Multiple sequence alignment - TraesCS7B01G501500

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 TraesCS7B01G501500 chr7B 100.000 2792 0 0 1 2792 750392148 750389357 0.000000e+00 5156.0
1 TraesCS7B01G501500 chr7B 95.671 947 31 4 1852 2792 750379002 750378060 0.000000e+00 1513.0
2 TraesCS7B01G501500 chr7B 91.753 194 16 0 2142 2335 750452342 750452149 1.270000e-68 270.0
3 TraesCS7B01G501500 chr7B 93.976 166 10 0 207 372 750392627 750392792 4.620000e-63 252.0
4 TraesCS7B01G501500 chr7B 88.372 129 15 0 2570 2698 730955655 730955527 3.720000e-34 156.0
5 TraesCS7B01G501500 chr7A 91.450 1076 40 20 570 1618 732841740 732842790 0.000000e+00 1430.0
6 TraesCS7B01G501500 chr7A 94.377 409 20 1 1489 1894 732842697 732843105 2.360000e-175 625.0
7 TraesCS7B01G501500 chr7A 93.915 378 20 2 1958 2335 732845026 732845400 4.040000e-158 568.0
8 TraesCS7B01G501500 chr7A 92.606 284 21 0 211 494 732841457 732841740 2.590000e-110 409.0
9 TraesCS7B01G501500 chr7A 88.837 215 20 2 1 211 732840881 732840667 7.670000e-66 261.0
10 TraesCS7B01G501500 chr7A 84.236 203 22 6 2374 2569 732845406 732845605 3.670000e-44 189.0
11 TraesCS7B01G501500 chr7A 89.231 130 12 2 2570 2698 65440316 65440188 8.000000e-36 161.0
12 TraesCS7B01G501500 chr7D 90.794 869 55 7 1489 2335 633694984 633694119 0.000000e+00 1138.0
13 TraesCS7B01G501500 chr7D 92.692 780 34 17 860 1618 633695668 633694891 0.000000e+00 1103.0
14 TraesCS7B01G501500 chr7D 94.286 420 22 2 210 628 633704475 633704057 2.340000e-180 641.0
15 TraesCS7B01G501500 chr7D 91.628 215 13 3 1 211 633704942 633705155 2.720000e-75 292.0
16 TraesCS7B01G501500 chr7D 97.931 145 3 0 708 852 633695863 633695719 4.620000e-63 252.0
17 TraesCS7B01G501500 chr7D 91.538 130 11 0 2569 2698 591304036 591304165 2.210000e-41 180.0
18 TraesCS7B01G501500 chr7D 90.698 129 12 0 2570 2698 409362186 409362058 3.700000e-39 172.0
19 TraesCS7B01G501500 chr7D 97.872 94 2 0 613 706 633696036 633695943 2.230000e-36 163.0
20 TraesCS7B01G501500 chr7D 87.970 133 14 1 2568 2698 478014499 478014631 3.720000e-34 156.0
21 TraesCS7B01G501500 chr7D 81.773 203 18 7 2374 2569 633694113 633693923 4.820000e-33 152.0
22 TraesCS7B01G501500 chr7D 89.362 94 7 2 1489 1579 633694942 633694849 6.320000e-22 115.0
23 TraesCS7B01G501500 chr3D 82.550 447 38 21 1080 1522 157750061 157750471 9.510000e-95 357.0
24 TraesCS7B01G501500 chr3D 82.184 348 52 8 367 706 157749225 157749570 9.780000e-75 291.0
25 TraesCS7B01G501500 chr3D 77.251 422 68 14 1104 1522 157659703 157660099 3.620000e-54 222.0
26 TraesCS7B01G501500 chr3D 77.494 431 54 24 1638 2035 157750530 157750950 4.680000e-53 219.0
27 TraesCS7B01G501500 chr3D 94.059 101 6 0 2692 2792 530665310 530665410 1.340000e-33 154.0
28 TraesCS7B01G501500 chr3D 80.473 169 30 2 44 209 2298341 2298173 2.920000e-25 126.0
29 TraesCS7B01G501500 chr3D 95.455 66 3 0 867 932 157749859 157749924 3.800000e-19 106.0
30 TraesCS7B01G501500 chr3D 92.500 40 3 0 248 287 157741944 157741983 1.080000e-04 58.4
31 TraesCS7B01G501500 chr6D 81.758 455 44 20 1080 1531 438518573 438518991 7.400000e-91 344.0
32 TraesCS7B01G501500 chr6D 84.104 346 47 5 367 706 438517738 438518081 7.460000e-86 327.0
33 TraesCS7B01G501500 chr6D 76.798 431 58 22 1638 2037 438519017 438519436 1.310000e-48 204.0
34 TraesCS7B01G501500 chr6D 95.312 64 3 0 869 932 438518373 438518436 4.920000e-18 102.0
35 TraesCS7B01G501500 chr6D 100.000 28 0 0 248 275 438515610 438515637 5.000000e-03 52.8
36 TraesCS7B01G501500 chr3B 81.674 442 52 19 1080 1519 229006284 229006698 9.580000e-90 340.0
37 TraesCS7B01G501500 chr3B 83.578 341 44 10 374 706 229005456 229005792 2.700000e-80 309.0
38 TraesCS7B01G501500 chr3B 77.986 427 67 18 1104 1522 228983047 228983454 2.780000e-60 243.0
39 TraesCS7B01G501500 chr3B 92.135 89 5 1 1949 2037 229007105 229007191 1.050000e-24 124.0
40 TraesCS7B01G501500 chr3B 93.750 64 4 0 869 932 229006084 229006147 2.290000e-16 97.1
41 TraesCS7B01G501500 chr3B 100.000 28 0 0 248 275 229003714 229003741 5.000000e-03 52.8
42 TraesCS7B01G501500 chr3A 81.920 448 39 21 1080 1519 170391055 170390642 9.580000e-90 340.0
43 TraesCS7B01G501500 chr3A 76.815 427 73 18 1107 1528 170486458 170486053 1.680000e-52 217.0
44 TraesCS7B01G501500 chr3A 73.308 517 62 36 1570 2037 170390649 170390160 1.360000e-23 121.0
45 TraesCS7B01G501500 chr3A 93.750 64 4 0 869 932 170391255 170391192 2.290000e-16 97.1
46 TraesCS7B01G501500 chr1D 91.339 127 11 0 2570 2696 220930004 220930130 1.030000e-39 174.0
47 TraesCS7B01G501500 chr1D 92.453 106 7 1 2687 2792 74280194 74280090 1.730000e-32 150.0
48 TraesCS7B01G501500 chr4D 90.625 128 12 0 2571 2698 285002536 285002663 1.330000e-38 171.0
49 TraesCS7B01G501500 chr4D 95.000 100 4 1 2694 2792 457526183 457526282 3.720000e-34 156.0
50 TraesCS7B01G501500 chrUn 94.949 99 5 0 2694 2792 305213129 305213227 3.720000e-34 156.0
51 TraesCS7B01G501500 chrUn 90.000 50 3 2 1952 2001 293324669 293324716 2.320000e-06 63.9
52 TraesCS7B01G501500 chrUn 90.000 50 3 2 1952 2001 389791240 389791287 2.320000e-06 63.9
53 TraesCS7B01G501500 chr6B 95.833 96 4 0 2697 2792 491950691 491950786 3.720000e-34 156.0
54 TraesCS7B01G501500 chr2D 87.879 132 16 0 2567 2698 99500095 99499964 3.720000e-34 156.0
55 TraesCS7B01G501500 chr2D 94.118 102 4 2 2692 2792 83963609 83963509 1.340000e-33 154.0
56 TraesCS7B01G501500 chr2B 95.833 96 4 0 2697 2792 30997418 30997513 3.720000e-34 156.0
57 TraesCS7B01G501500 chr1A 94.792 96 5 0 2697 2792 12578141 12578046 1.730000e-32 150.0


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 TraesCS7B01G501500 chr7B 750389357 750392148 2791 True 5156.000000 5156 100.000000 1 2792 1 chr7B.!!$R3 2791
1 TraesCS7B01G501500 chr7B 750378060 750379002 942 True 1513.000000 1513 95.671000 1852 2792 1 chr7B.!!$R2 940
2 TraesCS7B01G501500 chr7A 732841457 732845605 4148 False 644.200000 1430 91.316800 211 2569 5 chr7A.!!$F1 2358
3 TraesCS7B01G501500 chr7D 633693923 633696036 2113 True 487.166667 1138 91.737333 613 2569 6 chr7D.!!$R3 1956
4 TraesCS7B01G501500 chr3D 157749225 157750950 1725 False 243.250000 357 84.420750 367 2035 4 chr3D.!!$F4 1668
5 TraesCS7B01G501500 chr6D 438515610 438519436 3826 False 205.960000 344 87.594400 248 2037 5 chr6D.!!$F1 1789

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
578 2598 0.104304 AACCGGGAACTATAGCGCAG 59.896 55.0 11.47 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2407 6619 0.248539 GCTGTACTCGGCTTACTCGG 60.249 60.0 0.0 0.0 42.2 4.63 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
19 20 1.693627 AATCGATACTGACGGCTCCT 58.306 50.000 0.00 0.00 0.00 3.69
20 21 1.240256 ATCGATACTGACGGCTCCTC 58.760 55.000 0.00 0.00 0.00 3.71
21 22 0.180642 TCGATACTGACGGCTCCTCT 59.819 55.000 0.00 0.00 0.00 3.69
22 23 1.415289 TCGATACTGACGGCTCCTCTA 59.585 52.381 0.00 0.00 0.00 2.43
23 24 2.038689 TCGATACTGACGGCTCCTCTAT 59.961 50.000 0.00 0.00 0.00 1.98
24 25 2.417239 CGATACTGACGGCTCCTCTATC 59.583 54.545 0.00 0.00 0.00 2.08
25 26 2.273538 TACTGACGGCTCCTCTATCC 57.726 55.000 0.00 0.00 0.00 2.59
26 27 0.259065 ACTGACGGCTCCTCTATCCA 59.741 55.000 0.00 0.00 0.00 3.41
27 28 0.671251 CTGACGGCTCCTCTATCCAC 59.329 60.000 0.00 0.00 0.00 4.02
28 29 1.101635 TGACGGCTCCTCTATCCACG 61.102 60.000 0.00 0.00 0.00 4.94
29 30 1.076923 ACGGCTCCTCTATCCACGT 60.077 57.895 0.00 0.00 0.00 4.49
30 31 0.683504 ACGGCTCCTCTATCCACGTT 60.684 55.000 0.00 0.00 0.00 3.99
31 32 0.249073 CGGCTCCTCTATCCACGTTG 60.249 60.000 0.00 0.00 0.00 4.10
32 33 1.112113 GGCTCCTCTATCCACGTTGA 58.888 55.000 0.00 0.00 0.00 3.18
33 34 1.689273 GGCTCCTCTATCCACGTTGAT 59.311 52.381 7.36 7.36 0.00 2.57
34 35 2.546795 GGCTCCTCTATCCACGTTGATG 60.547 54.545 12.15 3.15 0.00 3.07
35 36 2.546795 GCTCCTCTATCCACGTTGATGG 60.547 54.545 12.15 9.35 41.57 3.51
36 37 2.695666 CTCCTCTATCCACGTTGATGGT 59.304 50.000 12.15 0.00 40.95 3.55
37 38 2.430694 TCCTCTATCCACGTTGATGGTG 59.569 50.000 12.15 9.69 40.95 4.17
42 43 4.063529 CACGTTGATGGTGGCACT 57.936 55.556 18.45 0.00 0.00 4.40
43 44 3.225272 CACGTTGATGGTGGCACTA 57.775 52.632 18.45 12.70 0.00 2.74
44 45 1.078709 CACGTTGATGGTGGCACTAG 58.921 55.000 18.45 1.36 0.00 2.57
45 46 0.973632 ACGTTGATGGTGGCACTAGA 59.026 50.000 18.45 2.17 0.00 2.43
46 47 1.337823 ACGTTGATGGTGGCACTAGAC 60.338 52.381 18.45 10.46 0.00 2.59
47 48 1.739067 GTTGATGGTGGCACTAGACC 58.261 55.000 18.45 5.78 0.00 3.85
48 49 0.249120 TTGATGGTGGCACTAGACCG 59.751 55.000 18.45 0.00 34.69 4.79
49 50 1.521681 GATGGTGGCACTAGACCGC 60.522 63.158 18.45 10.48 34.69 5.68
50 51 1.961180 GATGGTGGCACTAGACCGCT 61.961 60.000 18.45 0.00 37.83 5.52
51 52 0.686441 ATGGTGGCACTAGACCGCTA 60.686 55.000 18.45 12.36 37.83 4.26
53 54 1.227002 GTGGCACTAGACCGCTAGC 60.227 63.158 11.13 4.06 46.55 3.42
54 55 2.417936 GGCACTAGACCGCTAGCC 59.582 66.667 9.66 0.00 46.55 3.93
55 56 2.128507 GGCACTAGACCGCTAGCCT 61.129 63.158 9.66 2.96 46.55 4.58
56 57 0.822532 GGCACTAGACCGCTAGCCTA 60.823 60.000 9.66 4.09 46.55 3.93
57 58 0.594110 GCACTAGACCGCTAGCCTAG 59.406 60.000 19.22 19.22 46.55 3.02
58 59 0.594110 CACTAGACCGCTAGCCTAGC 59.406 60.000 20.22 13.87 46.55 3.42
72 73 6.832520 CTAGCCTAGCTAATTCATGAGAGA 57.167 41.667 0.00 0.00 40.82 3.10
73 74 5.467035 AGCCTAGCTAATTCATGAGAGAC 57.533 43.478 0.00 0.00 36.99 3.36
74 75 5.147032 AGCCTAGCTAATTCATGAGAGACT 58.853 41.667 0.00 0.72 36.99 3.24
75 76 6.310941 AGCCTAGCTAATTCATGAGAGACTA 58.689 40.000 0.00 1.73 36.99 2.59
76 77 6.208599 AGCCTAGCTAATTCATGAGAGACTAC 59.791 42.308 0.00 0.00 36.99 2.73
77 78 6.015856 GCCTAGCTAATTCATGAGAGACTACA 60.016 42.308 0.00 0.00 0.00 2.74
78 79 7.592938 CCTAGCTAATTCATGAGAGACTACAG 58.407 42.308 0.00 0.00 0.00 2.74
79 80 7.230510 CCTAGCTAATTCATGAGAGACTACAGT 59.769 40.741 0.00 0.00 0.00 3.55
80 81 7.038154 AGCTAATTCATGAGAGACTACAGTC 57.962 40.000 0.91 0.91 45.08 3.51
90 91 2.923605 GACTACAGTCGTCTCCCTTG 57.076 55.000 0.00 0.00 35.12 3.61
91 92 1.473278 GACTACAGTCGTCTCCCTTGG 59.527 57.143 0.00 0.00 35.12 3.61
92 93 0.818296 CTACAGTCGTCTCCCTTGGG 59.182 60.000 0.00 0.00 0.00 4.12
93 94 1.255667 TACAGTCGTCTCCCTTGGGC 61.256 60.000 0.00 0.00 0.00 5.36
94 95 2.203788 AGTCGTCTCCCTTGGGCA 60.204 61.111 0.00 0.00 0.00 5.36
95 96 2.266055 GTCGTCTCCCTTGGGCAG 59.734 66.667 0.00 0.25 0.00 4.85
96 97 2.203788 TCGTCTCCCTTGGGCAGT 60.204 61.111 0.00 0.00 0.00 4.40
97 98 2.046892 CGTCTCCCTTGGGCAGTG 60.047 66.667 0.00 0.00 0.00 3.66
98 99 2.583441 CGTCTCCCTTGGGCAGTGA 61.583 63.158 0.00 0.00 0.00 3.41
99 100 1.761174 GTCTCCCTTGGGCAGTGAA 59.239 57.895 0.00 0.00 0.00 3.18
100 101 0.606673 GTCTCCCTTGGGCAGTGAAC 60.607 60.000 0.00 0.00 0.00 3.18
101 102 1.672356 CTCCCTTGGGCAGTGAACG 60.672 63.158 0.00 0.00 0.00 3.95
102 103 2.111999 CTCCCTTGGGCAGTGAACGA 62.112 60.000 0.00 0.00 0.00 3.85
103 104 1.228124 CCCTTGGGCAGTGAACGAA 60.228 57.895 0.00 0.00 0.00 3.85
104 105 0.821711 CCCTTGGGCAGTGAACGAAA 60.822 55.000 0.00 0.00 0.00 3.46
105 106 0.593128 CCTTGGGCAGTGAACGAAAG 59.407 55.000 0.00 0.00 0.00 2.62
106 107 1.593196 CTTGGGCAGTGAACGAAAGA 58.407 50.000 0.00 0.00 0.00 2.52
107 108 1.946768 CTTGGGCAGTGAACGAAAGAA 59.053 47.619 0.00 0.00 0.00 2.52
108 109 2.045561 TGGGCAGTGAACGAAAGAAA 57.954 45.000 0.00 0.00 0.00 2.52
109 110 1.673920 TGGGCAGTGAACGAAAGAAAC 59.326 47.619 0.00 0.00 0.00 2.78
110 111 1.001706 GGGCAGTGAACGAAAGAAACC 60.002 52.381 0.00 0.00 0.00 3.27
111 112 1.333791 GGCAGTGAACGAAAGAAACCG 60.334 52.381 0.00 0.00 0.00 4.44
112 113 1.595794 GCAGTGAACGAAAGAAACCGA 59.404 47.619 0.00 0.00 0.00 4.69
113 114 2.348591 GCAGTGAACGAAAGAAACCGAG 60.349 50.000 0.00 0.00 0.00 4.63
114 115 2.221055 CAGTGAACGAAAGAAACCGAGG 59.779 50.000 0.00 0.00 0.00 4.63
115 116 2.159000 AGTGAACGAAAGAAACCGAGGT 60.159 45.455 0.00 0.00 0.00 3.85
116 117 3.068590 AGTGAACGAAAGAAACCGAGGTA 59.931 43.478 0.00 0.00 0.00 3.08
117 118 3.992427 GTGAACGAAAGAAACCGAGGTAT 59.008 43.478 0.00 0.00 0.00 2.73
118 119 5.047802 AGTGAACGAAAGAAACCGAGGTATA 60.048 40.000 0.00 0.00 0.00 1.47
119 120 5.809051 GTGAACGAAAGAAACCGAGGTATAT 59.191 40.000 0.00 0.00 0.00 0.86
120 121 6.974622 GTGAACGAAAGAAACCGAGGTATATA 59.025 38.462 0.00 0.00 0.00 0.86
121 122 6.974622 TGAACGAAAGAAACCGAGGTATATAC 59.025 38.462 4.14 4.14 0.00 1.47
122 123 6.705863 ACGAAAGAAACCGAGGTATATACT 57.294 37.500 12.54 0.00 0.00 2.12
123 124 6.501781 ACGAAAGAAACCGAGGTATATACTG 58.498 40.000 12.54 3.60 0.00 2.74
124 125 5.919141 CGAAAGAAACCGAGGTATATACTGG 59.081 44.000 12.54 13.43 0.00 4.00
125 126 6.238842 CGAAAGAAACCGAGGTATATACTGGA 60.239 42.308 19.45 0.00 0.00 3.86
126 127 6.651975 AAGAAACCGAGGTATATACTGGAG 57.348 41.667 19.45 8.40 0.00 3.86
127 128 5.950023 AGAAACCGAGGTATATACTGGAGA 58.050 41.667 19.45 0.00 0.00 3.71
128 129 6.005198 AGAAACCGAGGTATATACTGGAGAG 58.995 44.000 19.45 6.53 0.00 3.20
129 130 5.579753 AACCGAGGTATATACTGGAGAGA 57.420 43.478 19.45 0.00 0.00 3.10
130 131 4.909001 ACCGAGGTATATACTGGAGAGAC 58.091 47.826 19.45 1.36 0.00 3.36
131 132 3.933955 CCGAGGTATATACTGGAGAGACG 59.066 52.174 12.54 7.04 0.00 4.18
132 133 4.322574 CCGAGGTATATACTGGAGAGACGA 60.323 50.000 12.54 0.00 0.00 4.20
133 134 4.626604 CGAGGTATATACTGGAGAGACGAC 59.373 50.000 12.54 0.00 0.00 4.34
134 135 4.567971 AGGTATATACTGGAGAGACGACG 58.432 47.826 12.54 0.00 0.00 5.12
135 136 4.040217 AGGTATATACTGGAGAGACGACGT 59.960 45.833 12.54 0.00 0.00 4.34
136 137 4.754114 GGTATATACTGGAGAGACGACGTT 59.246 45.833 12.54 0.00 0.00 3.99
137 138 5.928839 GGTATATACTGGAGAGACGACGTTA 59.071 44.000 12.54 0.00 0.00 3.18
138 139 6.425114 GGTATATACTGGAGAGACGACGTTAA 59.575 42.308 12.54 0.00 0.00 2.01
139 140 7.118971 GGTATATACTGGAGAGACGACGTTAAT 59.881 40.741 12.54 0.00 0.00 1.40
140 141 9.144747 GTATATACTGGAGAGACGACGTTAATA 57.855 37.037 0.13 0.00 0.00 0.98
141 142 8.789825 ATATACTGGAGAGACGACGTTAATAT 57.210 34.615 0.13 0.00 0.00 1.28
142 143 5.421212 ACTGGAGAGACGACGTTAATATC 57.579 43.478 0.13 0.00 0.00 1.63
143 144 4.880120 ACTGGAGAGACGACGTTAATATCA 59.120 41.667 0.13 0.00 0.00 2.15
144 145 5.007823 ACTGGAGAGACGACGTTAATATCAG 59.992 44.000 0.13 8.93 0.00 2.90
145 146 4.220572 GGAGAGACGACGTTAATATCAGC 58.779 47.826 0.13 0.00 0.00 4.26
146 147 4.261072 GGAGAGACGACGTTAATATCAGCA 60.261 45.833 0.13 0.00 0.00 4.41
147 148 5.440234 AGAGACGACGTTAATATCAGCAT 57.560 39.130 0.13 0.00 0.00 3.79
148 149 6.348295 GGAGAGACGACGTTAATATCAGCATA 60.348 42.308 0.13 0.00 0.00 3.14
149 150 6.967135 AGAGACGACGTTAATATCAGCATAA 58.033 36.000 0.13 0.00 0.00 1.90
150 151 7.423199 AGAGACGACGTTAATATCAGCATAAA 58.577 34.615 0.13 0.00 0.00 1.40
151 152 8.082852 AGAGACGACGTTAATATCAGCATAAAT 58.917 33.333 0.13 0.00 0.00 1.40
152 153 8.007821 AGACGACGTTAATATCAGCATAAATG 57.992 34.615 0.13 0.00 0.00 2.32
153 154 7.116376 AGACGACGTTAATATCAGCATAAATGG 59.884 37.037 0.13 0.00 0.00 3.16
154 155 6.704493 ACGACGTTAATATCAGCATAAATGGT 59.296 34.615 0.00 0.00 39.42 3.55
160 161 3.525221 AGCATAAATGGTGGCCGC 58.475 55.556 8.12 8.12 37.10 6.53
161 162 1.076777 AGCATAAATGGTGGCCGCT 60.077 52.632 17.49 2.83 37.10 5.52
162 163 0.684153 AGCATAAATGGTGGCCGCTT 60.684 50.000 17.49 5.31 37.10 4.68
163 164 0.249031 GCATAAATGGTGGCCGCTTC 60.249 55.000 17.49 0.14 0.00 3.86
164 165 1.392589 CATAAATGGTGGCCGCTTCT 58.607 50.000 17.49 1.10 0.00 2.85
165 166 2.571212 CATAAATGGTGGCCGCTTCTA 58.429 47.619 17.49 3.45 0.00 2.10
166 167 2.791347 TAAATGGTGGCCGCTTCTAA 57.209 45.000 17.49 0.00 0.00 2.10
167 168 1.917872 AAATGGTGGCCGCTTCTAAA 58.082 45.000 17.49 0.00 0.00 1.85
168 169 1.917872 AATGGTGGCCGCTTCTAAAA 58.082 45.000 17.49 0.00 0.00 1.52
169 170 1.173913 ATGGTGGCCGCTTCTAAAAC 58.826 50.000 17.49 0.00 0.00 2.43
170 171 0.109723 TGGTGGCCGCTTCTAAAACT 59.890 50.000 17.49 0.00 0.00 2.66
171 172 0.521735 GGTGGCCGCTTCTAAAACTG 59.478 55.000 17.49 0.00 0.00 3.16
172 173 1.235724 GTGGCCGCTTCTAAAACTGT 58.764 50.000 9.68 0.00 0.00 3.55
173 174 1.069227 GTGGCCGCTTCTAAAACTGTG 60.069 52.381 9.68 0.00 0.00 3.66
174 175 1.202710 TGGCCGCTTCTAAAACTGTGA 60.203 47.619 0.00 0.00 0.00 3.58
175 176 1.877443 GGCCGCTTCTAAAACTGTGAA 59.123 47.619 0.00 0.00 0.00 3.18
176 177 2.095718 GGCCGCTTCTAAAACTGTGAAG 60.096 50.000 0.00 0.00 39.88 3.02
182 183 4.646572 CTTCTAAAACTGTGAAGCCTCCT 58.353 43.478 0.00 0.00 32.22 3.69
183 184 4.706842 TCTAAAACTGTGAAGCCTCCTT 57.293 40.909 0.00 0.00 0.00 3.36
184 185 4.389374 TCTAAAACTGTGAAGCCTCCTTG 58.611 43.478 0.00 0.00 0.00 3.61
185 186 1.322442 AAACTGTGAAGCCTCCTTGC 58.678 50.000 0.00 0.00 0.00 4.01
186 187 0.183492 AACTGTGAAGCCTCCTTGCA 59.817 50.000 0.00 0.00 0.00 4.08
187 188 0.403271 ACTGTGAAGCCTCCTTGCAT 59.597 50.000 0.00 0.00 0.00 3.96
188 189 0.809385 CTGTGAAGCCTCCTTGCATG 59.191 55.000 0.00 0.00 0.00 4.06
189 190 0.609957 TGTGAAGCCTCCTTGCATGG 60.610 55.000 12.41 12.41 0.00 3.66
190 191 0.610232 GTGAAGCCTCCTTGCATGGT 60.610 55.000 17.54 0.00 0.00 3.55
191 192 0.609957 TGAAGCCTCCTTGCATGGTG 60.610 55.000 17.54 14.90 0.00 4.17
192 193 0.610232 GAAGCCTCCTTGCATGGTGT 60.610 55.000 17.54 0.77 0.00 4.16
193 194 0.178953 AAGCCTCCTTGCATGGTGTT 60.179 50.000 17.54 6.50 0.00 3.32
194 195 0.896940 AGCCTCCTTGCATGGTGTTG 60.897 55.000 17.54 5.73 0.00 3.33
195 196 0.895100 GCCTCCTTGCATGGTGTTGA 60.895 55.000 17.54 0.00 0.00 3.18
196 197 1.843368 CCTCCTTGCATGGTGTTGAT 58.157 50.000 17.54 0.00 0.00 2.57
197 198 1.747355 CCTCCTTGCATGGTGTTGATC 59.253 52.381 17.54 0.00 0.00 2.92
198 199 2.439409 CTCCTTGCATGGTGTTGATCA 58.561 47.619 17.54 0.00 0.00 2.92
199 200 2.161855 TCCTTGCATGGTGTTGATCAC 58.838 47.619 17.54 0.00 45.47 3.06
221 222 1.203250 TCCATACAGTGACCCTCCACA 60.203 52.381 0.00 0.00 39.42 4.17
244 245 1.742880 GCTGCGAGAAGACATGGCA 60.743 57.895 0.00 0.00 0.00 4.92
308 887 4.885907 CCATATGTGTTTCAGCAGAGGATT 59.114 41.667 1.24 0.00 0.00 3.01
345 924 2.032894 CGTCAACCAACAACTAGCACAG 60.033 50.000 0.00 0.00 0.00 3.66
353 932 3.252974 ACAACTAGCACAGGTATCTGC 57.747 47.619 1.90 0.00 44.59 4.26
358 937 4.848357 ACTAGCACAGGTATCTGCAAAAT 58.152 39.130 1.90 0.00 44.59 1.82
409 2428 6.017933 CGATAGTTCAACATTTGAGAAGTGC 58.982 40.000 0.00 0.00 41.38 4.40
411 2430 3.876914 AGTTCAACATTTGAGAAGTGCGA 59.123 39.130 0.00 0.00 41.38 5.10
511 2531 5.807011 AGTTTTTCTTGCTAGTTTGCACTTG 59.193 36.000 0.00 0.00 43.20 3.16
512 2532 5.574891 TTTTCTTGCTAGTTTGCACTTGA 57.425 34.783 0.00 0.00 43.20 3.02
529 2549 5.679906 CACTTGAGAACTTATCCAACGTTG 58.320 41.667 21.47 21.47 0.00 4.10
557 2577 5.131067 GGAGAGTAACAAGGACCAAAACTT 58.869 41.667 0.00 0.00 0.00 2.66
578 2598 0.104304 AACCGGGAACTATAGCGCAG 59.896 55.000 11.47 0.00 0.00 5.18
855 3008 7.052142 AGTAGTGTACAACCATATTAGCTCC 57.948 40.000 0.00 0.00 0.00 4.70
858 3011 7.052142 AGTGTACAACCATATTAGCTCCTAC 57.948 40.000 0.00 0.00 0.00 3.18
862 3064 4.202223 ACAACCATATTAGCTCCTACGTGG 60.202 45.833 0.00 0.00 37.10 4.94
875 3092 0.766131 TACGTGGGACCAAACATGGT 59.234 50.000 0.00 0.00 46.40 3.55
937 3154 1.462238 AGACAGGGTCTGCCACCTT 60.462 57.895 0.00 0.00 45.95 3.50
945 3197 2.224793 GGGTCTGCCACCTTAAAGAGTT 60.225 50.000 2.13 0.00 45.95 3.01
974 3226 1.507140 AAGTCCAAGGGTGTCACAGA 58.493 50.000 5.12 0.00 0.00 3.41
975 3227 0.759346 AGTCCAAGGGTGTCACAGAC 59.241 55.000 5.12 3.68 0.00 3.51
976 3228 0.759346 GTCCAAGGGTGTCACAGACT 59.241 55.000 5.12 0.00 33.15 3.24
977 3229 1.048601 TCCAAGGGTGTCACAGACTC 58.951 55.000 5.12 0.00 33.15 3.36
978 3230 0.758734 CCAAGGGTGTCACAGACTCA 59.241 55.000 5.12 0.00 33.15 3.41
979 3231 1.541233 CCAAGGGTGTCACAGACTCAC 60.541 57.143 5.12 0.00 33.15 3.51
980 3232 1.138859 CAAGGGTGTCACAGACTCACA 59.861 52.381 5.12 0.00 32.66 3.58
981 3233 1.043816 AGGGTGTCACAGACTCACAG 58.956 55.000 5.12 0.00 32.66 3.66
999 3258 0.900647 AGGTTCACGGCTAGCTCACT 60.901 55.000 15.72 1.03 0.00 3.41
1035 3294 3.520290 AGCCATCATGCATGTTCTTTG 57.480 42.857 25.43 15.29 0.00 2.77
1446 3706 2.335712 CGACAAGCCAAAGGAGCCC 61.336 63.158 0.00 0.00 0.00 5.19
1469 3729 0.476611 AAGAAGAAGGACCCCTGCCT 60.477 55.000 0.00 0.00 37.35 4.75
1621 3950 2.949106 CGTGCTGCAAGAAGGTGG 59.051 61.111 10.10 0.00 34.07 4.61
1642 3971 2.754658 CGTCCTGCTACCCGTCCT 60.755 66.667 0.00 0.00 0.00 3.85
1713 4042 1.100510 TCTACATCTACGGCTGCGTT 58.899 50.000 0.00 0.00 0.00 4.84
1779 4126 0.820871 GCGGACTCAGAGGAGAATGT 59.179 55.000 1.53 0.00 44.26 2.71
1857 4214 0.808125 GCATGTATGGCGGTTTGTCA 59.192 50.000 0.00 0.00 36.02 3.58
1858 4215 1.201181 GCATGTATGGCGGTTTGTCAA 59.799 47.619 0.00 0.00 34.57 3.18
2302 6514 1.219522 AACACGCGTTGCCTAGTGTC 61.220 55.000 10.22 0.00 45.74 3.67
2365 6577 4.829588 GGCTAAGCCGAGTACCAC 57.170 61.111 0.00 0.00 39.62 4.16
2368 6580 1.509463 CTAAGCCGAGTACCACGCA 59.491 57.895 4.82 0.00 0.00 5.24
2369 6581 0.108992 CTAAGCCGAGTACCACGCAA 60.109 55.000 4.82 0.00 0.00 4.85
2370 6582 0.317799 TAAGCCGAGTACCACGCAAA 59.682 50.000 4.82 0.00 0.00 3.68
2371 6583 0.533308 AAGCCGAGTACCACGCAAAA 60.533 50.000 4.82 0.00 0.00 2.44
2400 6612 2.906897 CACGGCAAACACAGGGCT 60.907 61.111 0.00 0.00 0.00 5.19
2403 6615 0.251165 ACGGCAAACACAGGGCTAAT 60.251 50.000 0.00 0.00 0.00 1.73
2404 6616 1.003812 ACGGCAAACACAGGGCTAATA 59.996 47.619 0.00 0.00 0.00 0.98
2405 6617 2.088423 CGGCAAACACAGGGCTAATAA 58.912 47.619 0.00 0.00 0.00 1.40
2406 6618 2.490115 CGGCAAACACAGGGCTAATAAA 59.510 45.455 0.00 0.00 0.00 1.40
2407 6619 3.672241 CGGCAAACACAGGGCTAATAAAC 60.672 47.826 0.00 0.00 0.00 2.01
2408 6620 3.368013 GGCAAACACAGGGCTAATAAACC 60.368 47.826 0.00 0.00 0.00 3.27
2469 6687 5.722021 AAAGAAAACTTGGCATATTCCGT 57.278 34.783 0.00 0.00 0.00 4.69
2577 6796 3.304257 GCGCTATAAGCCGACACTACTAA 60.304 47.826 0.00 0.00 38.18 2.24
2651 6870 1.925068 GCGCTACTGATACGGCACTAC 60.925 57.143 0.00 0.00 0.00 2.73
2683 6902 3.367743 AGTAGCGCGTTCCGTCCA 61.368 61.111 8.43 0.00 39.71 4.02
2704 6923 2.885894 AGCGCTACTGTTATACTCCCTC 59.114 50.000 8.99 0.00 0.00 4.30
2734 6953 6.127730 CCCAAATAGATGACCCAACTTTGTAC 60.128 42.308 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.609555 GAGGAGCCGTCAGTATCGATT 59.390 52.381 1.71 0.00 0.00 3.34
1 2 1.202830 AGAGGAGCCGTCAGTATCGAT 60.203 52.381 2.16 2.16 0.00 3.59
2 3 0.180642 AGAGGAGCCGTCAGTATCGA 59.819 55.000 0.00 0.00 0.00 3.59
3 4 1.880271 TAGAGGAGCCGTCAGTATCG 58.120 55.000 0.00 0.00 0.00 2.92
4 5 2.750712 GGATAGAGGAGCCGTCAGTATC 59.249 54.545 0.00 0.00 0.00 2.24
5 6 2.108425 TGGATAGAGGAGCCGTCAGTAT 59.892 50.000 0.00 0.00 35.82 2.12
6 7 1.493446 TGGATAGAGGAGCCGTCAGTA 59.507 52.381 0.00 0.00 35.82 2.74
7 8 0.259065 TGGATAGAGGAGCCGTCAGT 59.741 55.000 0.00 0.00 35.82 3.41
8 9 0.671251 GTGGATAGAGGAGCCGTCAG 59.329 60.000 0.00 0.00 35.82 3.51
9 10 1.101635 CGTGGATAGAGGAGCCGTCA 61.102 60.000 0.00 0.00 35.82 4.35
10 11 1.102222 ACGTGGATAGAGGAGCCGTC 61.102 60.000 0.00 0.00 35.82 4.79
11 12 0.683504 AACGTGGATAGAGGAGCCGT 60.684 55.000 0.00 0.00 35.82 5.68
12 13 0.249073 CAACGTGGATAGAGGAGCCG 60.249 60.000 0.00 0.00 35.82 5.52
13 14 1.112113 TCAACGTGGATAGAGGAGCC 58.888 55.000 0.00 0.00 0.00 4.70
14 15 2.546795 CCATCAACGTGGATAGAGGAGC 60.547 54.545 4.78 0.00 42.02 4.70
15 16 2.695666 ACCATCAACGTGGATAGAGGAG 59.304 50.000 13.37 0.00 42.02 3.69
16 17 2.430694 CACCATCAACGTGGATAGAGGA 59.569 50.000 13.37 0.00 42.02 3.71
17 18 2.826428 CACCATCAACGTGGATAGAGG 58.174 52.381 4.78 5.67 42.02 3.69
25 26 1.078709 CTAGTGCCACCATCAACGTG 58.921 55.000 0.00 0.00 0.00 4.49
26 27 0.973632 TCTAGTGCCACCATCAACGT 59.026 50.000 0.00 0.00 0.00 3.99
27 28 1.359848 GTCTAGTGCCACCATCAACG 58.640 55.000 0.00 0.00 0.00 4.10
28 29 1.739067 GGTCTAGTGCCACCATCAAC 58.261 55.000 0.00 0.00 32.33 3.18
29 30 0.249120 CGGTCTAGTGCCACCATCAA 59.751 55.000 0.00 0.00 32.33 2.57
30 31 1.897423 CGGTCTAGTGCCACCATCA 59.103 57.895 0.00 0.00 32.33 3.07
31 32 1.521681 GCGGTCTAGTGCCACCATC 60.522 63.158 0.00 0.00 32.33 3.51
32 33 0.686441 TAGCGGTCTAGTGCCACCAT 60.686 55.000 0.00 0.00 32.33 3.55
33 34 1.304630 TAGCGGTCTAGTGCCACCA 60.305 57.895 0.00 0.00 32.33 4.17
34 35 1.437986 CTAGCGGTCTAGTGCCACC 59.562 63.158 0.00 0.00 37.97 4.61
35 36 1.227002 GCTAGCGGTCTAGTGCCAC 60.227 63.158 0.00 0.00 43.30 5.01
36 37 2.423898 GGCTAGCGGTCTAGTGCCA 61.424 63.158 9.00 0.00 43.30 4.92
37 38 0.822532 TAGGCTAGCGGTCTAGTGCC 60.823 60.000 9.00 0.00 43.30 5.01
38 39 0.594110 CTAGGCTAGCGGTCTAGTGC 59.406 60.000 8.91 0.00 43.25 4.40
49 50 6.434028 AGTCTCTCATGAATTAGCTAGGCTAG 59.566 42.308 17.33 17.33 42.34 3.42
50 51 6.310941 AGTCTCTCATGAATTAGCTAGGCTA 58.689 40.000 0.00 0.00 40.44 3.93
51 52 5.147032 AGTCTCTCATGAATTAGCTAGGCT 58.853 41.667 0.00 0.00 43.41 4.58
52 53 5.467035 AGTCTCTCATGAATTAGCTAGGC 57.533 43.478 0.00 0.00 0.00 3.93
53 54 7.230510 ACTGTAGTCTCTCATGAATTAGCTAGG 59.769 40.741 0.00 1.70 0.00 3.02
54 55 8.165239 ACTGTAGTCTCTCATGAATTAGCTAG 57.835 38.462 0.00 0.00 0.00 3.42
55 56 7.041712 CGACTGTAGTCTCTCATGAATTAGCTA 60.042 40.741 10.05 0.00 42.66 3.32
56 57 6.238621 CGACTGTAGTCTCTCATGAATTAGCT 60.239 42.308 10.05 0.00 42.66 3.32
57 58 5.912396 CGACTGTAGTCTCTCATGAATTAGC 59.088 44.000 10.05 0.00 42.66 3.09
58 59 7.011950 AGACGACTGTAGTCTCTCATGAATTAG 59.988 40.741 16.42 0.00 44.87 1.73
59 60 6.824196 AGACGACTGTAGTCTCTCATGAATTA 59.176 38.462 16.42 0.00 44.87 1.40
60 61 5.650266 AGACGACTGTAGTCTCTCATGAATT 59.350 40.000 16.42 0.00 44.87 2.17
61 62 5.189928 AGACGACTGTAGTCTCTCATGAAT 58.810 41.667 16.42 0.00 44.87 2.57
62 63 4.580868 AGACGACTGTAGTCTCTCATGAA 58.419 43.478 16.42 0.00 44.87 2.57
63 64 4.209307 AGACGACTGTAGTCTCTCATGA 57.791 45.455 16.42 0.00 44.87 3.07
71 72 1.473278 CCAAGGGAGACGACTGTAGTC 59.527 57.143 12.40 12.40 41.47 2.59
72 73 1.546961 CCAAGGGAGACGACTGTAGT 58.453 55.000 0.00 0.00 0.00 2.73
73 74 0.818296 CCCAAGGGAGACGACTGTAG 59.182 60.000 0.00 0.00 37.50 2.74
74 75 1.255667 GCCCAAGGGAGACGACTGTA 61.256 60.000 9.92 0.00 37.50 2.74
75 76 2.584391 GCCCAAGGGAGACGACTGT 61.584 63.158 9.92 0.00 37.50 3.55
76 77 2.266055 GCCCAAGGGAGACGACTG 59.734 66.667 9.92 0.00 37.50 3.51
77 78 2.203788 TGCCCAAGGGAGACGACT 60.204 61.111 9.92 0.00 37.50 4.18
78 79 2.266055 CTGCCCAAGGGAGACGAC 59.734 66.667 9.92 0.00 44.17 4.34
79 80 2.203788 ACTGCCCAAGGGAGACGA 60.204 61.111 9.92 0.00 44.17 4.20
80 81 2.046892 CACTGCCCAAGGGAGACG 60.047 66.667 9.92 0.00 44.17 4.18
81 82 0.606673 GTTCACTGCCCAAGGGAGAC 60.607 60.000 9.92 0.00 44.17 3.36
82 83 1.761174 GTTCACTGCCCAAGGGAGA 59.239 57.895 9.92 0.00 44.17 3.71
83 84 1.672356 CGTTCACTGCCCAAGGGAG 60.672 63.158 9.92 3.39 46.85 4.30
84 85 1.701031 TTCGTTCACTGCCCAAGGGA 61.701 55.000 9.92 0.00 36.14 4.20
85 86 0.821711 TTTCGTTCACTGCCCAAGGG 60.822 55.000 0.00 0.00 38.57 3.95
86 87 0.593128 CTTTCGTTCACTGCCCAAGG 59.407 55.000 0.00 0.00 0.00 3.61
87 88 1.593196 TCTTTCGTTCACTGCCCAAG 58.407 50.000 0.00 0.00 0.00 3.61
88 89 2.045561 TTCTTTCGTTCACTGCCCAA 57.954 45.000 0.00 0.00 0.00 4.12
89 90 1.673920 GTTTCTTTCGTTCACTGCCCA 59.326 47.619 0.00 0.00 0.00 5.36
90 91 1.001706 GGTTTCTTTCGTTCACTGCCC 60.002 52.381 0.00 0.00 0.00 5.36
91 92 1.333791 CGGTTTCTTTCGTTCACTGCC 60.334 52.381 0.00 0.00 0.00 4.85
92 93 1.595794 TCGGTTTCTTTCGTTCACTGC 59.404 47.619 0.00 0.00 0.00 4.40
93 94 2.221055 CCTCGGTTTCTTTCGTTCACTG 59.779 50.000 0.00 0.00 0.00 3.66
94 95 2.159000 ACCTCGGTTTCTTTCGTTCACT 60.159 45.455 0.00 0.00 0.00 3.41
95 96 2.207590 ACCTCGGTTTCTTTCGTTCAC 58.792 47.619 0.00 0.00 0.00 3.18
96 97 2.607631 ACCTCGGTTTCTTTCGTTCA 57.392 45.000 0.00 0.00 0.00 3.18
97 98 7.167136 CAGTATATACCTCGGTTTCTTTCGTTC 59.833 40.741 9.32 0.00 0.00 3.95
98 99 6.976925 CAGTATATACCTCGGTTTCTTTCGTT 59.023 38.462 9.32 0.00 0.00 3.85
99 100 6.460676 CCAGTATATACCTCGGTTTCTTTCGT 60.461 42.308 9.32 0.00 0.00 3.85
100 101 5.919141 CCAGTATATACCTCGGTTTCTTTCG 59.081 44.000 9.32 0.00 0.00 3.46
101 102 7.014038 TCTCCAGTATATACCTCGGTTTCTTTC 59.986 40.741 9.32 0.00 0.00 2.62
102 103 6.837568 TCTCCAGTATATACCTCGGTTTCTTT 59.162 38.462 9.32 0.00 0.00 2.52
103 104 6.371278 TCTCCAGTATATACCTCGGTTTCTT 58.629 40.000 9.32 0.00 0.00 2.52
104 105 5.950023 TCTCCAGTATATACCTCGGTTTCT 58.050 41.667 9.32 0.00 0.00 2.52
105 106 6.002704 TCTCTCCAGTATATACCTCGGTTTC 58.997 44.000 9.32 0.00 0.00 2.78
106 107 5.769162 GTCTCTCCAGTATATACCTCGGTTT 59.231 44.000 9.32 0.00 0.00 3.27
107 108 5.315348 GTCTCTCCAGTATATACCTCGGTT 58.685 45.833 9.32 0.00 0.00 4.44
108 109 4.563168 CGTCTCTCCAGTATATACCTCGGT 60.563 50.000 9.32 0.00 0.00 4.69
109 110 3.933955 CGTCTCTCCAGTATATACCTCGG 59.066 52.174 9.32 8.04 0.00 4.63
110 111 4.626604 GTCGTCTCTCCAGTATATACCTCG 59.373 50.000 9.32 0.00 0.00 4.63
111 112 4.626604 CGTCGTCTCTCCAGTATATACCTC 59.373 50.000 9.32 0.00 0.00 3.85
112 113 4.040217 ACGTCGTCTCTCCAGTATATACCT 59.960 45.833 9.32 0.00 0.00 3.08
113 114 4.314121 ACGTCGTCTCTCCAGTATATACC 58.686 47.826 9.32 0.00 0.00 2.73
114 115 5.921004 AACGTCGTCTCTCCAGTATATAC 57.079 43.478 4.60 4.60 0.00 1.47
115 116 9.881649 ATATTAACGTCGTCTCTCCAGTATATA 57.118 33.333 0.00 0.00 0.00 0.86
116 117 8.789825 ATATTAACGTCGTCTCTCCAGTATAT 57.210 34.615 0.00 0.00 0.00 0.86
117 118 7.874528 TGATATTAACGTCGTCTCTCCAGTATA 59.125 37.037 0.00 0.00 0.00 1.47
118 119 6.709397 TGATATTAACGTCGTCTCTCCAGTAT 59.291 38.462 0.00 0.00 0.00 2.12
119 120 6.051074 TGATATTAACGTCGTCTCTCCAGTA 58.949 40.000 0.00 0.00 0.00 2.74
120 121 4.880120 TGATATTAACGTCGTCTCTCCAGT 59.120 41.667 0.00 0.00 0.00 4.00
121 122 5.419760 TGATATTAACGTCGTCTCTCCAG 57.580 43.478 0.00 0.00 0.00 3.86
122 123 4.261072 GCTGATATTAACGTCGTCTCTCCA 60.261 45.833 0.00 0.00 0.00 3.86
123 124 4.220572 GCTGATATTAACGTCGTCTCTCC 58.779 47.826 0.00 0.00 0.00 3.71
124 125 4.845387 TGCTGATATTAACGTCGTCTCTC 58.155 43.478 0.00 0.00 0.00 3.20
125 126 4.895224 TGCTGATATTAACGTCGTCTCT 57.105 40.909 0.00 0.00 0.00 3.10
126 127 7.618964 TTTATGCTGATATTAACGTCGTCTC 57.381 36.000 0.00 0.00 0.00 3.36
127 128 7.116376 CCATTTATGCTGATATTAACGTCGTCT 59.884 37.037 0.00 0.00 0.00 4.18
128 129 7.095774 ACCATTTATGCTGATATTAACGTCGTC 60.096 37.037 0.00 0.00 0.00 4.20
129 130 6.704493 ACCATTTATGCTGATATTAACGTCGT 59.296 34.615 0.00 0.00 0.00 4.34
130 131 7.009440 CACCATTTATGCTGATATTAACGTCG 58.991 38.462 0.00 0.00 0.00 5.12
131 132 7.298122 CCACCATTTATGCTGATATTAACGTC 58.702 38.462 0.00 0.00 0.00 4.34
132 133 6.293955 GCCACCATTTATGCTGATATTAACGT 60.294 38.462 0.00 0.00 0.00 3.99
133 134 6.086222 GCCACCATTTATGCTGATATTAACG 58.914 40.000 0.00 0.00 0.00 3.18
134 135 6.389906 GGCCACCATTTATGCTGATATTAAC 58.610 40.000 0.00 0.00 0.00 2.01
135 136 5.182950 CGGCCACCATTTATGCTGATATTAA 59.817 40.000 2.24 0.00 31.72 1.40
136 137 4.699735 CGGCCACCATTTATGCTGATATTA 59.300 41.667 2.24 0.00 31.72 0.98
137 138 3.507233 CGGCCACCATTTATGCTGATATT 59.493 43.478 2.24 0.00 31.72 1.28
138 139 3.084039 CGGCCACCATTTATGCTGATAT 58.916 45.455 2.24 0.00 31.72 1.63
139 140 2.503331 CGGCCACCATTTATGCTGATA 58.497 47.619 2.24 0.00 31.72 2.15
140 141 1.321474 CGGCCACCATTTATGCTGAT 58.679 50.000 2.24 0.00 31.72 2.90
141 142 1.383456 GCGGCCACCATTTATGCTGA 61.383 55.000 2.24 0.00 31.72 4.26
142 143 1.066257 GCGGCCACCATTTATGCTG 59.934 57.895 2.24 0.00 0.00 4.41
143 144 0.684153 AAGCGGCCACCATTTATGCT 60.684 50.000 2.24 0.00 0.00 3.79
144 145 0.249031 GAAGCGGCCACCATTTATGC 60.249 55.000 2.24 0.00 0.00 3.14
145 146 1.392589 AGAAGCGGCCACCATTTATG 58.607 50.000 2.24 0.00 0.00 1.90
146 147 3.290948 TTAGAAGCGGCCACCATTTAT 57.709 42.857 2.24 0.00 0.00 1.40
147 148 2.791347 TTAGAAGCGGCCACCATTTA 57.209 45.000 2.24 0.00 0.00 1.40
148 149 1.917872 TTTAGAAGCGGCCACCATTT 58.082 45.000 2.24 0.00 0.00 2.32
149 150 1.544246 GTTTTAGAAGCGGCCACCATT 59.456 47.619 2.24 0.00 0.00 3.16
150 151 1.173913 GTTTTAGAAGCGGCCACCAT 58.826 50.000 2.24 0.00 0.00 3.55
151 152 0.109723 AGTTTTAGAAGCGGCCACCA 59.890 50.000 2.24 0.00 0.00 4.17
152 153 0.521735 CAGTTTTAGAAGCGGCCACC 59.478 55.000 2.24 0.00 0.00 4.61
153 154 1.069227 CACAGTTTTAGAAGCGGCCAC 60.069 52.381 2.24 0.00 0.00 5.01
154 155 1.202710 TCACAGTTTTAGAAGCGGCCA 60.203 47.619 2.24 0.00 0.00 5.36
155 156 1.519408 TCACAGTTTTAGAAGCGGCC 58.481 50.000 0.00 0.00 0.00 6.13
156 157 3.188895 CTTCACAGTTTTAGAAGCGGC 57.811 47.619 0.00 0.00 33.22 6.53
160 161 4.646572 AGGAGGCTTCACAGTTTTAGAAG 58.353 43.478 0.00 0.00 41.20 2.85
161 162 4.706842 AGGAGGCTTCACAGTTTTAGAA 57.293 40.909 0.00 0.00 0.00 2.10
162 163 4.389374 CAAGGAGGCTTCACAGTTTTAGA 58.611 43.478 0.00 0.00 0.00 2.10
163 164 3.057946 GCAAGGAGGCTTCACAGTTTTAG 60.058 47.826 0.00 0.00 0.00 1.85
164 165 2.884639 GCAAGGAGGCTTCACAGTTTTA 59.115 45.455 0.00 0.00 0.00 1.52
165 166 1.683385 GCAAGGAGGCTTCACAGTTTT 59.317 47.619 0.00 0.00 0.00 2.43
166 167 1.322442 GCAAGGAGGCTTCACAGTTT 58.678 50.000 0.00 0.00 0.00 2.66
167 168 0.183492 TGCAAGGAGGCTTCACAGTT 59.817 50.000 0.00 0.00 34.04 3.16
168 169 0.403271 ATGCAAGGAGGCTTCACAGT 59.597 50.000 0.00 0.00 34.04 3.55
169 170 0.809385 CATGCAAGGAGGCTTCACAG 59.191 55.000 0.00 0.00 34.04 3.66
170 171 0.609957 CCATGCAAGGAGGCTTCACA 60.610 55.000 0.35 0.00 34.04 3.58
171 172 0.610232 ACCATGCAAGGAGGCTTCAC 60.610 55.000 16.33 0.00 34.04 3.18
172 173 0.609957 CACCATGCAAGGAGGCTTCA 60.610 55.000 16.33 0.00 34.04 3.02
173 174 0.610232 ACACCATGCAAGGAGGCTTC 60.610 55.000 16.33 0.00 34.04 3.86
174 175 0.178953 AACACCATGCAAGGAGGCTT 60.179 50.000 16.33 0.00 34.04 4.35
175 176 0.896940 CAACACCATGCAAGGAGGCT 60.897 55.000 16.33 0.00 34.04 4.58
176 177 0.895100 TCAACACCATGCAAGGAGGC 60.895 55.000 16.33 0.00 0.00 4.70
177 178 1.747355 GATCAACACCATGCAAGGAGG 59.253 52.381 16.33 8.85 0.00 4.30
178 179 2.163010 GTGATCAACACCATGCAAGGAG 59.837 50.000 16.33 9.71 43.05 3.69
179 180 2.161855 GTGATCAACACCATGCAAGGA 58.838 47.619 16.33 0.00 43.05 3.36
180 181 2.642139 GTGATCAACACCATGCAAGG 57.358 50.000 6.39 6.39 43.05 3.61
190 191 3.837731 TCACTGTATGGAGGTGATCAACA 59.162 43.478 14.46 3.71 35.44 3.33
191 192 4.184629 GTCACTGTATGGAGGTGATCAAC 58.815 47.826 1.26 1.26 41.14 3.18
192 193 3.197766 GGTCACTGTATGGAGGTGATCAA 59.802 47.826 0.00 0.00 41.14 2.57
193 194 2.766263 GGTCACTGTATGGAGGTGATCA 59.234 50.000 0.00 0.00 41.14 2.92
194 195 2.103263 GGGTCACTGTATGGAGGTGATC 59.897 54.545 0.00 0.00 41.14 2.92
195 196 2.119495 GGGTCACTGTATGGAGGTGAT 58.881 52.381 0.00 0.00 41.14 3.06
196 197 1.078823 AGGGTCACTGTATGGAGGTGA 59.921 52.381 0.00 0.00 37.60 4.02
197 198 1.482593 GAGGGTCACTGTATGGAGGTG 59.517 57.143 0.00 0.00 0.00 4.00
198 199 1.622725 GGAGGGTCACTGTATGGAGGT 60.623 57.143 0.00 0.00 0.00 3.85
199 200 1.123928 GGAGGGTCACTGTATGGAGG 58.876 60.000 0.00 0.00 0.00 4.30
200 201 1.482593 GTGGAGGGTCACTGTATGGAG 59.517 57.143 0.00 0.00 34.98 3.86
201 202 1.203250 TGTGGAGGGTCACTGTATGGA 60.203 52.381 0.00 0.00 38.40 3.41
202 203 1.208052 CTGTGGAGGGTCACTGTATGG 59.792 57.143 0.00 0.00 38.40 2.74
203 204 1.406069 GCTGTGGAGGGTCACTGTATG 60.406 57.143 0.00 0.00 38.37 2.39
204 205 0.905357 GCTGTGGAGGGTCACTGTAT 59.095 55.000 0.00 0.00 38.37 2.29
205 206 0.471022 TGCTGTGGAGGGTCACTGTA 60.471 55.000 0.00 0.00 38.37 2.74
206 207 1.766059 TGCTGTGGAGGGTCACTGT 60.766 57.895 0.00 0.00 38.37 3.55
207 208 1.302033 GTGCTGTGGAGGGTCACTG 60.302 63.158 0.00 0.00 38.40 3.66
208 209 2.872388 CGTGCTGTGGAGGGTCACT 61.872 63.158 0.00 0.00 38.40 3.41
209 210 2.357517 CGTGCTGTGGAGGGTCAC 60.358 66.667 0.00 0.00 38.09 3.67
221 222 2.431601 GTCTTCTCGCAGCGTGCT 60.432 61.111 15.93 0.00 42.25 4.40
276 277 8.121305 TGCTGAAACACATATGGAAACTAAAT 57.879 30.769 7.80 0.00 0.00 1.40
297 298 2.237143 TGGGTTCACTAATCCTCTGCTG 59.763 50.000 0.00 0.00 36.75 4.41
308 887 1.972075 TGACGTTCCATGGGTTCACTA 59.028 47.619 13.02 0.00 0.00 2.74
345 924 4.632538 AAGCCGTAATTTTGCAGATACC 57.367 40.909 0.00 0.00 0.00 2.73
353 932 5.158494 GTGGAACCTAAAGCCGTAATTTTG 58.842 41.667 0.00 0.00 0.00 2.44
358 937 2.872842 GCTGTGGAACCTAAAGCCGTAA 60.873 50.000 0.00 0.00 34.36 3.18
393 2412 2.578495 GCTCGCACTTCTCAAATGTTG 58.422 47.619 0.00 0.00 0.00 3.33
403 2422 0.598065 ACCAATTTGGCTCGCACTTC 59.402 50.000 15.49 0.00 42.67 3.01
409 2428 2.293122 TCAGTTTCACCAATTTGGCTCG 59.707 45.455 15.49 4.69 42.67 5.03
411 2430 4.590222 AGATTCAGTTTCACCAATTTGGCT 59.410 37.500 15.49 1.13 42.67 4.75
532 2552 1.652947 TGGTCCTTGTTACTCTCCCC 58.347 55.000 0.00 0.00 0.00 4.81
534 2554 4.715713 AGTTTTGGTCCTTGTTACTCTCC 58.284 43.478 0.00 0.00 0.00 3.71
535 2555 5.820947 TCAAGTTTTGGTCCTTGTTACTCTC 59.179 40.000 0.00 0.00 39.25 3.20
557 2577 0.103572 GCGCTATAGTTCCCGGTTCA 59.896 55.000 0.00 0.00 0.00 3.18
600 2620 5.750067 TCGTTGTACTTCTACTGGTTGAAAC 59.250 40.000 0.00 0.00 0.00 2.78
799 2952 2.555757 GACCGGTCAGTACAGTACAACT 59.444 50.000 29.75 0.00 0.00 3.16
855 3008 1.448985 CCATGTTTGGTCCCACGTAG 58.551 55.000 0.00 0.00 38.30 3.51
875 3092 1.024271 GGCAGTCAACTCAGCAACAA 58.976 50.000 0.00 0.00 0.00 2.83
932 3149 1.068541 GGGCGCAAACTCTTTAAGGTG 60.069 52.381 10.83 0.00 0.00 4.00
933 3150 1.244816 GGGCGCAAACTCTTTAAGGT 58.755 50.000 10.83 0.00 0.00 3.50
937 3154 1.611491 CTTTGGGGCGCAAACTCTTTA 59.389 47.619 23.74 4.17 0.00 1.85
945 3197 2.123683 TTGGACTTTGGGGCGCAA 60.124 55.556 13.46 13.46 0.00 4.85
974 3226 0.603569 CTAGCCGTGAACCTGTGAGT 59.396 55.000 0.00 0.00 0.00 3.41
975 3227 0.737715 GCTAGCCGTGAACCTGTGAG 60.738 60.000 2.29 0.00 0.00 3.51
976 3228 1.185618 AGCTAGCCGTGAACCTGTGA 61.186 55.000 12.13 0.00 0.00 3.58
977 3229 0.737715 GAGCTAGCCGTGAACCTGTG 60.738 60.000 12.13 0.00 0.00 3.66
978 3230 1.185618 TGAGCTAGCCGTGAACCTGT 61.186 55.000 12.13 0.00 0.00 4.00
979 3231 0.737715 GTGAGCTAGCCGTGAACCTG 60.738 60.000 12.13 0.00 0.00 4.00
980 3232 0.900647 AGTGAGCTAGCCGTGAACCT 60.901 55.000 12.13 0.00 0.00 3.50
981 3233 0.815734 TAGTGAGCTAGCCGTGAACC 59.184 55.000 12.13 0.00 0.00 3.62
999 3258 6.508030 TGATGGCTAATTACCTTGGACATA 57.492 37.500 0.00 0.00 43.59 2.29
1035 3294 3.864540 GCCCCAAAGACATAAGCAAAACC 60.865 47.826 0.00 0.00 0.00 3.27
1446 3706 1.205893 CAGGGGTCCTTCTTCTTCTCG 59.794 57.143 0.00 0.00 0.00 4.04
1469 3729 3.393970 CCTTCTCGCAGGCCTCCA 61.394 66.667 0.00 0.00 0.00 3.86
1857 4214 3.486875 CGAAAAGCAAACTCCAACGACTT 60.487 43.478 0.00 0.00 0.00 3.01
1858 4215 2.031683 CGAAAAGCAAACTCCAACGACT 59.968 45.455 0.00 0.00 0.00 4.18
2400 6612 4.989279 ACTCGGCTTACTCGGTTTATTA 57.011 40.909 0.00 0.00 0.00 0.98
2403 6615 3.081061 TGTACTCGGCTTACTCGGTTTA 58.919 45.455 0.00 0.00 0.00 2.01
2404 6616 1.888512 TGTACTCGGCTTACTCGGTTT 59.111 47.619 0.00 0.00 0.00 3.27
2405 6617 1.471684 CTGTACTCGGCTTACTCGGTT 59.528 52.381 0.00 0.00 0.00 4.44
2406 6618 1.093159 CTGTACTCGGCTTACTCGGT 58.907 55.000 0.00 0.00 0.00 4.69
2407 6619 0.248539 GCTGTACTCGGCTTACTCGG 60.249 60.000 0.00 0.00 42.20 4.63
2408 6620 3.237522 GCTGTACTCGGCTTACTCG 57.762 57.895 0.00 0.00 42.20 4.18
2510 6729 1.221840 GTGAGGATGGCCACGTGAT 59.778 57.895 19.30 1.76 36.29 3.06
2592 6811 3.064987 GCTCTCAGACCCGCGCTAA 62.065 63.158 5.56 0.00 0.00 3.09
2632 6851 1.332686 TGTAGTGCCGTATCAGTAGCG 59.667 52.381 0.00 0.00 0.00 4.26
2683 6902 2.885894 GAGGGAGTATAACAGTAGCGCT 59.114 50.000 17.26 17.26 0.00 5.92
2704 6923 2.092646 TGGGTCATCTATTTGGGAACGG 60.093 50.000 0.00 0.00 0.00 4.44
2746 6965 7.548075 AGATGACCCAACGTTATACTAACTTTG 59.452 37.037 0.00 8.49 31.63 2.77
2757 6976 5.806818 TCCAAAATAGATGACCCAACGTTA 58.193 37.500 0.00 0.00 0.00 3.18
2760 6979 4.436852 CGTTCCAAAATAGATGACCCAACG 60.437 45.833 0.00 0.00 0.00 4.10


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

AutoCloner maintained by Alex Coulton.