Multiple sequence alignment - TraesCS7A01G467200

Loading Multiple Alignment...

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 TraesCS7A01G467200 chr7A 100.000 2654 0 0 1 2654 663598927 663601580 0.000000e+00 4902.0
1 TraesCS7A01G467200 chr7A 96.532 173 6 0 2151 2323 179381930 179381758 1.200000e-73 287.0
2 TraesCS7A01G467200 chr7A 93.182 176 12 0 2148 2323 180003500 180003675 2.620000e-65 259.0
3 TraesCS7A01G467200 chr7A 94.017 117 7 0 2 118 636734937 636735053 7.550000e-41 178.0
4 TraesCS7A01G467200 chr7A 93.220 118 8 0 1 118 77565101 77564984 9.770000e-40 174.0
5 TraesCS7A01G467200 chr7A 90.000 50 5 0 2424 2473 666844825 666844776 6.130000e-07 65.8
6 TraesCS7A01G467200 chrUn 96.746 799 13 4 1636 2421 87004521 87005319 0.000000e+00 1319.0
7 TraesCS7A01G467200 chrUn 96.746 799 13 4 1636 2421 298338706 298339504 0.000000e+00 1319.0
8 TraesCS7A01G467200 chrUn 96.746 799 13 4 1636 2421 298381808 298381010 0.000000e+00 1319.0
9 TraesCS7A01G467200 chrUn 94.905 844 24 4 802 1635 87002895 87003729 0.000000e+00 1303.0
10 TraesCS7A01G467200 chrUn 94.905 844 24 4 802 1635 298337080 298337914 0.000000e+00 1303.0
11 TraesCS7A01G467200 chrUn 94.905 844 24 4 802 1635 298383434 298382600 0.000000e+00 1303.0
12 TraesCS7A01G467200 chrUn 89.507 467 21 9 268 709 87002411 87002874 1.380000e-157 566.0
13 TraesCS7A01G467200 chrUn 89.507 467 21 9 268 709 298336596 298337059 1.380000e-157 566.0
14 TraesCS7A01G467200 chrUn 89.507 467 21 9 268 709 298383918 298383455 1.380000e-157 566.0
15 TraesCS7A01G467200 chrUn 94.718 284 10 4 2041 2323 11923309 11923030 1.130000e-118 436.0
16 TraesCS7A01G467200 chr7B 94.905 844 24 4 802 1635 632730431 632729597 0.000000e+00 1303.0
17 TraesCS7A01G467200 chr7B 97.576 660 11 1 1636 2290 632728805 632728146 0.000000e+00 1125.0
18 TraesCS7A01G467200 chr7B 89.507 467 21 9 268 709 632730915 632730452 1.380000e-157 566.0
19 TraesCS7A01G467200 chr7B 93.243 74 5 0 2348 2421 547962201 547962274 2.790000e-20 110.0
20 TraesCS7A01G467200 chr7B 100.000 49 0 0 2606 2654 632955754 632955802 1.010000e-14 91.6
21 TraesCS7A01G467200 chr7D 94.179 859 16 6 1636 2473 574286275 574287120 0.000000e+00 1279.0
22 TraesCS7A01G467200 chr7D 93.802 839 32 8 802 1640 574285095 574285913 0.000000e+00 1243.0
23 TraesCS7A01G467200 chr7D 91.519 507 15 6 228 706 574284565 574285071 0.000000e+00 673.0
24 TraesCS7A01G467200 chr7D 91.534 189 4 1 2478 2654 574287209 574287397 1.580000e-62 250.0
25 TraesCS7A01G467200 chr7D 93.000 100 5 1 703 800 16921576 16921675 7.660000e-31 145.0
26 TraesCS7A01G467200 chr7D 93.814 97 4 1 703 797 169994203 169994299 7.660000e-31 145.0
27 TraesCS7A01G467200 chr7D 98.182 55 1 0 2423 2477 127343266 127343212 2.170000e-16 97.1
28 TraesCS7A01G467200 chr7D 95.833 48 2 0 2422 2469 616753412 616753459 7.880000e-11 78.7
29 TraesCS7A01G467200 chr2A 95.574 610 20 5 1714 2323 189660105 189659503 0.000000e+00 970.0
30 TraesCS7A01G467200 chr2A 90.566 106 8 1 697 800 194160367 194160262 3.560000e-29 139.0
31 TraesCS7A01G467200 chr4D 79.460 852 110 36 802 1635 6458520 6459324 6.460000e-151 544.0
32 TraesCS7A01G467200 chr4D 75.325 462 29 34 298 706 6458067 6458496 2.750000e-30 143.0
33 TraesCS7A01G467200 chr4D 91.892 74 6 0 2348 2421 321817238 321817165 1.300000e-18 104.0
34 TraesCS7A01G467200 chr4B 79.177 826 105 39 826 1620 26331735 26332524 6.550000e-141 510.0
35 TraesCS7A01G467200 chr4B 85.714 182 18 6 526 706 26331510 26331684 4.510000e-43 185.0
36 TraesCS7A01G467200 chr4B 93.162 117 8 0 1 117 409747980 409747864 3.510000e-39 172.0
37 TraesCS7A01G467200 chr4B 96.825 63 2 0 317 379 26331263 26331325 3.610000e-19 106.0
38 TraesCS7A01G467200 chr3B 87.072 263 21 10 1872 2124 10626676 10626935 4.320000e-73 285.0
39 TraesCS7A01G467200 chr3B 90.909 110 9 1 2312 2421 713177442 713177550 2.130000e-31 147.0
40 TraesCS7A01G467200 chr3B 92.982 57 4 0 2322 2378 59854285 59854229 1.690000e-12 84.2
41 TraesCS7A01G467200 chr6D 93.478 138 1 1 1638 1767 9647156 9647293 5.790000e-47 198.0
42 TraesCS7A01G467200 chr6D 92.754 138 2 1 1638 1767 193355926 193355789 2.700000e-45 193.0
43 TraesCS7A01G467200 chr6D 92.029 138 3 1 1638 1767 27781783 27781920 1.250000e-43 187.0
44 TraesCS7A01G467200 chr2D 93.478 138 1 1 1638 1767 5623226 5623363 5.790000e-47 198.0
45 TraesCS7A01G467200 chr2D 93.478 138 1 1 1638 1767 23150380 23150517 5.790000e-47 198.0
46 TraesCS7A01G467200 chr6B 90.226 133 12 1 3 135 63230040 63229909 3.510000e-39 172.0
47 TraesCS7A01G467200 chr6B 89.474 133 13 1 3 135 63260678 63260547 1.630000e-37 167.0
48 TraesCS7A01G467200 chr2B 92.562 121 8 1 1 120 262903423 262903543 3.510000e-39 172.0
49 TraesCS7A01G467200 chr2B 89.474 133 14 0 1 133 137435895 137436027 4.540000e-38 169.0
50 TraesCS7A01G467200 chr1B 91.200 125 7 4 1 123 581115138 581115260 1.630000e-37 167.0
51 TraesCS7A01G467200 chr1B 96.078 51 2 0 2422 2472 4912768 4912718 1.690000e-12 84.2
52 TraesCS7A01G467200 chr1A 90.476 126 11 1 1 125 441796359 441796484 5.880000e-37 165.0
53 TraesCS7A01G467200 chr1A 93.243 74 5 0 2348 2421 232346734 232346661 2.790000e-20 110.0
54 TraesCS7A01G467200 chr5A 97.849 93 1 1 1714 1806 292771585 292771494 2.730000e-35 159.0
55 TraesCS7A01G467200 chr5A 93.814 97 4 1 706 800 363850791 363850887 7.660000e-31 145.0
56 TraesCS7A01G467200 chr5A 91.071 56 4 1 2423 2478 159863314 159863368 1.020000e-09 75.0
57 TraesCS7A01G467200 chr5A 92.157 51 2 2 2422 2471 331902299 331902348 1.320000e-08 71.3
58 TraesCS7A01G467200 chr3D 86.000 150 11 5 2279 2419 538355147 538355295 4.580000e-33 152.0
59 TraesCS7A01G467200 chr5D 92.523 107 5 2 696 800 29168194 29168299 1.650000e-32 150.0
60 TraesCS7A01G467200 chr5D 93.056 72 3 2 2478 2549 198258002 198257933 1.300000e-18 104.0
61 TraesCS7A01G467200 chr4A 94.792 96 3 1 707 800 47116518 47116423 5.920000e-32 148.0
62 TraesCS7A01G467200 chr4A 88.496 113 11 1 705 815 1232543 1232431 4.610000e-28 135.0
63 TraesCS7A01G467200 chr6A 93.878 98 4 1 705 800 492288273 492288370 2.130000e-31 147.0
64 TraesCS7A01G467200 chr3A 93.000 100 5 1 703 800 638899496 638899397 7.660000e-31 145.0
65 TraesCS7A01G467200 chr3A 87.097 93 10 2 1880 1972 12324535 12324445 1.300000e-18 104.0
66 TraesCS7A01G467200 chr3A 95.161 62 3 0 2136 2197 12340597 12340536 6.050000e-17 99.0
67 TraesCS7A01G467200 chr5B 95.833 72 1 2 2478 2549 332575158 332575089 6.000000e-22 115.0


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 TraesCS7A01G467200 chr7A 663598927 663601580 2653 False 4902.000000 4902 100.000000 1 2654 1 chr7A.!!$F3 2653
1 TraesCS7A01G467200 chrUn 87002411 87005319 2908 False 1062.666667 1319 93.719333 268 2421 3 chrUn.!!$F1 2153
2 TraesCS7A01G467200 chrUn 298336596 298339504 2908 False 1062.666667 1319 93.719333 268 2421 3 chrUn.!!$F2 2153
3 TraesCS7A01G467200 chrUn 298381010 298383918 2908 True 1062.666667 1319 93.719333 268 2421 3 chrUn.!!$R2 2153
4 TraesCS7A01G467200 chr7B 632728146 632730915 2769 True 998.000000 1303 93.996000 268 2290 3 chr7B.!!$R1 2022
5 TraesCS7A01G467200 chr7D 574284565 574287397 2832 False 861.250000 1279 92.758500 228 2654 4 chr7D.!!$F4 2426
6 TraesCS7A01G467200 chr2A 189659503 189660105 602 True 970.000000 970 95.574000 1714 2323 1 chr2A.!!$R1 609
7 TraesCS7A01G467200 chr4D 6458067 6459324 1257 False 343.500000 544 77.392500 298 1635 2 chr4D.!!$F1 1337
8 TraesCS7A01G467200 chr4B 26331263 26332524 1261 False 267.000000 510 87.238667 317 1620 3 chr4B.!!$F1 1303

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
85 86 0.038618 CGTGTGGTCGAGATGGTCAA 60.039 55.0 0.0 0.0 0.0 3.18 F
87 88 0.038618 TGTGGTCGAGATGGTCAACG 60.039 55.0 0.0 0.0 0.0 4.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 1543 1.803519 GAGGTTGTCGAGCTCGCTG 60.804 63.158 30.97 5.96 42.45 5.18 R
2128 3126 6.036517 GGTGATTCATTGACTAGTAGCACTTG 59.963 42.308 8.81 0.32 0.00 3.16 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
21 22 4.614555 CGTGGCATACAAAATCAGCTAA 57.385 40.909 0.00 0.00 0.00 3.09
22 23 5.173774 CGTGGCATACAAAATCAGCTAAT 57.826 39.130 0.00 0.00 0.00 1.73
23 24 5.581605 CGTGGCATACAAAATCAGCTAATT 58.418 37.500 0.00 0.00 0.00 1.40
24 25 5.682862 CGTGGCATACAAAATCAGCTAATTC 59.317 40.000 0.00 0.00 0.00 2.17
25 26 5.682862 GTGGCATACAAAATCAGCTAATTCG 59.317 40.000 0.00 0.00 0.00 3.34
26 27 5.356751 TGGCATACAAAATCAGCTAATTCGT 59.643 36.000 0.00 0.00 0.00 3.85
27 28 5.682862 GGCATACAAAATCAGCTAATTCGTG 59.317 40.000 0.00 0.00 0.00 4.35
28 29 5.172053 GCATACAAAATCAGCTAATTCGTGC 59.828 40.000 0.00 0.00 0.00 5.34
29 30 4.096732 ACAAAATCAGCTAATTCGTGCC 57.903 40.909 0.00 0.00 0.00 5.01
30 31 3.505680 ACAAAATCAGCTAATTCGTGCCA 59.494 39.130 0.00 0.00 0.00 4.92
31 32 4.022416 ACAAAATCAGCTAATTCGTGCCAA 60.022 37.500 0.00 0.00 0.00 4.52
32 33 4.361451 AAATCAGCTAATTCGTGCCAAG 57.639 40.909 0.00 0.00 0.00 3.61
33 34 2.760634 TCAGCTAATTCGTGCCAAGA 57.239 45.000 0.00 0.00 0.00 3.02
34 35 3.266510 TCAGCTAATTCGTGCCAAGAT 57.733 42.857 0.00 0.00 0.00 2.40
35 36 3.609853 TCAGCTAATTCGTGCCAAGATT 58.390 40.909 0.00 0.00 0.00 2.40
36 37 3.623060 TCAGCTAATTCGTGCCAAGATTC 59.377 43.478 0.00 0.00 0.00 2.52
37 38 2.609459 AGCTAATTCGTGCCAAGATTCG 59.391 45.455 0.00 0.00 0.00 3.34
38 39 2.351726 GCTAATTCGTGCCAAGATTCGT 59.648 45.455 0.00 0.00 0.00 3.85
39 40 2.900122 AATTCGTGCCAAGATTCGTG 57.100 45.000 0.00 0.00 0.00 4.35
40 41 0.447801 ATTCGTGCCAAGATTCGTGC 59.552 50.000 0.00 0.00 0.00 5.34
41 42 0.882484 TTCGTGCCAAGATTCGTGCA 60.882 50.000 0.00 0.00 0.00 4.57
42 43 1.133253 CGTGCCAAGATTCGTGCAG 59.867 57.895 0.00 0.00 33.80 4.41
43 44 1.291184 CGTGCCAAGATTCGTGCAGA 61.291 55.000 0.00 0.00 33.80 4.26
44 45 0.874390 GTGCCAAGATTCGTGCAGAA 59.126 50.000 0.00 0.00 43.93 3.02
45 46 1.135859 GTGCCAAGATTCGTGCAGAAG 60.136 52.381 0.00 0.00 42.92 2.85
46 47 1.160137 GCCAAGATTCGTGCAGAAGT 58.840 50.000 0.00 0.00 42.92 3.01
47 48 1.537202 GCCAAGATTCGTGCAGAAGTT 59.463 47.619 0.00 0.00 42.92 2.66
48 49 2.742053 GCCAAGATTCGTGCAGAAGTTA 59.258 45.455 0.00 0.00 42.92 2.24
49 50 3.424962 GCCAAGATTCGTGCAGAAGTTAC 60.425 47.826 0.00 0.00 42.92 2.50
50 51 3.997021 CCAAGATTCGTGCAGAAGTTACT 59.003 43.478 0.00 0.00 42.92 2.24
51 52 4.143030 CCAAGATTCGTGCAGAAGTTACTG 60.143 45.833 0.00 0.00 42.92 2.74
52 53 3.589988 AGATTCGTGCAGAAGTTACTGG 58.410 45.455 0.00 0.00 42.92 4.00
53 54 3.258372 AGATTCGTGCAGAAGTTACTGGA 59.742 43.478 0.00 0.00 42.92 3.86
56 57 1.429463 GTGCAGAAGTTACTGGACGG 58.571 55.000 0.00 0.00 45.71 4.79
57 58 1.045407 TGCAGAAGTTACTGGACGGT 58.955 50.000 0.00 0.00 38.22 4.83
58 59 1.270094 TGCAGAAGTTACTGGACGGTG 60.270 52.381 0.00 0.00 38.22 4.94
59 60 1.000506 GCAGAAGTTACTGGACGGTGA 59.999 52.381 0.00 0.00 38.22 4.02
60 61 2.353803 GCAGAAGTTACTGGACGGTGAT 60.354 50.000 0.00 0.00 38.22 3.06
61 62 3.254060 CAGAAGTTACTGGACGGTGATG 58.746 50.000 0.00 0.00 34.64 3.07
62 63 2.233922 AGAAGTTACTGGACGGTGATGG 59.766 50.000 0.00 0.00 0.00 3.51
63 64 1.933021 AGTTACTGGACGGTGATGGA 58.067 50.000 0.00 0.00 0.00 3.41
64 65 2.467880 AGTTACTGGACGGTGATGGAT 58.532 47.619 0.00 0.00 0.00 3.41
65 66 2.168521 AGTTACTGGACGGTGATGGATG 59.831 50.000 0.00 0.00 0.00 3.51
66 67 0.464036 TACTGGACGGTGATGGATGC 59.536 55.000 0.00 0.00 0.00 3.91
67 68 1.884464 CTGGACGGTGATGGATGCG 60.884 63.158 0.00 0.00 0.00 4.73
68 69 2.186903 GGACGGTGATGGATGCGT 59.813 61.111 0.00 0.00 0.00 5.24
69 70 2.173669 GGACGGTGATGGATGCGTG 61.174 63.158 0.00 0.00 0.00 5.34
70 71 1.447838 GACGGTGATGGATGCGTGT 60.448 57.895 0.00 0.00 0.00 4.49
71 72 1.695893 GACGGTGATGGATGCGTGTG 61.696 60.000 0.00 0.00 0.00 3.82
72 73 2.463620 CGGTGATGGATGCGTGTGG 61.464 63.158 0.00 0.00 0.00 4.17
73 74 1.377202 GGTGATGGATGCGTGTGGT 60.377 57.895 0.00 0.00 0.00 4.16
74 75 1.369091 GGTGATGGATGCGTGTGGTC 61.369 60.000 0.00 0.00 0.00 4.02
75 76 1.447663 TGATGGATGCGTGTGGTCG 60.448 57.895 0.00 0.00 0.00 4.79
76 77 1.153647 GATGGATGCGTGTGGTCGA 60.154 57.895 0.00 0.00 0.00 4.20
77 78 1.148157 GATGGATGCGTGTGGTCGAG 61.148 60.000 0.00 0.00 0.00 4.04
78 79 1.604147 ATGGATGCGTGTGGTCGAGA 61.604 55.000 0.00 0.00 0.00 4.04
79 80 1.141881 GGATGCGTGTGGTCGAGAT 59.858 57.895 0.00 0.00 0.00 2.75
80 81 1.148157 GGATGCGTGTGGTCGAGATG 61.148 60.000 0.00 0.00 0.00 2.90
81 82 1.148157 GATGCGTGTGGTCGAGATGG 61.148 60.000 0.00 0.00 0.00 3.51
82 83 1.888436 ATGCGTGTGGTCGAGATGGT 61.888 55.000 0.00 0.00 0.00 3.55
83 84 1.805945 GCGTGTGGTCGAGATGGTC 60.806 63.158 0.00 0.00 0.00 4.02
84 85 1.584495 CGTGTGGTCGAGATGGTCA 59.416 57.895 0.00 0.00 0.00 4.02
85 86 0.038618 CGTGTGGTCGAGATGGTCAA 60.039 55.000 0.00 0.00 0.00 3.18
86 87 1.429463 GTGTGGTCGAGATGGTCAAC 58.571 55.000 0.00 0.00 0.00 3.18
87 88 0.038618 TGTGGTCGAGATGGTCAACG 60.039 55.000 0.00 0.00 0.00 4.10
88 89 1.080093 TGGTCGAGATGGTCAACGC 60.080 57.895 0.00 0.00 0.00 4.84
89 90 1.810030 GGTCGAGATGGTCAACGCC 60.810 63.158 0.00 0.00 0.00 5.68
90 91 1.810030 GTCGAGATGGTCAACGCCC 60.810 63.158 0.00 0.00 0.00 6.13
91 92 2.264480 CGAGATGGTCAACGCCCA 59.736 61.111 0.00 0.00 36.16 5.36
92 93 2.100631 CGAGATGGTCAACGCCCAC 61.101 63.158 0.00 0.00 34.07 4.61
93 94 1.003839 GAGATGGTCAACGCCCACA 60.004 57.895 0.00 0.00 34.07 4.17
94 95 1.298859 GAGATGGTCAACGCCCACAC 61.299 60.000 0.00 0.00 34.07 3.82
95 96 1.599518 GATGGTCAACGCCCACACA 60.600 57.895 0.00 0.00 34.07 3.72
96 97 0.960364 GATGGTCAACGCCCACACAT 60.960 55.000 0.00 0.00 34.07 3.21
97 98 1.243342 ATGGTCAACGCCCACACATG 61.243 55.000 0.00 0.00 34.07 3.21
98 99 1.896660 GGTCAACGCCCACACATGT 60.897 57.895 0.00 0.00 0.00 3.21
99 100 1.282570 GTCAACGCCCACACATGTG 59.717 57.895 24.25 24.25 45.23 3.21
108 109 3.765349 CACACATGTGGGCGTTAAC 57.235 52.632 28.64 0.00 42.10 2.01
109 110 0.947960 CACACATGTGGGCGTTAACA 59.052 50.000 28.64 0.00 42.10 2.41
110 111 1.539388 CACACATGTGGGCGTTAACAT 59.461 47.619 28.64 1.52 42.10 2.71
111 112 2.030363 CACACATGTGGGCGTTAACATT 60.030 45.455 28.64 0.98 42.10 2.71
112 113 2.625790 ACACATGTGGGCGTTAACATTT 59.374 40.909 28.64 0.77 34.81 2.32
113 114 3.241701 CACATGTGGGCGTTAACATTTC 58.758 45.455 18.51 0.00 34.81 2.17
114 115 3.057596 CACATGTGGGCGTTAACATTTCT 60.058 43.478 18.51 0.00 34.81 2.52
115 116 3.057596 ACATGTGGGCGTTAACATTTCTG 60.058 43.478 6.39 0.00 34.81 3.02
116 117 2.577700 TGTGGGCGTTAACATTTCTGT 58.422 42.857 6.39 0.00 37.12 3.41
118 119 4.135306 TGTGGGCGTTAACATTTCTGTTA 58.865 39.130 6.39 0.00 43.77 2.41
196 197 9.054580 AGGTAGTAATAAATAAACTGGAGTGGT 57.945 33.333 0.00 0.00 0.00 4.16
197 198 9.322773 GGTAGTAATAAATAAACTGGAGTGGTC 57.677 37.037 0.00 0.00 0.00 4.02
204 205 7.981102 AAATAAACTGGAGTGGTCTAAAGTC 57.019 36.000 0.00 0.00 0.00 3.01
205 206 6.936968 ATAAACTGGAGTGGTCTAAAGTCT 57.063 37.500 0.00 0.00 0.00 3.24
206 207 4.875561 AACTGGAGTGGTCTAAAGTCTC 57.124 45.455 0.00 0.00 0.00 3.36
207 208 4.120946 ACTGGAGTGGTCTAAAGTCTCT 57.879 45.455 0.00 0.00 0.00 3.10
208 209 4.083565 ACTGGAGTGGTCTAAAGTCTCTC 58.916 47.826 0.00 0.00 0.00 3.20
209 210 4.202631 ACTGGAGTGGTCTAAAGTCTCTCT 60.203 45.833 0.00 0.00 0.00 3.10
210 211 4.742012 TGGAGTGGTCTAAAGTCTCTCTT 58.258 43.478 0.00 0.00 38.10 2.85
211 212 4.767928 TGGAGTGGTCTAAAGTCTCTCTTC 59.232 45.833 0.00 0.00 35.02 2.87
212 213 4.158949 GGAGTGGTCTAAAGTCTCTCTTCC 59.841 50.000 0.00 0.00 35.02 3.46
213 214 5.005628 AGTGGTCTAAAGTCTCTCTTCCT 57.994 43.478 0.00 0.00 35.02 3.36
214 215 5.014202 AGTGGTCTAAAGTCTCTCTTCCTC 58.986 45.833 0.00 0.00 35.02 3.71
215 216 4.158949 GTGGTCTAAAGTCTCTCTTCCTCC 59.841 50.000 0.00 0.00 35.02 4.30
216 217 3.702548 GGTCTAAAGTCTCTCTTCCTCCC 59.297 52.174 0.00 0.00 35.02 4.30
217 218 4.345854 GTCTAAAGTCTCTCTTCCTCCCA 58.654 47.826 0.00 0.00 35.02 4.37
218 219 4.773149 GTCTAAAGTCTCTCTTCCTCCCAA 59.227 45.833 0.00 0.00 35.02 4.12
219 220 5.246429 GTCTAAAGTCTCTCTTCCTCCCAAA 59.754 44.000 0.00 0.00 35.02 3.28
220 221 5.844516 TCTAAAGTCTCTCTTCCTCCCAAAA 59.155 40.000 0.00 0.00 35.02 2.44
221 222 5.388599 AAAGTCTCTCTTCCTCCCAAAAA 57.611 39.130 0.00 0.00 35.02 1.94
249 250 6.347859 AGGTCTAAAGTCTCTCGAACAATT 57.652 37.500 0.00 0.00 0.00 2.32
251 252 6.015350 AGGTCTAAAGTCTCTCGAACAATTGA 60.015 38.462 13.59 0.00 0.00 2.57
283 284 1.003233 GCACTCCCCAACACTCCTC 60.003 63.158 0.00 0.00 0.00 3.71
334 341 0.401738 TCCAGGGAAGACAAGGCTTG 59.598 55.000 25.06 25.06 0.00 4.01
603 684 2.266554 GAGCAAGTTCGGACAGATGAG 58.733 52.381 0.00 0.00 0.00 2.90
709 802 2.962421 GCAGCTCTTCTACCCATCTACT 59.038 50.000 0.00 0.00 0.00 2.57
710 803 3.386402 GCAGCTCTTCTACCCATCTACTT 59.614 47.826 0.00 0.00 0.00 2.24
711 804 4.500716 GCAGCTCTTCTACCCATCTACTTC 60.501 50.000 0.00 0.00 0.00 3.01
712 805 4.038642 CAGCTCTTCTACCCATCTACTTCC 59.961 50.000 0.00 0.00 0.00 3.46
713 806 4.078863 AGCTCTTCTACCCATCTACTTCCT 60.079 45.833 0.00 0.00 0.00 3.36
714 807 4.279922 GCTCTTCTACCCATCTACTTCCTC 59.720 50.000 0.00 0.00 0.00 3.71
715 808 4.805744 TCTTCTACCCATCTACTTCCTCC 58.194 47.826 0.00 0.00 0.00 4.30
717 810 2.512896 TCTACCCATCTACTTCCTCCGT 59.487 50.000 0.00 0.00 0.00 4.69
718 811 2.249309 ACCCATCTACTTCCTCCGTT 57.751 50.000 0.00 0.00 0.00 4.44
720 813 1.413077 CCCATCTACTTCCTCCGTTCC 59.587 57.143 0.00 0.00 0.00 3.62
722 815 2.022195 CATCTACTTCCTCCGTTCCGA 58.978 52.381 0.00 0.00 0.00 4.55
724 817 2.731572 TCTACTTCCTCCGTTCCGAAT 58.268 47.619 0.00 0.00 0.00 3.34
725 818 3.094572 TCTACTTCCTCCGTTCCGAATT 58.905 45.455 0.00 0.00 0.00 2.17
726 819 4.272489 TCTACTTCCTCCGTTCCGAATTA 58.728 43.478 0.00 0.00 0.00 1.40
729 822 3.260128 ACTTCCTCCGTTCCGAATTACTT 59.740 43.478 0.00 0.00 0.00 2.24
744 837 7.568267 CGAATTACTTCGCATGTATAGATGT 57.432 36.000 11.20 1.27 46.76 3.06
745 838 8.669394 CGAATTACTTCGCATGTATAGATGTA 57.331 34.615 11.20 0.00 46.76 2.29
746 839 9.290483 CGAATTACTTCGCATGTATAGATGTAT 57.710 33.333 11.20 0.00 46.76 2.29
751 844 8.794335 ACTTCGCATGTATAGATGTATCTAGA 57.206 34.615 11.20 0.00 42.20 2.43
752 845 9.402320 ACTTCGCATGTATAGATGTATCTAGAT 57.598 33.333 10.73 10.73 42.20 1.98
753 846 9.662545 CTTCGCATGTATAGATGTATCTAGATG 57.337 37.037 15.79 9.52 42.20 2.90
754 847 8.738645 TCGCATGTATAGATGTATCTAGATGT 57.261 34.615 15.79 1.25 42.20 3.06
755 848 9.832445 TCGCATGTATAGATGTATCTAGATGTA 57.168 33.333 15.79 4.44 42.20 2.29
784 877 9.599866 TTAGTTGTAGATACATCCATTTCTGTG 57.400 33.333 0.00 0.00 35.89 3.66
785 878 7.851228 AGTTGTAGATACATCCATTTCTGTGA 58.149 34.615 0.00 0.00 35.89 3.58
786 879 7.766278 AGTTGTAGATACATCCATTTCTGTGAC 59.234 37.037 0.00 0.00 35.89 3.67
787 880 6.273071 TGTAGATACATCCATTTCTGTGACG 58.727 40.000 0.00 0.00 0.00 4.35
788 881 5.598416 AGATACATCCATTTCTGTGACGA 57.402 39.130 0.00 0.00 0.00 4.20
789 882 5.595885 AGATACATCCATTTCTGTGACGAG 58.404 41.667 0.00 0.00 0.00 4.18
790 883 3.685139 ACATCCATTTCTGTGACGAGT 57.315 42.857 0.00 0.00 0.00 4.18
791 884 4.801330 ACATCCATTTCTGTGACGAGTA 57.199 40.909 0.00 0.00 0.00 2.59
792 885 5.147330 ACATCCATTTCTGTGACGAGTAA 57.853 39.130 0.00 0.00 0.00 2.24
793 886 5.734720 ACATCCATTTCTGTGACGAGTAAT 58.265 37.500 0.00 0.00 0.00 1.89
794 887 6.173339 ACATCCATTTCTGTGACGAGTAATT 58.827 36.000 0.00 0.00 0.00 1.40
795 888 6.655003 ACATCCATTTCTGTGACGAGTAATTT 59.345 34.615 0.00 0.00 0.00 1.82
796 889 6.480524 TCCATTTCTGTGACGAGTAATTTG 57.519 37.500 0.00 0.00 0.00 2.32
797 890 5.411361 TCCATTTCTGTGACGAGTAATTTGG 59.589 40.000 0.00 0.00 0.00 3.28
798 891 5.411361 CCATTTCTGTGACGAGTAATTTGGA 59.589 40.000 0.00 0.00 0.00 3.53
799 892 6.072728 CCATTTCTGTGACGAGTAATTTGGAA 60.073 38.462 0.00 0.00 0.00 3.53
800 893 6.539649 TTTCTGTGACGAGTAATTTGGAAG 57.460 37.500 0.00 0.00 0.00 3.46
809 908 0.699399 TAATTTGGAAGGCACGGGGA 59.301 50.000 0.00 0.00 0.00 4.81
818 917 2.190578 GCACGGGGAAGATGGAGG 59.809 66.667 0.00 0.00 0.00 4.30
866 968 4.173924 GCCTGAGGCTGGAGCTCC 62.174 72.222 26.78 26.78 46.69 4.70
876 978 3.151022 GGAGCTCCCCGTCTCCAG 61.151 72.222 23.19 0.00 46.24 3.86
1148 1293 2.203070 GGCCCTCATGTACTGCGG 60.203 66.667 0.00 0.00 0.00 5.69
1278 1435 3.862402 CCCGTCCTCGTCGTCTCG 61.862 72.222 0.00 0.00 35.01 4.04
1279 1436 3.117171 CCGTCCTCGTCGTCTCGT 61.117 66.667 0.00 0.00 35.01 4.18
1280 1437 2.394912 CGTCCTCGTCGTCTCGTC 59.605 66.667 0.00 0.00 0.00 4.20
1421 1578 4.481112 CTGGTTTGGCATCGGCGC 62.481 66.667 0.00 0.00 42.47 6.53
1758 2755 7.014422 ACCTGCTACTACTATAGTGTTGATTCC 59.986 40.741 15.90 2.01 39.81 3.01
1888 2885 8.223100 GGTTAAGTGCAGAATATTTTGCTTTTG 58.777 33.333 25.95 3.64 40.87 2.44
2017 3014 3.696051 AGTGGACGCATGAATAATTTGCT 59.304 39.130 0.00 0.00 34.23 3.91
2034 3031 6.964807 ATTTGCTAGCCATATCAACATTGA 57.035 33.333 13.29 0.00 42.14 2.57
2128 3126 7.927048 ACTACACTGAAACTTAAACATGGTTC 58.073 34.615 0.00 0.00 0.00 3.62
2129 3127 6.767524 ACACTGAAACTTAAACATGGTTCA 57.232 33.333 0.00 0.00 0.00 3.18
2318 3319 4.183101 GAGTGCATTCAGAGAAGAGAAGG 58.817 47.826 4.04 0.00 0.00 3.46
2359 3382 4.461781 GGAGTACTTGCAAGTCCTACACTA 59.538 45.833 34.29 12.76 40.37 2.74
2360 3383 5.047519 GGAGTACTTGCAAGTCCTACACTAA 60.048 44.000 34.29 11.99 40.37 2.24
2361 3384 6.415206 AGTACTTGCAAGTCCTACACTAAA 57.585 37.500 34.29 11.23 40.37 1.85
2362 3385 6.221659 AGTACTTGCAAGTCCTACACTAAAC 58.778 40.000 34.29 21.68 40.37 2.01
2363 3386 4.386711 ACTTGCAAGTCCTACACTAAACC 58.613 43.478 26.36 0.00 32.86 3.27
2364 3387 3.412237 TGCAAGTCCTACACTAAACCC 57.588 47.619 0.00 0.00 32.30 4.11
2365 3388 2.976882 TGCAAGTCCTACACTAAACCCT 59.023 45.455 0.00 0.00 32.30 4.34
2366 3389 4.161876 TGCAAGTCCTACACTAAACCCTA 58.838 43.478 0.00 0.00 32.30 3.53
2367 3390 4.020839 TGCAAGTCCTACACTAAACCCTAC 60.021 45.833 0.00 0.00 32.30 3.18
2368 3391 4.020839 GCAAGTCCTACACTAAACCCTACA 60.021 45.833 0.00 0.00 32.30 2.74
2369 3392 5.476614 CAAGTCCTACACTAAACCCTACAC 58.523 45.833 0.00 0.00 32.30 2.90
2370 3393 5.008165 AGTCCTACACTAAACCCTACACT 57.992 43.478 0.00 0.00 31.37 3.55
2456 3479 1.195115 TGGTGGAGCTAGTGGATCAC 58.805 55.000 0.00 0.00 30.93 3.06
2458 3481 0.103208 GTGGAGCTAGTGGATCACCG 59.897 60.000 0.00 0.00 39.42 4.94
2473 3496 1.544691 TCACCGAACAGCTCCTTAGTC 59.455 52.381 0.00 0.00 0.00 2.59
2476 3499 3.192844 CACCGAACAGCTCCTTAGTCTTA 59.807 47.826 0.00 0.00 0.00 2.10
2525 3632 5.200368 AGTGTGGAAAATGTAAAGCCTTG 57.800 39.130 0.00 0.00 0.00 3.61
2549 3656 1.338579 TGCATCCGCTCAACATGTGTA 60.339 47.619 0.00 0.00 39.64 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.682862 CGAATTAGCTGATTTTGTATGCCAC 59.317 40.000 5.07 0.00 0.00 5.01
2 3 5.356751 ACGAATTAGCTGATTTTGTATGCCA 59.643 36.000 5.07 0.00 0.00 4.92
3 4 5.682862 CACGAATTAGCTGATTTTGTATGCC 59.317 40.000 5.07 0.00 0.00 4.40
4 5 5.172053 GCACGAATTAGCTGATTTTGTATGC 59.828 40.000 5.07 7.53 0.00 3.14
5 6 5.682862 GGCACGAATTAGCTGATTTTGTATG 59.317 40.000 5.07 1.95 0.00 2.39
6 7 5.356751 TGGCACGAATTAGCTGATTTTGTAT 59.643 36.000 5.07 0.00 0.00 2.29
7 8 4.697828 TGGCACGAATTAGCTGATTTTGTA 59.302 37.500 5.07 0.00 0.00 2.41
8 9 3.505680 TGGCACGAATTAGCTGATTTTGT 59.494 39.130 5.07 4.90 0.00 2.83
9 10 4.095410 TGGCACGAATTAGCTGATTTTG 57.905 40.909 5.07 7.19 0.00 2.44
10 11 4.458989 TCTTGGCACGAATTAGCTGATTTT 59.541 37.500 5.07 0.00 0.00 1.82
11 12 4.009675 TCTTGGCACGAATTAGCTGATTT 58.990 39.130 5.07 0.00 0.00 2.17
12 13 3.609853 TCTTGGCACGAATTAGCTGATT 58.390 40.909 2.91 2.91 0.00 2.57
13 14 3.266510 TCTTGGCACGAATTAGCTGAT 57.733 42.857 0.00 0.00 0.00 2.90
14 15 2.760634 TCTTGGCACGAATTAGCTGA 57.239 45.000 0.00 0.00 0.00 4.26
15 16 3.544834 CGAATCTTGGCACGAATTAGCTG 60.545 47.826 0.00 0.00 0.00 4.24
16 17 2.609459 CGAATCTTGGCACGAATTAGCT 59.391 45.455 0.00 0.00 0.00 3.32
17 18 2.351726 ACGAATCTTGGCACGAATTAGC 59.648 45.455 0.00 0.00 0.00 3.09
18 19 3.785505 GCACGAATCTTGGCACGAATTAG 60.786 47.826 0.00 0.00 0.00 1.73
19 20 2.095213 GCACGAATCTTGGCACGAATTA 59.905 45.455 0.00 0.00 0.00 1.40
20 21 1.135689 GCACGAATCTTGGCACGAATT 60.136 47.619 0.00 0.00 0.00 2.17
21 22 0.447801 GCACGAATCTTGGCACGAAT 59.552 50.000 0.00 0.00 0.00 3.34
22 23 0.882484 TGCACGAATCTTGGCACGAA 60.882 50.000 0.00 0.00 0.00 3.85
23 24 1.291184 CTGCACGAATCTTGGCACGA 61.291 55.000 0.00 0.00 32.06 4.35
24 25 1.133253 CTGCACGAATCTTGGCACG 59.867 57.895 0.00 0.00 32.06 5.34
25 26 0.874390 TTCTGCACGAATCTTGGCAC 59.126 50.000 0.00 0.00 32.06 5.01
26 27 1.159285 CTTCTGCACGAATCTTGGCA 58.841 50.000 0.00 0.00 34.66 4.92
27 28 1.160137 ACTTCTGCACGAATCTTGGC 58.840 50.000 0.00 0.00 0.00 4.52
28 29 3.997021 AGTAACTTCTGCACGAATCTTGG 59.003 43.478 0.00 0.00 0.00 3.61
29 30 4.143030 CCAGTAACTTCTGCACGAATCTTG 60.143 45.833 0.00 0.00 34.47 3.02
30 31 3.997021 CCAGTAACTTCTGCACGAATCTT 59.003 43.478 0.00 0.00 34.47 2.40
31 32 3.258372 TCCAGTAACTTCTGCACGAATCT 59.742 43.478 0.00 0.00 34.47 2.40
32 33 3.368236 GTCCAGTAACTTCTGCACGAATC 59.632 47.826 0.00 0.00 34.47 2.52
33 34 3.326747 GTCCAGTAACTTCTGCACGAAT 58.673 45.455 0.00 0.00 34.47 3.34
34 35 2.750948 GTCCAGTAACTTCTGCACGAA 58.249 47.619 0.00 0.00 34.47 3.85
35 36 2.433868 GTCCAGTAACTTCTGCACGA 57.566 50.000 0.00 0.00 34.47 4.35
36 37 1.060713 CGTCCAGTAACTTCTGCACG 58.939 55.000 0.00 0.00 41.88 5.34
37 38 1.270147 ACCGTCCAGTAACTTCTGCAC 60.270 52.381 0.00 0.00 34.47 4.57
38 39 1.045407 ACCGTCCAGTAACTTCTGCA 58.955 50.000 0.00 0.00 34.47 4.41
39 40 1.000506 TCACCGTCCAGTAACTTCTGC 59.999 52.381 0.00 0.00 34.47 4.26
40 41 3.254060 CATCACCGTCCAGTAACTTCTG 58.746 50.000 0.00 0.00 35.45 3.02
41 42 2.233922 CCATCACCGTCCAGTAACTTCT 59.766 50.000 0.00 0.00 0.00 2.85
42 43 2.232941 TCCATCACCGTCCAGTAACTTC 59.767 50.000 0.00 0.00 0.00 3.01
43 44 2.253610 TCCATCACCGTCCAGTAACTT 58.746 47.619 0.00 0.00 0.00 2.66
44 45 1.933021 TCCATCACCGTCCAGTAACT 58.067 50.000 0.00 0.00 0.00 2.24
45 46 2.550978 CATCCATCACCGTCCAGTAAC 58.449 52.381 0.00 0.00 0.00 2.50
46 47 1.134521 GCATCCATCACCGTCCAGTAA 60.135 52.381 0.00 0.00 0.00 2.24
47 48 0.464036 GCATCCATCACCGTCCAGTA 59.536 55.000 0.00 0.00 0.00 2.74
48 49 1.221840 GCATCCATCACCGTCCAGT 59.778 57.895 0.00 0.00 0.00 4.00
49 50 1.884464 CGCATCCATCACCGTCCAG 60.884 63.158 0.00 0.00 0.00 3.86
50 51 2.186644 CGCATCCATCACCGTCCA 59.813 61.111 0.00 0.00 0.00 4.02
51 52 2.173669 CACGCATCCATCACCGTCC 61.174 63.158 0.00 0.00 0.00 4.79
52 53 1.447838 ACACGCATCCATCACCGTC 60.448 57.895 0.00 0.00 0.00 4.79
53 54 1.741401 CACACGCATCCATCACCGT 60.741 57.895 0.00 0.00 0.00 4.83
54 55 2.463620 CCACACGCATCCATCACCG 61.464 63.158 0.00 0.00 0.00 4.94
55 56 1.369091 GACCACACGCATCCATCACC 61.369 60.000 0.00 0.00 0.00 4.02
56 57 1.695893 CGACCACACGCATCCATCAC 61.696 60.000 0.00 0.00 0.00 3.06
57 58 1.447663 CGACCACACGCATCCATCA 60.448 57.895 0.00 0.00 0.00 3.07
58 59 1.148157 CTCGACCACACGCATCCATC 61.148 60.000 0.00 0.00 0.00 3.51
59 60 1.153568 CTCGACCACACGCATCCAT 60.154 57.895 0.00 0.00 0.00 3.41
60 61 1.604147 ATCTCGACCACACGCATCCA 61.604 55.000 0.00 0.00 0.00 3.41
61 62 1.141881 ATCTCGACCACACGCATCC 59.858 57.895 0.00 0.00 0.00 3.51
62 63 1.148157 CCATCTCGACCACACGCATC 61.148 60.000 0.00 0.00 0.00 3.91
63 64 1.153568 CCATCTCGACCACACGCAT 60.154 57.895 0.00 0.00 0.00 4.73
64 65 2.261361 CCATCTCGACCACACGCA 59.739 61.111 0.00 0.00 0.00 5.24
65 66 1.805945 GACCATCTCGACCACACGC 60.806 63.158 0.00 0.00 0.00 5.34
66 67 0.038618 TTGACCATCTCGACCACACG 60.039 55.000 0.00 0.00 0.00 4.49
67 68 1.429463 GTTGACCATCTCGACCACAC 58.571 55.000 0.00 0.00 0.00 3.82
68 69 0.038618 CGTTGACCATCTCGACCACA 60.039 55.000 0.00 0.00 29.97 4.17
69 70 1.352156 GCGTTGACCATCTCGACCAC 61.352 60.000 0.00 0.00 29.97 4.16
70 71 1.080093 GCGTTGACCATCTCGACCA 60.080 57.895 0.00 0.00 29.97 4.02
71 72 1.810030 GGCGTTGACCATCTCGACC 60.810 63.158 0.00 0.00 29.97 4.79
72 73 1.810030 GGGCGTTGACCATCTCGAC 60.810 63.158 0.00 0.00 0.00 4.20
73 74 2.279810 TGGGCGTTGACCATCTCGA 61.280 57.895 0.00 0.00 34.69 4.04
74 75 2.100631 GTGGGCGTTGACCATCTCG 61.101 63.158 0.00 0.00 45.49 4.04
75 76 1.003839 TGTGGGCGTTGACCATCTC 60.004 57.895 0.00 0.00 45.49 2.75
76 77 1.302511 GTGTGGGCGTTGACCATCT 60.303 57.895 0.00 0.00 45.49 2.90
77 78 0.960364 ATGTGTGGGCGTTGACCATC 60.960 55.000 0.00 0.00 45.49 3.51
78 79 1.074775 ATGTGTGGGCGTTGACCAT 59.925 52.632 0.00 0.00 45.49 3.55
79 80 1.896183 CATGTGTGGGCGTTGACCA 60.896 57.895 0.00 0.00 39.14 4.02
80 81 1.896660 ACATGTGTGGGCGTTGACC 60.897 57.895 0.00 0.00 0.00 4.02
81 82 1.282570 CACATGTGTGGGCGTTGAC 59.717 57.895 18.03 0.00 42.10 3.18
82 83 3.743208 CACATGTGTGGGCGTTGA 58.257 55.556 18.03 0.00 42.10 3.18
90 91 0.947960 TGTTAACGCCCACATGTGTG 59.052 50.000 23.79 14.60 45.23 3.82
91 92 1.904287 ATGTTAACGCCCACATGTGT 58.096 45.000 23.79 8.06 32.19 3.72
92 93 3.057596 AGAAATGTTAACGCCCACATGTG 60.058 43.478 19.31 19.31 33.76 3.21
93 94 3.057596 CAGAAATGTTAACGCCCACATGT 60.058 43.478 0.26 0.00 33.76 3.21
94 95 3.057596 ACAGAAATGTTAACGCCCACATG 60.058 43.478 0.26 0.00 33.76 3.21
95 96 3.153919 ACAGAAATGTTAACGCCCACAT 58.846 40.909 0.26 0.00 35.00 3.21
96 97 2.577700 ACAGAAATGTTAACGCCCACA 58.422 42.857 0.26 0.00 0.00 4.17
97 98 3.636282 AACAGAAATGTTAACGCCCAC 57.364 42.857 0.26 0.00 0.00 4.61
98 99 5.968528 ATTAACAGAAATGTTAACGCCCA 57.031 34.783 13.98 0.00 44.03 5.36
99 100 9.659830 CTAATATTAACAGAAATGTTAACGCCC 57.340 33.333 13.98 0.00 44.03 6.13
100 101 9.659830 CCTAATATTAACAGAAATGTTAACGCC 57.340 33.333 13.98 0.00 44.03 5.68
170 171 9.054580 ACCACTCCAGTTTATTTATTACTACCT 57.945 33.333 0.00 0.00 0.00 3.08
171 172 9.322773 GACCACTCCAGTTTATTTATTACTACC 57.677 37.037 0.00 0.00 0.00 3.18
178 179 9.668497 GACTTTAGACCACTCCAGTTTATTTAT 57.332 33.333 0.00 0.00 0.00 1.40
179 180 8.877195 AGACTTTAGACCACTCCAGTTTATTTA 58.123 33.333 0.00 0.00 0.00 1.40
180 181 7.746703 AGACTTTAGACCACTCCAGTTTATTT 58.253 34.615 0.00 0.00 0.00 1.40
181 182 7.235812 AGAGACTTTAGACCACTCCAGTTTATT 59.764 37.037 0.00 0.00 0.00 1.40
182 183 6.726764 AGAGACTTTAGACCACTCCAGTTTAT 59.273 38.462 0.00 0.00 0.00 1.40
183 184 6.075984 AGAGACTTTAGACCACTCCAGTTTA 58.924 40.000 0.00 0.00 0.00 2.01
184 185 4.902448 AGAGACTTTAGACCACTCCAGTTT 59.098 41.667 0.00 0.00 0.00 2.66
185 186 4.484912 AGAGACTTTAGACCACTCCAGTT 58.515 43.478 0.00 0.00 0.00 3.16
186 187 4.083565 GAGAGACTTTAGACCACTCCAGT 58.916 47.826 0.00 0.00 0.00 4.00
187 188 4.340617 AGAGAGACTTTAGACCACTCCAG 58.659 47.826 0.00 0.00 0.00 3.86
188 189 4.390129 AGAGAGACTTTAGACCACTCCA 57.610 45.455 0.00 0.00 0.00 3.86
189 190 4.158949 GGAAGAGAGACTTTAGACCACTCC 59.841 50.000 0.00 0.00 39.13 3.85
190 191 5.014202 AGGAAGAGAGACTTTAGACCACTC 58.986 45.833 0.00 0.00 39.13 3.51
191 192 5.005628 AGGAAGAGAGACTTTAGACCACT 57.994 43.478 0.00 0.00 39.13 4.00
192 193 4.158949 GGAGGAAGAGAGACTTTAGACCAC 59.841 50.000 0.00 0.00 39.13 4.16
193 194 4.345854 GGAGGAAGAGAGACTTTAGACCA 58.654 47.826 0.00 0.00 39.13 4.02
194 195 3.702548 GGGAGGAAGAGAGACTTTAGACC 59.297 52.174 0.00 0.00 39.13 3.85
195 196 4.345854 TGGGAGGAAGAGAGACTTTAGAC 58.654 47.826 0.00 0.00 39.13 2.59
196 197 4.676799 TGGGAGGAAGAGAGACTTTAGA 57.323 45.455 0.00 0.00 39.13 2.10
197 198 5.746990 TTTGGGAGGAAGAGAGACTTTAG 57.253 43.478 0.00 0.00 39.13 1.85
198 199 6.509523 TTTTTGGGAGGAAGAGAGACTTTA 57.490 37.500 0.00 0.00 39.13 1.85
199 200 5.388599 TTTTTGGGAGGAAGAGAGACTTT 57.611 39.130 0.00 0.00 39.13 2.66
222 223 6.579865 TGTTCGAGAGACTTTAGACCTTTTT 58.420 36.000 0.00 0.00 41.84 1.94
223 224 6.158023 TGTTCGAGAGACTTTAGACCTTTT 57.842 37.500 0.00 0.00 41.84 2.27
224 225 5.786264 TGTTCGAGAGACTTTAGACCTTT 57.214 39.130 0.00 0.00 41.84 3.11
225 226 5.786264 TTGTTCGAGAGACTTTAGACCTT 57.214 39.130 0.00 0.00 41.84 3.50
226 227 5.986501 ATTGTTCGAGAGACTTTAGACCT 57.013 39.130 0.00 0.00 41.84 3.85
249 250 2.813754 GAGTGCAGCAGTTTATGGTTCA 59.186 45.455 3.65 0.00 37.60 3.18
251 252 2.162681 GGAGTGCAGCAGTTTATGGTT 58.837 47.619 3.65 0.00 37.60 3.67
334 341 3.818787 CAAGCATCAGCCCACGCC 61.819 66.667 0.00 0.00 43.56 5.68
510 577 1.872952 TCAATCAGAACGTGCCACTTG 59.127 47.619 0.00 0.00 0.00 3.16
614 695 1.868997 GCATCACCACGTTCACCAG 59.131 57.895 0.00 0.00 0.00 4.00
720 813 7.568267 ACATCTATACATGCGAAGTAATTCG 57.432 36.000 20.17 20.17 46.34 3.34
725 818 9.886132 TCTAGATACATCTATACATGCGAAGTA 57.114 33.333 0.00 0.00 38.60 2.24
726 819 8.794335 TCTAGATACATCTATACATGCGAAGT 57.206 34.615 0.00 0.00 38.60 3.01
729 822 8.738645 ACATCTAGATACATCTATACATGCGA 57.261 34.615 4.54 0.00 38.60 5.10
758 851 9.599866 CACAGAAATGGATGTATCTACAACTAA 57.400 33.333 0.00 0.00 39.99 2.24
759 852 8.977412 TCACAGAAATGGATGTATCTACAACTA 58.023 33.333 0.00 0.00 39.99 2.24
760 853 7.766278 GTCACAGAAATGGATGTATCTACAACT 59.234 37.037 0.00 0.00 39.99 3.16
761 854 7.254117 CGTCACAGAAATGGATGTATCTACAAC 60.254 40.741 0.00 0.00 39.99 3.32
762 855 6.756542 CGTCACAGAAATGGATGTATCTACAA 59.243 38.462 0.00 0.00 39.99 2.41
763 856 6.096282 TCGTCACAGAAATGGATGTATCTACA 59.904 38.462 0.00 0.00 40.98 2.74
764 857 6.504398 TCGTCACAGAAATGGATGTATCTAC 58.496 40.000 0.00 0.00 0.00 2.59
765 858 6.321435 ACTCGTCACAGAAATGGATGTATCTA 59.679 38.462 0.00 0.00 0.00 1.98
766 859 5.127845 ACTCGTCACAGAAATGGATGTATCT 59.872 40.000 0.00 0.00 0.00 1.98
767 860 5.352284 ACTCGTCACAGAAATGGATGTATC 58.648 41.667 0.00 0.00 0.00 2.24
768 861 5.344743 ACTCGTCACAGAAATGGATGTAT 57.655 39.130 0.00 0.00 0.00 2.29
769 862 4.801330 ACTCGTCACAGAAATGGATGTA 57.199 40.909 0.00 0.00 0.00 2.29
770 863 3.685139 ACTCGTCACAGAAATGGATGT 57.315 42.857 0.00 0.00 0.00 3.06
771 864 6.668541 AATTACTCGTCACAGAAATGGATG 57.331 37.500 0.00 0.00 0.00 3.51
772 865 6.094048 CCAAATTACTCGTCACAGAAATGGAT 59.906 38.462 0.00 0.00 0.00 3.41
773 866 5.411361 CCAAATTACTCGTCACAGAAATGGA 59.589 40.000 0.00 0.00 0.00 3.41
774 867 5.411361 TCCAAATTACTCGTCACAGAAATGG 59.589 40.000 0.00 0.00 0.00 3.16
775 868 6.480524 TCCAAATTACTCGTCACAGAAATG 57.519 37.500 0.00 0.00 0.00 2.32
776 869 6.149474 CCTTCCAAATTACTCGTCACAGAAAT 59.851 38.462 0.00 0.00 0.00 2.17
777 870 5.468746 CCTTCCAAATTACTCGTCACAGAAA 59.531 40.000 0.00 0.00 0.00 2.52
778 871 4.994852 CCTTCCAAATTACTCGTCACAGAA 59.005 41.667 0.00 0.00 0.00 3.02
779 872 4.566004 CCTTCCAAATTACTCGTCACAGA 58.434 43.478 0.00 0.00 0.00 3.41
780 873 3.125316 GCCTTCCAAATTACTCGTCACAG 59.875 47.826 0.00 0.00 0.00 3.66
781 874 3.071479 GCCTTCCAAATTACTCGTCACA 58.929 45.455 0.00 0.00 0.00 3.58
782 875 3.071479 TGCCTTCCAAATTACTCGTCAC 58.929 45.455 0.00 0.00 0.00 3.67
783 876 3.071479 GTGCCTTCCAAATTACTCGTCA 58.929 45.455 0.00 0.00 0.00 4.35
784 877 2.093783 CGTGCCTTCCAAATTACTCGTC 59.906 50.000 0.00 0.00 0.00 4.20
785 878 2.073816 CGTGCCTTCCAAATTACTCGT 58.926 47.619 0.00 0.00 0.00 4.18
786 879 1.396996 CCGTGCCTTCCAAATTACTCG 59.603 52.381 0.00 0.00 0.00 4.18
787 880 1.743394 CCCGTGCCTTCCAAATTACTC 59.257 52.381 0.00 0.00 0.00 2.59
788 881 1.615919 CCCCGTGCCTTCCAAATTACT 60.616 52.381 0.00 0.00 0.00 2.24
789 882 0.815095 CCCCGTGCCTTCCAAATTAC 59.185 55.000 0.00 0.00 0.00 1.89
790 883 0.699399 TCCCCGTGCCTTCCAAATTA 59.301 50.000 0.00 0.00 0.00 1.40
791 884 0.178947 TTCCCCGTGCCTTCCAAATT 60.179 50.000 0.00 0.00 0.00 1.82
792 885 0.611896 CTTCCCCGTGCCTTCCAAAT 60.612 55.000 0.00 0.00 0.00 2.32
793 886 1.228429 CTTCCCCGTGCCTTCCAAA 60.228 57.895 0.00 0.00 0.00 3.28
794 887 1.497309 ATCTTCCCCGTGCCTTCCAA 61.497 55.000 0.00 0.00 0.00 3.53
795 888 1.923395 ATCTTCCCCGTGCCTTCCA 60.923 57.895 0.00 0.00 0.00 3.53
796 889 1.452108 CATCTTCCCCGTGCCTTCC 60.452 63.158 0.00 0.00 0.00 3.46
797 890 1.452108 CCATCTTCCCCGTGCCTTC 60.452 63.158 0.00 0.00 0.00 3.46
798 891 1.915078 CTCCATCTTCCCCGTGCCTT 61.915 60.000 0.00 0.00 0.00 4.35
799 892 2.285368 TCCATCTTCCCCGTGCCT 60.285 61.111 0.00 0.00 0.00 4.75
800 893 2.190578 CTCCATCTTCCCCGTGCC 59.809 66.667 0.00 0.00 0.00 5.01
818 917 1.360185 ATCCTGGAGATGGAGATGGC 58.640 55.000 1.52 0.00 36.99 4.40
876 978 0.985490 ATCCAGCCTCTTGTCCTCCC 60.985 60.000 0.00 0.00 0.00 4.30
929 1043 3.134127 GATCTTGGTGTGCCCGCC 61.134 66.667 0.00 0.00 41.91 6.13
930 1044 3.134127 GGATCTTGGTGTGCCCGC 61.134 66.667 0.00 0.00 35.15 6.13
931 1045 1.450312 GAGGATCTTGGTGTGCCCG 60.450 63.158 0.00 0.00 35.15 6.13
932 1046 4.645809 GAGGATCTTGGTGTGCCC 57.354 61.111 0.00 0.00 0.00 5.36
1264 1418 2.783935 GGACGAGACGACGAGGAC 59.216 66.667 0.00 0.00 37.03 3.85
1383 1540 2.126850 TTGTCGAGCTCGCTGACG 60.127 61.111 30.97 7.65 39.60 4.35
1386 1543 1.803519 GAGGTTGTCGAGCTCGCTG 60.804 63.158 30.97 5.96 42.45 5.18
2128 3126 6.036517 GGTGATTCATTGACTAGTAGCACTTG 59.963 42.308 8.81 0.32 0.00 3.16
2129 3127 6.109359 GGTGATTCATTGACTAGTAGCACTT 58.891 40.000 8.81 0.00 0.00 3.16
2193 3191 9.852091 CTAAGATAATTATGTCCCGTAAGTACC 57.148 37.037 1.78 0.00 0.00 3.34
2201 3199 8.095169 AGCCTAAACTAAGATAATTATGTCCCG 58.905 37.037 1.78 0.00 0.00 5.14
2318 3319 0.972471 CCCCTTGTGCCTTCCATTCC 60.972 60.000 0.00 0.00 0.00 3.01
2359 3382 6.171213 GCATCTGTAGTTTAGTGTAGGGTTT 58.829 40.000 0.00 0.00 0.00 3.27
2360 3383 5.247564 TGCATCTGTAGTTTAGTGTAGGGTT 59.752 40.000 0.00 0.00 0.00 4.11
2361 3384 4.775780 TGCATCTGTAGTTTAGTGTAGGGT 59.224 41.667 0.00 0.00 0.00 4.34
2362 3385 5.339008 TGCATCTGTAGTTTAGTGTAGGG 57.661 43.478 0.00 0.00 0.00 3.53
2363 3386 7.667043 TTTTGCATCTGTAGTTTAGTGTAGG 57.333 36.000 0.00 0.00 0.00 3.18
2364 3387 8.988934 TCTTTTTGCATCTGTAGTTTAGTGTAG 58.011 33.333 0.00 0.00 0.00 2.74
2365 3388 8.896320 TCTTTTTGCATCTGTAGTTTAGTGTA 57.104 30.769 0.00 0.00 0.00 2.90
2366 3389 7.715249 TCTCTTTTTGCATCTGTAGTTTAGTGT 59.285 33.333 0.00 0.00 0.00 3.55
2367 3390 8.087982 TCTCTTTTTGCATCTGTAGTTTAGTG 57.912 34.615 0.00 0.00 0.00 2.74
2368 3391 8.677148 TTCTCTTTTTGCATCTGTAGTTTAGT 57.323 30.769 0.00 0.00 0.00 2.24
2369 3392 9.604626 CTTTCTCTTTTTGCATCTGTAGTTTAG 57.395 33.333 0.00 0.00 0.00 1.85
2370 3393 9.337396 TCTTTCTCTTTTTGCATCTGTAGTTTA 57.663 29.630 0.00 0.00 0.00 2.01
2456 3479 4.657436 ATAAGACTAAGGAGCTGTTCGG 57.343 45.455 0.00 0.00 0.00 4.30
2458 3481 6.399639 AGCTATAAGACTAAGGAGCTGTTC 57.600 41.667 0.00 0.00 38.78 3.18
2493 3600 8.864069 TTACATTTTCCACACTAACAAATGTG 57.136 30.769 15.50 0.00 44.14 3.21
2510 3617 2.289631 GCAGGCCAAGGCTTTACATTTT 60.290 45.455 5.01 0.00 41.60 1.82
2525 3632 3.512516 GTTGAGCGGATGCAGGCC 61.513 66.667 0.00 0.00 46.23 5.19
2549 3656 0.543174 AACAGAAGACGAGGCTCCCT 60.543 55.000 9.32 3.48 36.03 4.20


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

AutoCloner maintained by Alex Coulton.