGATGAAAGTTGGACACG 59.502 43.478 0.00 0.00 0.00 4.49
2269 5462 6.985117 AGTTGGACACGTGTACTTAAATCTA 58.015 36.000 30.10 5.82 0.00 1.98
2701 5943 2.649331 TTGCTTCGCCTACAGTACTC 57.351 50.000 0.00 0.00 0.00 2.59
2718 5960 6.263392 ACAGTACTCTCTAATATGATGCGTGT 59.737 38.462 0.00 0.00 0.00 4.49
2719 5961 7.142021 CAGTACTCTCTAATATGATGCGTGTT 58.858 38.462 0.00 0.00 0.00 3.32
2801 6054 6.428083 AACAAAACCTTTAACCTATTGGGG 57.572 37.500 0.00 0.00 40.03 4.96
2825 6078 6.072838 GGATGCAGGATGATATAAGTGTGTTG 60.073 42.308 0.00 0.00 39.69 3.33
2855 6108 5.819379 TGCTGGTGATGAACTTGATCTAATC 59.181 40.000 0.00 0.00 0.00 1.75
2907 6160 4.277921 TGCTGTCAGTTGCATGTAAAATGA 59.722 37.500 0.00 3.68 33.94 2.57
2925 6178 9.759259 GTAAAATGACGGTTTAAGGTTACATAC 57.241 33.333 0.00 0.00 0.00 2.39
2928 6181 8.625786 AATGACGGTTTAAGGTTACATACTTT 57.374 30.769 0.00 0.00 0.00 2.66
2978 6231 1.200020 CCTGTTTTGCGAGGGAATGTC 59.800 52.381 0.00 0.00 0.00 3.06
3025 6278 4.871993 CTGGAATACAGTGTGAAGATGC 57.128 45.455 5.88 0.00 42.42 3.91
3031 6284 2.923121 ACAGTGTGAAGATGCAGTGTT 58.077 42.857 0.00 0.00 44.12 3.32
3037 6290 1.421268 TGAAGATGCAGTGTTGGGAGT 59.579 47.619 0.00 0.00 0.00 3.85
3067 6320 6.617317 GCATATAGCAAGTTAGCGATGAACTG 60.617 42.308 0.00 0.00 44.79 3.16
3076 6329 2.783135 AGCGATGAACTGGAAACATGT 58.217 42.857 0.00 0.00 41.51 3.21
3077 6330 3.937814 AGCGATGAACTGGAAACATGTA 58.062 40.909 0.00 0.00 41.51 2.29
3078 6331 3.684788 AGCGATGAACTGGAAACATGTAC 59.315 43.478 0.00 0.00 41.51 2.90
3188 6441 1.005394 CGGAAGGGTAGCACGTGTT 60.005 57.895 18.38 14.48 0.00 3.32
3197 6450 1.095600 TAGCACGTGTTGGTTTGCAA 58.904 45.000 18.38 0.00 37.44 4.08
3214 6469 2.803817 AACTGCGGAAGGACCACGT 61.804 57.895 0.00 0.00 38.90 4.49
3232 6487 2.186076 CGTTGTAGCTTCGAGTCCATC 58.814 52.381 0.00 0.00 0.00 3.51
3241 6496 3.318017 CTTCGAGTCCATCTTTCGTTGT 58.682 45.455 0.00 0.00 35.90 3.32
3242 6497 3.380479 TCGAGTCCATCTTTCGTTGTT 57.620 42.857 0.00 0.00 35.90 2.83
3251 6506 1.666700 TCTTTCGTTGTTGAACACCCG 59.333 47.619 0.00 3.79 31.78 5.28
3280 6535 2.046892 GTGCGTGCTCTGGGATGT 60.047 61.111 0.00 0.00 0.00 3.06
3281 6536 2.103042 GTGCGTGCTCTGGGATGTC 61.103 63.158 0.00 0.00 0.00 3.06
3319 7117 3.305398 GCTTGCCAGCGATAGTAGTAT 57.695 47.619 0.00 0.00 35.91 2.12
3342 7140 2.507944 CCCTCCTTGATCCAGCGG 59.492 66.667 0.00 0.00 0.00 5.52
3347 7145 1.821332 CCTTGATCCAGCGGAAGGC 60.821 63.158 1.44 0.00 44.05 4.35
3349 7147 2.262774 CTTGATCCAGCGGAAGGCCT 62.263 60.000 0.00 0.00 45.17 5.19
3350 7148 2.110006 GATCCAGCGGAAGGCCTC 59.890 66.667 5.23 0.00 45.17 4.70
3351 7149 2.688666 ATCCAGCGGAAGGCCTCA 60.689 61.111 5.23 0.00 45.17 3.86
3387 7185 4.025401 GGGCGTTGTTGCTGTCCG 62.025 66.667 0.00 0.00 34.52 4.79
3405 7203 0.098200 CGGCTCAAGTGCATGATGTG 59.902 55.000 0.00 0.00 34.04 3.21
3406 7204 0.454600 GGCTCAAGTGCATGATGTGG 59.545 55.000 0.00 0.00 34.04 4.17
3407 7205 1.171308 GCTCAAGTGCATGATGTGGT 58.829 50.000 0.00 0.00 0.00 4.16
3408 7206 1.131883 GCTCAAGTGCATGATGTGGTC 59.868 52.381 0.00 0.00 0.00 4.02
3409 7207 2.708051 CTCAAGTGCATGATGTGGTCT 58.292 47.619 0.00 0.00 0.00 3.85
3410 7208 3.865446 CTCAAGTGCATGATGTGGTCTA 58.135 45.455 0.00 0.00 0.00 2.59
3411 7209 3.599343 TCAAGTGCATGATGTGGTCTAC 58.401 45.455 0.00 0.00 0.00 2.59
3412 7210 3.007831 TCAAGTGCATGATGTGGTCTACA 59.992 43.478 0.00 0.00 44.87 2.74
3413 7211 3.701205 AGTGCATGATGTGGTCTACAA 57.299 42.857 0.00 0.00 43.77 2.41
3414 7212 4.226427 AGTGCATGATGTGGTCTACAAT 57.774 40.909 0.00 0.00 43.77 2.71
3415 7213 5.357742 AGTGCATGATGTGGTCTACAATA 57.642 39.130 0.00 0.00 43.77 1.90
3416 7214 5.118990 AGTGCATGATGTGGTCTACAATAC 58.881 41.667 0.00 0.00 43.77 1.89
3417 7215 4.875536 GTGCATGATGTGGTCTACAATACA 59.124 41.667 0.00 0.00 43.77 2.29
3418 7216 5.528690 GTGCATGATGTGGTCTACAATACAT 59.471 40.000 0.00 0.00 43.77 2.29
3419 7217 5.528320 TGCATGATGTGGTCTACAATACATG 59.472 40.000 19.67 19.67 43.77 3.21
3420 7218 5.993891 CATGATGTGGTCTACAATACATGC 58.006 41.667 15.50 0.00 43.77 4.06
3452 7250 7.451877 CCAATACAGGCTATCCTAGTTAGAGAA 59.548 40.741 0.00 0.00 41.93 2.87
3453 7251 9.030452 CAATACAGGCTATCCTAGTTAGAGAAT 57.970 37.037 0.00 0.00 41.93 2.40
3455 7253 5.245075 ACAGGCTATCCTAGTTAGAGAATGC 59.755 44.000 0.00 0.00 41.93 3.56
3457 7255 4.528596 GGCTATCCTAGTTAGAGAATGCCA 59.471 45.833 0.00 0.00 34.30 4.92
3459 7257 6.162777 GCTATCCTAGTTAGAGAATGCCAAG 58.837 44.000 2.05 0.00 0.00 3.61
3460 7258 5.559148 ATCCTAGTTAGAGAATGCCAAGG 57.441 43.478 0.00 0.00 0.00 3.61
3461 7259 3.711704 TCCTAGTTAGAGAATGCCAAGGG 59.288 47.826 0.00 0.00 0.00 3.95
3462 7260 3.181450 CCTAGTTAGAGAATGCCAAGGGG 60.181 52.174 0.00 0.00 37.18 4.79
3463 7261 2.279173 AGTTAGAGAATGCCAAGGGGT 58.721 47.619 0.00 0.00 36.17 4.95
3464 7262 2.649816 AGTTAGAGAATGCCAAGGGGTT 59.350 45.455 0.00 0.00 36.17 4.11
3465 7263 2.755103 GTTAGAGAATGCCAAGGGGTTG 59.245 50.000 0.00 0.00 36.17 3.77
3466 7264 0.779997 AGAGAATGCCAAGGGGTTGT 59.220 50.000 0.00 0.00 36.17 3.32
3467 7265 0.890683 GAGAATGCCAAGGGGTTGTG 59.109 55.000 0.00 0.00 36.17 3.33
3468 7266 0.188342 AGAATGCCAAGGGGTTGTGT 59.812 50.000 0.00 0.00 36.17 3.72
3469 7267 0.318120 GAATGCCAAGGGGTTGTGTG 59.682 55.000 0.00 0.00 36.17 3.82
3470 7268 1.757423 AATGCCAAGGGGTTGTGTGC 61.757 55.000 0.00 0.00 36.17 4.57
3471 7269 3.615709 GCCAAGGGGTTGTGTGCC 61.616 66.667 0.00 0.00 36.17 5.01
3472 7270 3.294493 CCAAGGGGTTGTGTGCCG 61.294 66.667 0.00 0.00 0.00 5.69
3473 7271 2.203280 CAAGGGGTTGTGTGCCGA 60.203 61.111 0.00 0.00 0.00 5.54
3474 7272 2.113139 AAGGGGTTGTGTGCCGAG 59.887 61.111 0.00 0.00 0.00 4.63
3475 7273 2.448582 AAGGGGTTGTGTGCCGAGA 61.449 57.895 0.00 0.00 0.00 4.04
3476 7274 1.779061 AAGGGGTTGTGTGCCGAGAT 61.779 55.000 0.00 0.00 0.00 2.75
3477 7275 0.907704 AGGGGTTGTGTGCCGAGATA 60.908 55.000 0.00 0.00 0.00 1.98
3478 7276 0.180406 GGGGTTGTGTGCCGAGATAT 59.820 55.000 0.00 0.00 0.00 1.63
3479 7277 1.408266 GGGGTTGTGTGCCGAGATATT 60.408 52.381 0.00 0.00 0.00 1.28
3480 7278 1.670811 GGGTTGTGTGCCGAGATATTG 59.329 52.381 0.00 0.00 0.00 1.90
3481 7279 1.670811 GGTTGTGTGCCGAGATATTGG 59.329 52.381 0.00 0.00 0.00 3.16
3495 7293 8.075593 CCGAGATATTGGCAAAATAAAATTGG 57.924 34.615 3.01 0.00 0.00 3.16
3496 7294 7.710475 CCGAGATATTGGCAAAATAAAATTGGT 59.290 33.333 3.01 0.00 0.00 3.67
3546 7344 0.188342 ACCAAACCAAGCAGGGTGAT 59.812 50.000 0.00 0.00 41.32 3.06
3578 7379 4.315803 AGAGGATGTTCGACGACAAAAAT 58.684 39.130 0.00 0.00 32.47 1.82
3587 7388 7.822713 TGTTCGACGACAAAAATTTAATGTTG 58.177 30.769 16.92 16.92 35.12 3.33
3589 7390 7.597643 TCGACGACAAAAATTTAATGTTGAC 57.402 32.000 22.07 17.18 33.56 3.18
3592 7393 7.371338 ACGACAAAAATTTAATGTTGACGAC 57.629 32.000 22.53 6.63 40.06 4.34
3634 7435 0.036765 TGATAGCCACGGGTGTTGTC 60.037 55.000 0.00 0.00 0.00 3.18
3639 7440 2.279851 CACGGGTGTTGTCGCTCA 60.280 61.111 0.00 0.00 0.00 4.26
3643 7444 0.719465 CGGGTGTTGTCGCTCATAAC 59.281 55.000 0.00 0.00 0.00 1.89
3665 7466 3.371917 CCATGAAGGAGGGATGTTGCTAA 60.372 47.826 0.00 0.00 41.22 3.09
3666 7467 4.467769 CATGAAGGAGGGATGTTGCTAAT 58.532 43.478 0.00 0.00 0.00 1.73
3667 7468 3.889815 TGAAGGAGGGATGTTGCTAATG 58.110 45.455 0.00 0.00 0.00 1.90
3668 7469 3.217626 GAAGGAGGGATGTTGCTAATGG 58.782 50.000 0.00 0.00 0.00 3.16
3669 7470 2.492025 AGGAGGGATGTTGCTAATGGA 58.508 47.619 0.00 0.00 0.00 3.41
3670 7471 2.852449 AGGAGGGATGTTGCTAATGGAA 59.148 45.455 0.00 0.00 0.00 3.53
3671 7472 3.117738 AGGAGGGATGTTGCTAATGGAAG 60.118 47.826 0.00 0.00 0.00 3.46
3672 7473 2.620585 GAGGGATGTTGCTAATGGAAGC 59.379 50.000 0.00 0.00 43.08 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 111 7.253905 AGGCTATTTGTAAAGGAGACAACTA 57.746 36.000 0.00 0.00 36.55 2.24
184 189 5.237344 GCATCCTAAGCAATTCACTAATCGT 59.763 40.000 0.00 0.00 0.00 3.73
229 234 3.561960 CCACTTGGATGGAGACCAATGAA 60.562 47.826 0.00 0.00 44.74 2.57
257 262 6.925165 GCCTGTTCAATTATCCCATTGTTATG 59.075 38.462 0.00 0.00 35.86 1.90
299 765 0.254747 TGCGCCTTATAAGCAAGGGT 59.745 50.000 4.18 0.00 44.56 4.34
324 790 3.620488 CTTTACAAGGAAGGCAGGCATA 58.380 45.455 0.00 0.00 0.00 3.14
537 1016 4.575236 ACAATGCTGCAGAGATGAACATAG 59.425 41.667 20.43 0.00 0.00 2.23
682 1162 6.668283 TGCCTCTAAACACCTAGAGAAATACT 59.332 38.462 8.83 0.00 45.34 2.12
687 1167 4.157246 TGTGCCTCTAAACACCTAGAGAA 58.843 43.478 8.83 0.00 45.34 2.87
827 2940 6.036577 ACAATAAATGCTTCCGTCCAAATT 57.963 33.333 0.00 0.00 0.00 1.82
828 2941 5.184864 TGACAATAAATGCTTCCGTCCAAAT 59.815 36.000 0.00 0.00 0.00 2.32
829 2942 4.520874 TGACAATAAATGCTTCCGTCCAAA 59.479 37.500 0.00 0.00 0.00 3.28
830 2943 4.075682 TGACAATAAATGCTTCCGTCCAA 58.924 39.130 0.00 0.00 0.00 3.53
831 2944 3.680490 TGACAATAAATGCTTCCGTCCA 58.320 40.909 0.00 0.00 0.00 4.02
832 2945 4.096382 ACATGACAATAAATGCTTCCGTCC 59.904 41.667 0.00 0.00 0.00 4.79
833 2946 5.235305 ACATGACAATAAATGCTTCCGTC 57.765 39.130 0.00 0.00 0.00 4.79
834 2947 5.880332 ACTACATGACAATAAATGCTTCCGT 59.120 36.000 0.00 0.00 0.00 4.69
835 2948 6.363577 ACTACATGACAATAAATGCTTCCG 57.636 37.500 0.00 0.00 0.00 4.30
836 2949 6.473455 GCAACTACATGACAATAAATGCTTCC 59.527 38.462 0.00 0.00 0.00 3.46
837 2950 7.253422 AGCAACTACATGACAATAAATGCTTC 58.747 34.615 0.00 0.00 37.11 3.86
838 2951 7.161773 AGCAACTACATGACAATAAATGCTT 57.838 32.000 0.00 0.00 37.11 3.91
839 2952 6.764308 AGCAACTACATGACAATAAATGCT 57.236 33.333 0.00 1.45 35.73 3.79
992 3113 1.561076 ACAGATTGCCCATACTGCAGA 59.439 47.619 23.35 4.31 40.35 4.26
1035 3156 2.964464 CTCTCTGATGGCCACAGTAGAT 59.036 50.000 25.12 4.03 36.81 1.98
1041 3162 1.196766 ACTGCTCTCTGATGGCCACA 61.197 55.000 8.16 7.81 0.00 4.17
1173 3294 8.084590 AGTGATAAACCTTTGTCTTAGTTTCG 57.915 34.615 0.00 0.00 34.46 3.46
1239 3362 6.271488 TGGCACCATTTTCTTCAGAAATAG 57.729 37.500 2.83 0.00 42.83 1.73
1300 3423 5.692204 CCACAAAGACCTACTATAAGATGCG 59.308 44.000 0.00 0.00 0.00 4.73
1328 3454 7.773489 TCAAACAGGGATTCATGTGATTTAA 57.227 32.000 0.00 0.00 38.00 1.52
1440 4244 6.892658 TGCTAAAATTTAGAAGTTGCAGGA 57.107 33.333 16.22 0.00 0.00 3.86
1485 4289 3.674997 TGTGGCAGTCACTTTAGGATTC 58.325 45.455 6.72 0.00 46.20 2.52
1545 4735 6.183361 GCTCTTATATTATGGGATGGAGGGAG 60.183 46.154 0.00 0.00 0.00 4.30
1546 4736 5.667626 GCTCTTATATTATGGGATGGAGGGA 59.332 44.000 0.00 0.00 0.00 4.20
1547 4737 5.429762 TGCTCTTATATTATGGGATGGAGGG 59.570 44.000 0.00 0.00 0.00 4.30
1548 4738 6.566079 TGCTCTTATATTATGGGATGGAGG 57.434 41.667 0.00 0.00 0.00 4.30
1549 4739 9.471702 AAAATGCTCTTATATTATGGGATGGAG 57.528 33.333 0.00 0.00 0.00 3.86
1550 4740 9.827198 AAAAATGCTCTTATATTATGGGATGGA 57.173 29.630 0.00 0.00 0.00 3.41
1580 4770 6.047231 AGAGCGTTTTTGACACTAAACTAGT 58.953 36.000 0.00 0.00 40.28 2.57
1581 4771 6.526566 AGAGCGTTTTTGACACTAAACTAG 57.473 37.500 9.47 0.00 33.24 2.57
1582 4772 6.913873 AAGAGCGTTTTTGACACTAAACTA 57.086 33.333 9.47 0.00 33.24 2.24
1583 4773 5.813080 AAGAGCGTTTTTGACACTAAACT 57.187 34.783 9.47 0.00 33.24 2.66
1584 4774 9.821662 AATATAAGAGCGTTTTTGACACTAAAC 57.178 29.630 3.38 3.38 0.00 2.01
1588 4778 8.612619 CCATAATATAAGAGCGTTTTTGACACT 58.387 33.333 0.00 0.00 0.00 3.55
1589 4779 7.855904 CCCATAATATAAGAGCGTTTTTGACAC 59.144 37.037 0.00 0.00 0.00 3.67
1590 4780 7.771361 TCCCATAATATAAGAGCGTTTTTGACA 59.229 33.333 0.00 0.00 0.00 3.58
1591 4781 8.068380 GTCCCATAATATAAGAGCGTTTTTGAC 58.932 37.037 0.00 0.00 0.00 3.18
1592 4782 7.042321 CGTCCCATAATATAAGAGCGTTTTTGA 60.042 37.037 0.00 0.00 0.00 2.69
1593 4783 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
1594 4784 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
1595 4785 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
1596 4786 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
1597 4787 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
1598 4788 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
1599 4789 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
1600 4790 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
1601 4791 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
1602 4792 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
1603 4793 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1604 4794 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1605 4795 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1606 4796 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1607 4797 4.474303 TTACTCCCTCCGTCCCATAATA 57.526 45.455 0.00 0.00 0.00 0.98
1608 4798 3.339713 TTACTCCCTCCGTCCCATAAT 57.660 47.619 0.00 0.00 0.00 1.28
1609 4799 2.852714 TTACTCCCTCCGTCCCATAA 57.147 50.000 0.00 0.00 0.00 1.90
1610 4800 3.339713 AATTACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
1611 4801 2.191981 AATTACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
1612 4802 2.852714 TAATTACTCCCTCCGTCCCA 57.147 50.000 0.00 0.00 0.00 4.37
1613 4803 5.813513 TTAATAATTACTCCCTCCGTCCC 57.186 43.478 0.00 0.00 0.00 4.46
1614 4804 6.212993 AGGATTAATAATTACTCCCTCCGTCC 59.787 42.308 0.00 0.00 36.04 4.79
1615 4805 7.242322 AGGATTAATAATTACTCCCTCCGTC 57.758 40.000 0.00 0.00 36.04 4.79
1616 4806 7.628501 AAGGATTAATAATTACTCCCTCCGT 57.371 36.000 0.00 0.00 36.04 4.69
1617 4807 9.654663 CTAAAGGATTAATAATTACTCCCTCCG 57.345 37.037 0.00 0.00 36.04 4.63
1653 4843 5.402398 GCAATGTGACCTTTTGGATACTTC 58.598 41.667 0.00 0.00 44.07 3.01
1814 5004 2.597305 GGTCAGTTTGTAGTATGCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
1841 5031 1.138568 AGGCCTGAATCTGGGATCTG 58.861 55.000 3.11 0.00 0.00 2.90
1901 5091 6.051717 CCAAGCTACTGAAACAGCATATAGT 58.948 40.000 0.00 0.00 40.36 2.12
1958 5148 8.608185 AATAGTGGGATATGGTGAACAAATTT 57.392 30.769 0.00 0.00 0.00 1.82
2226 5419 3.350833 ACTTTCATCACATCAGGCCTTC 58.649 45.455 0.00 0.00 0.00 3.46
2255 5448 6.817184 TGATGGAGGCTAGATTTAAGTACAC 58.183 40.000 0.00 0.00 0.00 2.90
2269 5462 5.545335 TCATGTCAGTAATATGATGGAGGCT 59.455 40.000 0.00 0.00 31.24 4.58
2642 5835 1.558756 CAGACTGGCCCTGAAGAAGAT 59.441 52.381 0.00 0.00 33.65 2.40
2701 5943 7.873739 TCATACAACACGCATCATATTAGAG 57.126 36.000 0.00 0.00 0.00 2.43
2801 6054 6.484643 ACAACACACTTATATCATCCTGCATC 59.515 38.462 0.00 0.00 0.00 3.91
2825 6078 4.022935 TCAAGTTCATCACCAGCATTTCAC 60.023 41.667 0.00 0.00 0.00 3.18
2855 6108 3.431912 GGCAAAATAAACGAGGCAAAAGG 59.568 43.478 0.00 0.00 0.00 3.11
2907 6160 8.508875 CATGAAAAGTATGTAACCTTAAACCGT 58.491 33.333 0.00 0.00 0.00 4.83
2908 6161 7.966204 CCATGAAAAGTATGTAACCTTAAACCG 59.034 37.037 0.00 0.00 0.00 4.44
2925 6178 4.156556 TCAGAAGAAATCGCCCATGAAAAG 59.843 41.667 0.00 0.00 0.00 2.27
2928 6181 3.055167 TCTCAGAAGAAATCGCCCATGAA 60.055 43.478 0.00 0.00 0.00 2.57
3011 6264 2.615447 CAACACTGCATCTTCACACTGT 59.385 45.455 0.00 0.00 0.00 3.55
3025 6278 2.254546 TGCTACAACTCCCAACACTG 57.745 50.000 0.00 0.00 0.00 3.66
3031 6284 4.408921 ACTTGCTATATGCTACAACTCCCA 59.591 41.667 0.00 0.00 43.37 4.37
3037 6290 5.838529 TCGCTAACTTGCTATATGCTACAA 58.161 37.500 0.00 0.00 43.37 2.41
3054 6307 4.323417 ACATGTTTCCAGTTCATCGCTAA 58.677 39.130 0.00 0.00 0.00 3.09
3057 6310 3.684788 AGTACATGTTTCCAGTTCATCGC 59.315 43.478 2.30 0.00 0.00 4.58
3058 6311 5.005779 GCTAGTACATGTTTCCAGTTCATCG 59.994 44.000 2.30 0.00 0.00 3.84
3067 6320 6.995511 TTTACCATGCTAGTACATGTTTCC 57.004 37.500 2.30 0.00 44.88 3.13
3077 6330 9.423061 GAACATTTTGAAATTTACCATGCTAGT 57.577 29.630 0.00 0.00 0.00 2.57
3078 6331 9.421806 TGAACATTTTGAAATTTACCATGCTAG 57.578 29.630 0.00 0.00 0.00 3.42
3157 6410 0.036010 CCTTCCGCAACATGGACTCT 60.036 55.000 0.00 0.00 34.56 3.24
3197 6450 2.803817 AACGTGGTCCTTCCGCAGT 61.804 57.895 0.00 0.00 46.24 4.40
3214 6469 4.495422 GAAAGATGGACTCGAAGCTACAA 58.505 43.478 0.00 0.00 0.00 2.41
3232 6487 1.268335 CCGGGTGTTCAACAACGAAAG 60.268 52.381 15.36 0.68 36.45 2.62
3241 6496 1.600023 GTTGACATCCGGGTGTTCAA 58.400 50.000 23.97 22.36 31.16 2.69
3242 6497 0.250553 GGTTGACATCCGGGTGTTCA 60.251 55.000 23.97 17.89 31.16 3.18
3251 6506 1.868997 CACGCACAGGTTGACATCC 59.131 57.895 0.00 0.00 0.00 3.51
3308 7106 3.381908 GGAGGGCCATCATACTACTATCG 59.618 52.174 20.75 0.00 0.00 2.92
3319 7117 0.624206 TGGATCAAGGAGGGCCATCA 60.624 55.000 20.75 0.00 36.29 3.07
3342 7140 2.485814 GACACTGACAATTGAGGCCTTC 59.514 50.000 13.59 0.00 0.00 3.46
3347 7145 4.601019 GTGTTTGACACTGACAATTGAGG 58.399 43.478 13.59 4.12 45.27 3.86
3349 7147 3.064682 CCGTGTTTGACACTGACAATTGA 59.935 43.478 13.59 0.00 46.46 2.57
3350 7148 3.362295 CCGTGTTTGACACTGACAATTG 58.638 45.455 3.24 3.24 46.46 2.32
3351 7149 2.357637 CCCGTGTTTGACACTGACAATT 59.642 45.455 9.27 0.00 46.46 2.32
3371 7169 4.025401 CCGGACAGCAACAACGCC 62.025 66.667 0.00 0.00 0.00 5.68
3372 7170 4.683334 GCCGGACAGCAACAACGC 62.683 66.667 5.05 0.00 0.00 4.84
3374 7172 1.444119 TTGAGCCGGACAGCAACAAC 61.444 55.000 5.05 0.00 34.23 3.32
3387 7185 0.454600 CCACATCATGCACTTGAGCC 59.545 55.000 0.00 0.00 0.00 4.70
3405 7203 2.124903 CGACCGCATGTATTGTAGACC 58.875 52.381 0.00 0.00 0.00 3.85
3406 7204 1.521423 GCGACCGCATGTATTGTAGAC 59.479 52.381 9.73 0.00 41.49 2.59
3407 7205 1.537348 GGCGACCGCATGTATTGTAGA 60.537 52.381 16.47 0.00 44.11 2.59
3408 7206 0.859232 GGCGACCGCATGTATTGTAG 59.141 55.000 16.47 0.00 44.11 2.74
3409 7207 0.175989 TGGCGACCGCATGTATTGTA 59.824 50.000 16.47 0.00 44.11 2.41
3410 7208 0.675208 TTGGCGACCGCATGTATTGT 60.675 50.000 16.47 0.00 44.11 2.71
3411 7209 0.662619 ATTGGCGACCGCATGTATTG 59.337 50.000 16.47 0.00 44.11 1.90
3412 7210 1.871039 GTATTGGCGACCGCATGTATT 59.129 47.619 16.47 0.00 44.11 1.89
3413 7211 1.202592 TGTATTGGCGACCGCATGTAT 60.203 47.619 16.47 6.00 44.11 2.29
3414 7212 0.175989 TGTATTGGCGACCGCATGTA 59.824 50.000 16.47 2.71 44.11 2.29
3415 7213 1.078778 TGTATTGGCGACCGCATGT 60.079 52.632 16.47 3.64 44.11 3.21
3416 7214 1.643292 CTGTATTGGCGACCGCATG 59.357 57.895 16.47 0.00 44.11 4.06
3417 7215 1.523711 CCTGTATTGGCGACCGCAT 60.524 57.895 16.47 4.72 44.11 4.73
3418 7216 2.125310 CCTGTATTGGCGACCGCA 60.125 61.111 16.47 0.00 44.11 5.69
3419 7217 3.573491 GCCTGTATTGGCGACCGC 61.573 66.667 5.75 5.75 43.74 5.68
3445 7243 2.378547 ACAACCCCTTGGCATTCTCTAA 59.621 45.455 0.00 0.00 33.59 2.10
3446 7244 1.992557 ACAACCCCTTGGCATTCTCTA 59.007 47.619 0.00 0.00 33.59 2.43
3448 7246 0.890683 CACAACCCCTTGGCATTCTC 59.109 55.000 0.00 0.00 33.59 2.87
3449 7247 0.188342 ACACAACCCCTTGGCATTCT 59.812 50.000 0.00 0.00 33.59 2.40
3452 7250 2.209315 GCACACAACCCCTTGGCAT 61.209 57.895 0.00 0.00 33.59 4.40
3453 7251 2.837291 GCACACAACCCCTTGGCA 60.837 61.111 0.00 0.00 33.59 4.92
3455 7253 3.294493 CGGCACACAACCCCTTGG 61.294 66.667 0.00 0.00 37.80 3.61
3457 7255 1.779061 ATCTCGGCACACAACCCCTT 61.779 55.000 0.00 0.00 0.00 3.95
3459 7257 0.180406 ATATCTCGGCACACAACCCC 59.820 55.000 0.00 0.00 0.00 4.95
3460 7258 1.670811 CAATATCTCGGCACACAACCC 59.329 52.381 0.00 0.00 0.00 4.11
3461 7259 1.670811 CCAATATCTCGGCACACAACC 59.329 52.381 0.00 0.00 0.00 3.77
3470 7268 7.710475 ACCAATTTTATTTTGCCAATATCTCGG 59.290 33.333 0.00 0.00 0.00 4.63
3471 7269 8.647143 ACCAATTTTATTTTGCCAATATCTCG 57.353 30.769 0.00 0.00 0.00 4.04
3473 7271 9.830975 GGTACCAATTTTATTTTGCCAATATCT 57.169 29.630 7.15 0.00 0.00 1.98
3474 7272 9.830975 AGGTACCAATTTTATTTTGCCAATATC 57.169 29.630 15.94 0.00 0.00 1.63
3477 7275 9.443323 GTTAGGTACCAATTTTATTTTGCCAAT 57.557 29.630 15.94 0.00 0.00 3.16
3478 7276 7.878644 GGTTAGGTACCAATTTTATTTTGCCAA 59.121 33.333 15.94 0.00 46.92 4.52
3479 7277 7.387643 GGTTAGGTACCAATTTTATTTTGCCA 58.612 34.615 15.94 0.00 46.92 4.92
3480 7278 7.837202 GGTTAGGTACCAATTTTATTTTGCC 57.163 36.000 15.94 0.00 46.92 4.52
3493 7291 5.457778 TTGGCTACAAATTGGTTAGGTACCA 60.458 40.000 15.94 0.00 43.78 3.25
3494 7292 5.011586 TTGGCTACAAATTGGTTAGGTACC 58.988 41.667 2.73 2.73 39.52 3.34
3495 7293 6.769134 ATTGGCTACAAATTGGTTAGGTAC 57.231 37.500 0.00 0.00 40.55 3.34
3496 7294 7.784470 AAATTGGCTACAAATTGGTTAGGTA 57.216 32.000 0.00 0.00 40.55 3.08
3526 7324 0.754957 TCACCCTGCTTGGTTTGGTG 60.755 55.000 0.00 0.00 46.19 4.17
3546 7344 3.763897 TCGAACATCCTCTTGTGAGATGA 59.236 43.478 6.25 0.00 42.73 2.92
3561 7359 8.476142 CAACATTAAATTTTTGTCGTCGAACAT 58.524 29.630 0.00 0.00 0.00 2.71
3562 7360 7.696872 TCAACATTAAATTTTTGTCGTCGAACA 59.303 29.630 0.00 0.00 0.00 3.18
3563 7361 7.988859 GTCAACATTAAATTTTTGTCGTCGAAC 59.011 33.333 0.00 0.00 0.00 3.95
3565 7363 6.354883 CGTCAACATTAAATTTTTGTCGTCGA 59.645 34.615 0.00 0.00 0.00 4.20
3617 7418 1.079405 CGACAACACCCGTGGCTAT 60.079 57.895 0.00 0.00 34.19 2.97
3618 7419 2.340809 CGACAACACCCGTGGCTA 59.659 61.111 0.00 0.00 34.19 3.93
3634 7435 2.487934 CCTCCTTCATGGTTATGAGCG 58.512 52.381 0.00 0.00 43.76 5.03
3639 7440 4.796606 CAACATCCCTCCTTCATGGTTAT 58.203 43.478 0.00 0.00 37.07 1.89
3643 7444 1.064166 AGCAACATCCCTCCTTCATGG 60.064 52.381 0.00 0.00 37.10 3.66


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

AutoCloner maintained by Alex Coulton.