Multiple sequence alignment - TraesCS7A01G258900

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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 TraesCS7A01G258900 chr7A 100.000 2705 0 0 508 3212 250605875 250603171 0.000000e+00 4996.0
1 TraesCS7A01G258900 chr7A 100.000 229 0 0 1 229 250606382 250606154 1.070000e-114 424.0
2 TraesCS7A01G258900 chrUn 100.000 2536 0 0 508 3043 321240740 321243275 0.000000e+00 4684.0
3 TraesCS7A01G258900 chrUn 100.000 2536 0 0 508 3043 322423248 322420713 0.000000e+00 4684.0
4 TraesCS7A01G258900 chrUn 98.305 118 2 0 2908 3025 74686784 74686901 1.170000e-49 207.0
5 TraesCS7A01G258900 chrUn 100.000 94 0 0 136 229 321240065 321240158 1.180000e-39 174.0
6 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 15564876 15564790 2.000000e-32 150.0
7 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 15591992 15591906 2.000000e-32 150.0
8 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 15785051 15784965 2.000000e-32 150.0
9 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 248048331 248048245 2.000000e-32 150.0
10 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 255502056 255502142 2.000000e-32 150.0
11 TraesCS7A01G258900 chrUn 97.701 87 2 0 3126 3212 396771937 396772023 2.000000e-32 150.0
12 TraesCS7A01G258900 chrUn 96.552 87 3 0 3126 3212 15407149 15407063 9.290000e-31 145.0
13 TraesCS7A01G258900 chr7B 95.287 1952 68 9 630 2568 211597217 211595277 0.000000e+00 3073.0
14 TraesCS7A01G258900 chr7B 92.670 191 11 2 2567 2755 211595246 211595057 4.080000e-69 272.0
15 TraesCS7A01G258900 chr7D 97.101 1587 36 4 785 2365 235481879 235480297 0.000000e+00 2667.0
16 TraesCS7A01G258900 chr7D 93.750 272 12 3 2567 2836 235472311 235472043 1.390000e-108 403.0
17 TraesCS7A01G258900 chr7D 90.995 211 11 1 2358 2568 235479388 235479186 8.780000e-71 278.0
18 TraesCS7A01G258900 chr7D 95.238 105 4 1 3024 3127 235450651 235450547 7.130000e-37 165.0
19 TraesCS7A01G258900 chr7D 96.429 84 2 1 715 797 235492287 235492204 1.550000e-28 137.0
20 TraesCS7A01G258900 chr7D 94.444 72 4 0 2836 2907 235450720 235450649 9.420000e-21 111.0
21 TraesCS7A01G258900 chr2A 89.744 234 7 8 2 219 727717774 727718006 1.890000e-72 283.0
22 TraesCS7A01G258900 chr5B 89.655 232 8 8 2 218 72094276 72094046 6.780000e-72 281.0
23 TraesCS7A01G258900 chr5B 97.701 87 2 0 3126 3212 339455766 339455852 2.000000e-32 150.0
24 TraesCS7A01G258900 chr5B 96.552 58 2 0 162 219 596972006 596972063 2.640000e-16 97.1
25 TraesCS7A01G258900 chr2B 96.639 119 4 0 2907 3025 412778696 412778578 7.030000e-47 198.0
26 TraesCS7A01G258900 chr2B 84.507 142 4 11 2 129 663920433 663920570 1.210000e-24 124.0
27 TraesCS7A01G258900 chr1A 93.600 125 8 0 2901 3025 53442922 53442798 1.520000e-43 187.0
28 TraesCS7A01G258900 chr5D 94.215 121 7 0 2906 3026 118840449 118840569 5.470000e-43 185.0
29 TraesCS7A01G258900 chr2D 90.714 140 12 1 2891 3030 408776249 408776387 5.470000e-43 185.0
30 TraesCS7A01G258900 chr2D 97.701 87 2 0 3126 3212 384762333 384762247 2.000000e-32 150.0
31 TraesCS7A01G258900 chr6A 92.248 129 9 1 2902 3029 22527170 22527298 7.080000e-42 182.0
32 TraesCS7A01G258900 chr6A 91.667 72 4 1 159 228 615478637 615478566 7.330000e-17 99.0
33 TraesCS7A01G258900 chr6A 89.189 74 6 2 148 221 32184673 32184602 1.230000e-14 91.6
34 TraesCS7A01G258900 chr3A 90.299 134 11 1 2894 3025 638983628 638983761 1.180000e-39 174.0
35 TraesCS7A01G258900 chr6D 98.333 60 1 0 162 221 97918333 97918392 4.380000e-19 106.0
36 TraesCS7A01G258900 chr6D 96.667 60 2 0 162 221 456587566 456587625 2.040000e-17 100.0
37 TraesCS7A01G258900 chr4D 96.552 58 2 0 162 219 129781960 129782017 2.640000e-16 97.1


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 TraesCS7A01G258900 chr7A 250603171 250606382 3211 True 2710.0 4996 100.0000 1 3212 2 chr7A.!!$R1 3211
1 TraesCS7A01G258900 chrUn 322420713 322423248 2535 True 4684.0 4684 100.0000 508 3043 1 chrUn.!!$R6 2535
2 TraesCS7A01G258900 chrUn 321240065 321243275 3210 False 2429.0 4684 100.0000 136 3043 2 chrUn.!!$F4 2907
3 TraesCS7A01G258900 chr7B 211595057 211597217 2160 True 1672.5 3073 93.9785 630 2755 2 chr7B.!!$R1 2125
4 TraesCS7A01G258900 chr7D 235479186 235481879 2693 True 1472.5 2667 94.0480 785 2568 2 chr7D.!!$R4 1783

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
71 72 0.033366 ACGAGCCAAAACAAATGGGC 59.967 50.0 0.0 0.0 46.77 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3050 4316 0.458669 GCAATGGCAATGTAGCTGCT 59.541 50.0 7.57 7.57 39.82 4.24 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
24 25 7.482654 AAAAATTTAAAGCAAGCAAGAGGAC 57.517 32.000 0.00 0.00 0.00 3.85
25 26 5.789643 AATTTAAAGCAAGCAAGAGGACA 57.210 34.783 0.00 0.00 0.00 4.02
26 27 5.789643 ATTTAAAGCAAGCAAGAGGACAA 57.210 34.783 0.00 0.00 0.00 3.18
27 28 5.590530 TTTAAAGCAAGCAAGAGGACAAA 57.409 34.783 0.00 0.00 0.00 2.83
28 29 5.590530 TTAAAGCAAGCAAGAGGACAAAA 57.409 34.783 0.00 0.00 0.00 2.44
29 30 3.722728 AAGCAAGCAAGAGGACAAAAG 57.277 42.857 0.00 0.00 0.00 2.27
30 31 2.936202 AGCAAGCAAGAGGACAAAAGA 58.064 42.857 0.00 0.00 0.00 2.52
31 32 2.883386 AGCAAGCAAGAGGACAAAAGAG 59.117 45.455 0.00 0.00 0.00 2.85
32 33 2.880890 GCAAGCAAGAGGACAAAAGAGA 59.119 45.455 0.00 0.00 0.00 3.10
33 34 3.316308 GCAAGCAAGAGGACAAAAGAGAA 59.684 43.478 0.00 0.00 0.00 2.87
34 35 4.791088 GCAAGCAAGAGGACAAAAGAGAAC 60.791 45.833 0.00 0.00 0.00 3.01
35 36 4.156455 AGCAAGAGGACAAAAGAGAACA 57.844 40.909 0.00 0.00 0.00 3.18
36 37 4.133078 AGCAAGAGGACAAAAGAGAACAG 58.867 43.478 0.00 0.00 0.00 3.16
37 38 4.130118 GCAAGAGGACAAAAGAGAACAGA 58.870 43.478 0.00 0.00 0.00 3.41
38 39 4.576463 GCAAGAGGACAAAAGAGAACAGAA 59.424 41.667 0.00 0.00 0.00 3.02
39 40 5.277731 GCAAGAGGACAAAAGAGAACAGAAG 60.278 44.000 0.00 0.00 0.00 2.85
40 41 4.967036 AGAGGACAAAAGAGAACAGAAGG 58.033 43.478 0.00 0.00 0.00 3.46
41 42 4.656112 AGAGGACAAAAGAGAACAGAAGGA 59.344 41.667 0.00 0.00 0.00 3.36
42 43 5.131142 AGAGGACAAAAGAGAACAGAAGGAA 59.869 40.000 0.00 0.00 0.00 3.36
43 44 5.126779 AGGACAAAAGAGAACAGAAGGAAC 58.873 41.667 0.00 0.00 0.00 3.62
44 45 4.024809 GGACAAAAGAGAACAGAAGGAACG 60.025 45.833 0.00 0.00 0.00 3.95
45 46 4.766375 ACAAAAGAGAACAGAAGGAACGA 58.234 39.130 0.00 0.00 0.00 3.85
46 47 4.571176 ACAAAAGAGAACAGAAGGAACGAC 59.429 41.667 0.00 0.00 0.00 4.34
47 48 4.402056 AAAGAGAACAGAAGGAACGACA 57.598 40.909 0.00 0.00 0.00 4.35
48 49 3.372660 AGAGAACAGAAGGAACGACAC 57.627 47.619 0.00 0.00 0.00 3.67
49 50 2.693591 AGAGAACAGAAGGAACGACACA 59.306 45.455 0.00 0.00 0.00 3.72
50 51 3.322254 AGAGAACAGAAGGAACGACACAT 59.678 43.478 0.00 0.00 0.00 3.21
51 52 3.654414 AGAACAGAAGGAACGACACATC 58.346 45.455 0.00 0.00 0.00 3.06
52 53 3.069586 AGAACAGAAGGAACGACACATCA 59.930 43.478 0.00 0.00 0.00 3.07
53 54 2.755650 ACAGAAGGAACGACACATCAC 58.244 47.619 0.00 0.00 0.00 3.06
54 55 1.721389 CAGAAGGAACGACACATCACG 59.279 52.381 0.00 0.00 0.00 4.35
55 56 1.611977 AGAAGGAACGACACATCACGA 59.388 47.619 0.00 0.00 0.00 4.35
56 57 1.986378 GAAGGAACGACACATCACGAG 59.014 52.381 0.00 0.00 0.00 4.18
57 58 0.388649 AGGAACGACACATCACGAGC 60.389 55.000 0.00 0.00 0.00 5.03
58 59 1.352156 GGAACGACACATCACGAGCC 61.352 60.000 0.00 0.00 0.00 4.70
59 60 0.666274 GAACGACACATCACGAGCCA 60.666 55.000 0.00 0.00 0.00 4.75
60 61 0.249699 AACGACACATCACGAGCCAA 60.250 50.000 0.00 0.00 0.00 4.52
61 62 0.249699 ACGACACATCACGAGCCAAA 60.250 50.000 0.00 0.00 0.00 3.28
62 63 0.865111 CGACACATCACGAGCCAAAA 59.135 50.000 0.00 0.00 0.00 2.44
63 64 1.398451 CGACACATCACGAGCCAAAAC 60.398 52.381 0.00 0.00 0.00 2.43
64 65 1.601903 GACACATCACGAGCCAAAACA 59.398 47.619 0.00 0.00 0.00 2.83
65 66 2.020720 ACACATCACGAGCCAAAACAA 58.979 42.857 0.00 0.00 0.00 2.83
66 67 2.425312 ACACATCACGAGCCAAAACAAA 59.575 40.909 0.00 0.00 0.00 2.83
67 68 3.068024 ACACATCACGAGCCAAAACAAAT 59.932 39.130 0.00 0.00 0.00 2.32
68 69 3.426191 CACATCACGAGCCAAAACAAATG 59.574 43.478 0.00 0.00 0.00 2.32
69 70 2.791383 TCACGAGCCAAAACAAATGG 57.209 45.000 0.00 0.00 41.08 3.16
70 71 1.339610 TCACGAGCCAAAACAAATGGG 59.660 47.619 0.00 0.00 38.44 4.00
71 72 0.033366 ACGAGCCAAAACAAATGGGC 59.967 50.000 0.00 0.00 46.77 5.36
75 76 2.477845 GCCAAAACAAATGGGCTGAT 57.522 45.000 0.00 0.00 43.09 2.90
76 77 2.781923 GCCAAAACAAATGGGCTGATT 58.218 42.857 0.00 0.00 43.09 2.57
77 78 2.743664 GCCAAAACAAATGGGCTGATTC 59.256 45.455 0.00 0.00 43.09 2.52
78 79 3.337358 CCAAAACAAATGGGCTGATTCC 58.663 45.455 0.00 0.00 34.15 3.01
79 80 3.244491 CCAAAACAAATGGGCTGATTCCA 60.244 43.478 0.00 0.00 38.82 3.53
80 81 3.967332 AAACAAATGGGCTGATTCCAG 57.033 42.857 0.00 0.00 43.22 3.86
81 82 1.856629 ACAAATGGGCTGATTCCAGG 58.143 50.000 0.00 0.00 40.72 4.45
87 88 3.851955 GCTGATTCCAGGCCCATG 58.148 61.111 0.00 0.00 40.72 3.66
88 89 1.076485 GCTGATTCCAGGCCCATGT 60.076 57.895 0.00 0.00 40.72 3.21
89 90 0.183492 GCTGATTCCAGGCCCATGTA 59.817 55.000 0.00 0.00 40.72 2.29
90 91 1.816961 GCTGATTCCAGGCCCATGTAG 60.817 57.143 0.00 0.00 40.72 2.74
91 92 0.183492 TGATTCCAGGCCCATGTAGC 59.817 55.000 0.00 0.00 0.00 3.58
92 93 0.886490 GATTCCAGGCCCATGTAGCG 60.886 60.000 0.00 0.00 0.00 4.26
93 94 1.344953 ATTCCAGGCCCATGTAGCGA 61.345 55.000 0.00 0.00 0.00 4.93
94 95 1.344953 TTCCAGGCCCATGTAGCGAT 61.345 55.000 0.00 0.00 0.00 4.58
95 96 1.302033 CCAGGCCCATGTAGCGATC 60.302 63.158 0.00 0.00 0.00 3.69
96 97 1.302033 CAGGCCCATGTAGCGATCC 60.302 63.158 0.00 0.00 0.00 3.36
97 98 1.460305 AGGCCCATGTAGCGATCCT 60.460 57.895 0.00 0.00 0.00 3.24
98 99 1.004440 GGCCCATGTAGCGATCCTC 60.004 63.158 0.00 0.00 0.00 3.71
99 100 1.373497 GCCCATGTAGCGATCCTCG 60.373 63.158 0.00 0.00 43.89 4.63
100 101 2.041976 CCCATGTAGCGATCCTCGT 58.958 57.895 0.00 0.00 42.81 4.18
101 102 0.319040 CCCATGTAGCGATCCTCGTG 60.319 60.000 0.00 0.00 42.81 4.35
102 103 0.385751 CCATGTAGCGATCCTCGTGT 59.614 55.000 0.00 0.00 42.81 4.49
103 104 1.607148 CCATGTAGCGATCCTCGTGTA 59.393 52.381 0.00 0.00 42.81 2.90
104 105 2.350868 CCATGTAGCGATCCTCGTGTAG 60.351 54.545 0.00 0.00 42.81 2.74
105 106 0.661552 TGTAGCGATCCTCGTGTAGC 59.338 55.000 0.00 0.00 42.81 3.58
106 107 0.945813 GTAGCGATCCTCGTGTAGCT 59.054 55.000 0.00 0.00 42.81 3.32
107 108 0.945099 TAGCGATCCTCGTGTAGCTG 59.055 55.000 0.00 0.00 42.81 4.24
108 109 1.946650 GCGATCCTCGTGTAGCTGC 60.947 63.158 0.00 0.00 42.81 5.25
109 110 1.655654 CGATCCTCGTGTAGCTGCG 60.656 63.158 0.00 0.00 34.72 5.18
110 111 1.946650 GATCCTCGTGTAGCTGCGC 60.947 63.158 0.00 0.00 0.00 6.09
111 112 2.613739 GATCCTCGTGTAGCTGCGCA 62.614 60.000 10.98 10.98 0.00 6.09
112 113 2.890847 ATCCTCGTGTAGCTGCGCAC 62.891 60.000 5.66 16.48 0.00 5.34
116 117 3.850923 GTGTAGCTGCGCACGTAA 58.149 55.556 5.66 0.00 0.00 3.18
117 118 2.146954 GTGTAGCTGCGCACGTAAA 58.853 52.632 5.66 0.00 0.00 2.01
118 119 0.509499 GTGTAGCTGCGCACGTAAAA 59.491 50.000 5.66 0.00 0.00 1.52
119 120 1.070443 GTGTAGCTGCGCACGTAAAAA 60.070 47.619 5.66 0.00 0.00 1.94
120 121 1.801771 TGTAGCTGCGCACGTAAAAAT 59.198 42.857 5.66 0.00 0.00 1.82
121 122 2.994578 TGTAGCTGCGCACGTAAAAATA 59.005 40.909 5.66 0.00 0.00 1.40
122 123 3.432592 TGTAGCTGCGCACGTAAAAATAA 59.567 39.130 5.66 0.00 0.00 1.40
123 124 3.757745 AGCTGCGCACGTAAAAATAAT 57.242 38.095 5.66 0.00 0.00 1.28
124 125 3.680789 AGCTGCGCACGTAAAAATAATC 58.319 40.909 5.66 0.00 0.00 1.75
125 126 2.781646 GCTGCGCACGTAAAAATAATCC 59.218 45.455 5.66 0.00 0.00 3.01
126 127 3.486875 GCTGCGCACGTAAAAATAATCCT 60.487 43.478 5.66 0.00 0.00 3.24
127 128 4.260456 GCTGCGCACGTAAAAATAATCCTA 60.260 41.667 5.66 0.00 0.00 2.94
128 129 5.146482 TGCGCACGTAAAAATAATCCTAC 57.854 39.130 5.66 0.00 0.00 3.18
129 130 4.198584 GCGCACGTAAAAATAATCCTACG 58.801 43.478 0.30 0.00 42.12 3.51
131 132 5.724769 GCGCACGTAAAAATAATCCTACGTT 60.725 40.000 0.30 0.00 45.85 3.99
132 133 5.892648 CGCACGTAAAAATAATCCTACGTTC 59.107 40.000 0.00 0.00 45.85 3.95
133 134 6.454054 CGCACGTAAAAATAATCCTACGTTCA 60.454 38.462 0.00 0.00 45.85 3.18
134 135 7.235777 GCACGTAAAAATAATCCTACGTTCAA 58.764 34.615 0.00 0.00 45.85 2.69
3043 4309 6.289064 GGAGTAACATGTTTAGGTATGGAGG 58.711 44.000 17.78 0.00 0.00 4.30
3044 4310 5.681639 AGTAACATGTTTAGGTATGGAGGC 58.318 41.667 17.78 0.00 0.00 4.70
3045 4311 4.584638 AACATGTTTAGGTATGGAGGCA 57.415 40.909 4.92 0.00 0.00 4.75
3046 4312 4.584638 ACATGTTTAGGTATGGAGGCAA 57.415 40.909 0.00 0.00 0.00 4.52
3047 4313 5.129368 ACATGTTTAGGTATGGAGGCAAT 57.871 39.130 0.00 0.00 0.00 3.56
3048 4314 5.133221 ACATGTTTAGGTATGGAGGCAATC 58.867 41.667 0.00 0.00 0.00 2.67
3049 4315 5.103940 ACATGTTTAGGTATGGAGGCAATCT 60.104 40.000 0.00 0.00 0.00 2.40
3050 4316 6.101150 ACATGTTTAGGTATGGAGGCAATCTA 59.899 38.462 0.00 0.00 0.00 1.98
3051 4317 6.174720 TGTTTAGGTATGGAGGCAATCTAG 57.825 41.667 0.00 0.00 0.00 2.43
3052 4318 4.891992 TTAGGTATGGAGGCAATCTAGC 57.108 45.455 0.00 0.00 0.00 3.42
3053 4319 2.694397 AGGTATGGAGGCAATCTAGCA 58.306 47.619 0.00 0.00 35.83 3.49
3054 4320 2.636893 AGGTATGGAGGCAATCTAGCAG 59.363 50.000 0.00 0.00 35.83 4.24
3055 4321 2.421619 GTATGGAGGCAATCTAGCAGC 58.578 52.381 0.00 0.00 35.83 5.25
3056 4322 1.138568 ATGGAGGCAATCTAGCAGCT 58.861 50.000 0.00 0.00 35.83 4.24
3057 4323 1.793414 TGGAGGCAATCTAGCAGCTA 58.207 50.000 1.13 1.13 35.83 3.32
3058 4324 1.414181 TGGAGGCAATCTAGCAGCTAC 59.586 52.381 0.00 0.00 35.83 3.58
3059 4325 1.414181 GGAGGCAATCTAGCAGCTACA 59.586 52.381 0.00 0.00 35.83 2.74
3060 4326 2.038295 GGAGGCAATCTAGCAGCTACAT 59.962 50.000 0.00 0.00 35.83 2.29
3061 4327 3.495806 GGAGGCAATCTAGCAGCTACATT 60.496 47.826 0.00 0.00 35.83 2.71
3062 4328 3.474600 AGGCAATCTAGCAGCTACATTG 58.525 45.455 20.59 20.59 35.83 2.82
3063 4329 2.031333 GGCAATCTAGCAGCTACATTGC 60.031 50.000 32.13 32.13 42.98 3.56
3064 4330 2.031333 GCAATCTAGCAGCTACATTGCC 60.031 50.000 30.87 19.35 40.16 4.52
3065 4331 3.208594 CAATCTAGCAGCTACATTGCCA 58.791 45.455 15.15 0.00 42.48 4.92
3066 4332 3.784511 ATCTAGCAGCTACATTGCCAT 57.215 42.857 0.00 0.00 42.48 4.40
3067 4333 3.565764 TCTAGCAGCTACATTGCCATT 57.434 42.857 0.00 0.00 42.48 3.16
3068 4334 3.208594 TCTAGCAGCTACATTGCCATTG 58.791 45.455 0.00 0.00 42.48 2.82
3069 4335 0.458669 AGCAGCTACATTGCCATTGC 59.541 50.000 0.00 0.00 42.48 3.56
3078 4344 4.720127 TGCCATTGCACTCGTGAT 57.280 50.000 0.39 0.00 44.23 3.06
3079 4345 2.173433 TGCCATTGCACTCGTGATG 58.827 52.632 0.39 0.00 44.23 3.07
3080 4346 1.307355 TGCCATTGCACTCGTGATGG 61.307 55.000 8.25 8.25 44.23 3.51
3081 4347 1.026182 GCCATTGCACTCGTGATGGA 61.026 55.000 15.52 0.00 37.22 3.41
3082 4348 1.452110 CCATTGCACTCGTGATGGAA 58.548 50.000 6.98 0.00 37.22 3.53
3083 4349 1.131126 CCATTGCACTCGTGATGGAAC 59.869 52.381 6.98 0.00 37.22 3.62
3084 4350 2.079158 CATTGCACTCGTGATGGAACT 58.921 47.619 0.39 0.00 29.56 3.01
3085 4351 1.511850 TTGCACTCGTGATGGAACTG 58.488 50.000 0.39 0.00 0.00 3.16
3086 4352 0.678950 TGCACTCGTGATGGAACTGA 59.321 50.000 0.39 0.00 0.00 3.41
3087 4353 1.069978 TGCACTCGTGATGGAACTGAA 59.930 47.619 0.39 0.00 0.00 3.02
3088 4354 1.461127 GCACTCGTGATGGAACTGAAC 59.539 52.381 0.39 0.00 0.00 3.18
3089 4355 2.754472 CACTCGTGATGGAACTGAACA 58.246 47.619 0.00 0.00 0.00 3.18
3090 4356 3.130633 CACTCGTGATGGAACTGAACAA 58.869 45.455 0.00 0.00 0.00 2.83
3091 4357 3.559655 CACTCGTGATGGAACTGAACAAA 59.440 43.478 0.00 0.00 0.00 2.83
3092 4358 3.809832 ACTCGTGATGGAACTGAACAAAG 59.190 43.478 0.00 0.00 0.00 2.77
3093 4359 4.058124 CTCGTGATGGAACTGAACAAAGA 58.942 43.478 0.00 0.00 0.00 2.52
3094 4360 4.447290 TCGTGATGGAACTGAACAAAGAA 58.553 39.130 0.00 0.00 0.00 2.52
3095 4361 4.511454 TCGTGATGGAACTGAACAAAGAAG 59.489 41.667 0.00 0.00 0.00 2.85
3096 4362 4.319766 CGTGATGGAACTGAACAAAGAAGG 60.320 45.833 0.00 0.00 0.00 3.46
3097 4363 4.821805 GTGATGGAACTGAACAAAGAAGGA 59.178 41.667 0.00 0.00 0.00 3.36
3098 4364 4.821805 TGATGGAACTGAACAAAGAAGGAC 59.178 41.667 0.00 0.00 0.00 3.85
3099 4365 4.229304 TGGAACTGAACAAAGAAGGACA 57.771 40.909 0.00 0.00 0.00 4.02
3100 4366 4.594970 TGGAACTGAACAAAGAAGGACAA 58.405 39.130 0.00 0.00 0.00 3.18
3101 4367 5.200483 TGGAACTGAACAAAGAAGGACAAT 58.800 37.500 0.00 0.00 0.00 2.71
3102 4368 5.299279 TGGAACTGAACAAAGAAGGACAATC 59.701 40.000 0.00 0.00 0.00 2.67
3103 4369 5.532779 GGAACTGAACAAAGAAGGACAATCT 59.467 40.000 0.00 0.00 0.00 2.40
3104 4370 6.710744 GGAACTGAACAAAGAAGGACAATCTA 59.289 38.462 0.00 0.00 0.00 1.98
3105 4371 7.228706 GGAACTGAACAAAGAAGGACAATCTAA 59.771 37.037 0.00 0.00 0.00 2.10
3106 4372 7.736447 ACTGAACAAAGAAGGACAATCTAAG 57.264 36.000 0.00 0.00 0.00 2.18
3107 4373 7.509546 ACTGAACAAAGAAGGACAATCTAAGA 58.490 34.615 0.00 0.00 0.00 2.10
3108 4374 7.993183 ACTGAACAAAGAAGGACAATCTAAGAA 59.007 33.333 0.00 0.00 0.00 2.52
3109 4375 8.924511 TGAACAAAGAAGGACAATCTAAGAAT 57.075 30.769 0.00 0.00 0.00 2.40
3113 4379 9.660180 ACAAAGAAGGACAATCTAAGAATAGAC 57.340 33.333 0.00 0.00 40.88 2.59
3114 4380 9.658799 CAAAGAAGGACAATCTAAGAATAGACA 57.341 33.333 0.00 0.00 40.88 3.41
3121 4387 9.823647 GGACAATCTAAGAATAGACAATCTTCA 57.176 33.333 0.00 0.00 40.88 3.02
3127 4393 9.261035 TCTAAGAATAGACAATCTTCAACCTCT 57.739 33.333 0.00 0.00 37.16 3.69
3128 4394 9.883142 CTAAGAATAGACAATCTTCAACCTCTT 57.117 33.333 0.00 0.00 37.16 2.85
3129 4395 8.785329 AAGAATAGACAATCTTCAACCTCTTC 57.215 34.615 0.00 0.00 30.16 2.87
3130 4396 8.144862 AGAATAGACAATCTTCAACCTCTTCT 57.855 34.615 0.00 0.00 0.00 2.85
3131 4397 8.601546 AGAATAGACAATCTTCAACCTCTTCTT 58.398 33.333 0.00 0.00 0.00 2.52
3132 4398 9.877178 GAATAGACAATCTTCAACCTCTTCTTA 57.123 33.333 0.00 0.00 0.00 2.10
3135 4401 8.558973 AGACAATCTTCAACCTCTTCTTAATG 57.441 34.615 0.00 0.00 0.00 1.90
3136 4402 8.160106 AGACAATCTTCAACCTCTTCTTAATGT 58.840 33.333 0.00 0.00 0.00 2.71
3137 4403 8.329203 ACAATCTTCAACCTCTTCTTAATGTC 57.671 34.615 0.00 0.00 0.00 3.06
3138 4404 7.939039 ACAATCTTCAACCTCTTCTTAATGTCA 59.061 33.333 0.00 0.00 0.00 3.58
3139 4405 8.449397 CAATCTTCAACCTCTTCTTAATGTCAG 58.551 37.037 0.00 0.00 0.00 3.51
3140 4406 5.934625 TCTTCAACCTCTTCTTAATGTCAGC 59.065 40.000 0.00 0.00 0.00 4.26
3141 4407 5.489792 TCAACCTCTTCTTAATGTCAGCT 57.510 39.130 0.00 0.00 0.00 4.24
3142 4408 5.869579 TCAACCTCTTCTTAATGTCAGCTT 58.130 37.500 0.00 0.00 0.00 3.74
3143 4409 6.299141 TCAACCTCTTCTTAATGTCAGCTTT 58.701 36.000 0.00 0.00 0.00 3.51
3144 4410 7.450074 TCAACCTCTTCTTAATGTCAGCTTTA 58.550 34.615 0.00 0.00 0.00 1.85
3145 4411 7.936847 TCAACCTCTTCTTAATGTCAGCTTTAA 59.063 33.333 0.00 0.00 0.00 1.52
3146 4412 8.567948 CAACCTCTTCTTAATGTCAGCTTTAAA 58.432 33.333 0.00 0.00 0.00 1.52
3147 4413 8.691661 ACCTCTTCTTAATGTCAGCTTTAAAA 57.308 30.769 0.00 0.00 0.00 1.52
3148 4414 9.301897 ACCTCTTCTTAATGTCAGCTTTAAAAT 57.698 29.630 0.00 0.00 0.00 1.82
3156 4422 9.823647 TTAATGTCAGCTTTAAAATTTTCACCA 57.176 25.926 6.72 0.00 0.00 4.17
3157 4423 8.729805 AATGTCAGCTTTAAAATTTTCACCAA 57.270 26.923 6.72 0.00 0.00 3.67
3158 4424 7.769272 TGTCAGCTTTAAAATTTTCACCAAG 57.231 32.000 6.72 7.11 0.00 3.61
3159 4425 6.760770 TGTCAGCTTTAAAATTTTCACCAAGG 59.239 34.615 6.72 0.00 0.00 3.61
3160 4426 6.761242 GTCAGCTTTAAAATTTTCACCAAGGT 59.239 34.615 6.72 8.44 0.00 3.50
3161 4427 6.760770 TCAGCTTTAAAATTTTCACCAAGGTG 59.239 34.615 22.77 22.77 46.64 4.00
3162 4428 6.018016 CAGCTTTAAAATTTTCACCAAGGTGG 60.018 38.462 18.51 2.41 45.43 4.61
3163 4429 5.238432 GCTTTAAAATTTTCACCAAGGTGGG 59.762 40.000 18.51 0.00 43.37 4.61
3164 4430 6.561519 TTTAAAATTTTCACCAAGGTGGGA 57.438 33.333 18.51 5.85 43.37 4.37
3165 4431 6.561519 TTAAAATTTTCACCAAGGTGGGAA 57.438 33.333 18.51 13.39 43.37 3.97
3166 4432 4.415881 AAATTTTCACCAAGGTGGGAAC 57.584 40.909 18.51 0.00 43.37 3.62
3167 4433 2.838637 TTTTCACCAAGGTGGGAACT 57.161 45.000 18.51 0.00 43.37 3.01
3168 4434 3.955524 TTTTCACCAAGGTGGGAACTA 57.044 42.857 18.51 0.00 43.37 2.24
3169 4435 3.955524 TTTCACCAAGGTGGGAACTAA 57.044 42.857 18.51 2.35 43.37 2.24
3170 4436 2.943036 TCACCAAGGTGGGAACTAAC 57.057 50.000 18.51 0.00 43.37 2.34
3171 4437 2.128535 TCACCAAGGTGGGAACTAACA 58.871 47.619 18.51 0.00 43.37 2.41
3172 4438 2.105821 TCACCAAGGTGGGAACTAACAG 59.894 50.000 18.51 0.00 43.37 3.16
3173 4439 1.423921 ACCAAGGTGGGAACTAACAGG 59.576 52.381 0.00 0.00 43.37 4.00
3174 4440 1.534729 CAAGGTGGGAACTAACAGGC 58.465 55.000 0.00 0.00 0.00 4.85
3175 4441 1.073923 CAAGGTGGGAACTAACAGGCT 59.926 52.381 0.00 0.00 0.00 4.58
3176 4442 1.446016 AGGTGGGAACTAACAGGCTT 58.554 50.000 0.00 0.00 0.00 4.35
3177 4443 2.627933 AGGTGGGAACTAACAGGCTTA 58.372 47.619 0.00 0.00 0.00 3.09
3178 4444 2.305052 AGGTGGGAACTAACAGGCTTAC 59.695 50.000 0.00 0.00 0.00 2.34
3179 4445 2.344025 GTGGGAACTAACAGGCTTACG 58.656 52.381 0.00 0.00 0.00 3.18
3180 4446 1.338389 TGGGAACTAACAGGCTTACGC 60.338 52.381 0.00 0.00 0.00 4.42
3181 4447 1.338389 GGGAACTAACAGGCTTACGCA 60.338 52.381 0.00 0.00 38.10 5.24
3182 4448 2.000447 GGAACTAACAGGCTTACGCAG 59.000 52.381 0.00 0.00 38.10 5.18
3183 4449 2.353406 GGAACTAACAGGCTTACGCAGA 60.353 50.000 0.00 0.00 38.10 4.26
3184 4450 3.522553 GAACTAACAGGCTTACGCAGAT 58.477 45.455 0.00 0.00 38.10 2.90
3185 4451 3.611766 ACTAACAGGCTTACGCAGATT 57.388 42.857 0.00 0.00 38.10 2.40
3186 4452 3.262420 ACTAACAGGCTTACGCAGATTG 58.738 45.455 0.00 0.00 38.10 2.67
3187 4453 0.804989 AACAGGCTTACGCAGATTGC 59.195 50.000 0.00 0.00 40.69 3.56
3197 4463 2.939782 GCAGATTGCGCATTCTGTG 58.060 52.632 40.48 28.37 39.62 3.66
3198 4464 0.448990 GCAGATTGCGCATTCTGTGA 59.551 50.000 40.48 18.73 39.62 3.58
3199 4465 1.065102 GCAGATTGCGCATTCTGTGAT 59.935 47.619 40.48 22.09 39.62 3.06
3200 4466 2.716398 CAGATTGCGCATTCTGTGATG 58.284 47.619 36.67 22.10 35.33 3.07
3201 4467 1.065102 AGATTGCGCATTCTGTGATGC 59.935 47.619 28.64 4.87 46.90 3.91
3208 4474 2.776312 CATTCTGTGATGCAGCCATC 57.224 50.000 0.00 0.00 46.46 3.51
3209 4475 2.298610 CATTCTGTGATGCAGCCATCT 58.701 47.619 0.00 0.00 46.43 2.90
3210 4476 2.034104 TTCTGTGATGCAGCCATCTC 57.966 50.000 0.00 2.26 46.43 2.75
3211 4477 0.906775 TCTGTGATGCAGCCATCTCA 59.093 50.000 0.00 6.16 46.43 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.047271 TGTCCTCTTGCTTGCTTTAAATTTTT 58.953 30.769 0.00 0.00 0.00 1.94
1 2 6.581712 TGTCCTCTTGCTTGCTTTAAATTTT 58.418 32.000 0.00 0.00 0.00 1.82
2 3 6.160576 TGTCCTCTTGCTTGCTTTAAATTT 57.839 33.333 0.00 0.00 0.00 1.82
3 4 5.789643 TGTCCTCTTGCTTGCTTTAAATT 57.210 34.783 0.00 0.00 0.00 1.82
4 5 5.789643 TTGTCCTCTTGCTTGCTTTAAAT 57.210 34.783 0.00 0.00 0.00 1.40
5 6 5.590530 TTTGTCCTCTTGCTTGCTTTAAA 57.409 34.783 0.00 0.00 0.00 1.52
6 7 5.359576 TCTTTTGTCCTCTTGCTTGCTTTAA 59.640 36.000 0.00 0.00 0.00 1.52
7 8 4.887071 TCTTTTGTCCTCTTGCTTGCTTTA 59.113 37.500 0.00 0.00 0.00 1.85
8 9 3.701040 TCTTTTGTCCTCTTGCTTGCTTT 59.299 39.130 0.00 0.00 0.00 3.51
9 10 3.290710 TCTTTTGTCCTCTTGCTTGCTT 58.709 40.909 0.00 0.00 0.00 3.91
10 11 2.883386 CTCTTTTGTCCTCTTGCTTGCT 59.117 45.455 0.00 0.00 0.00 3.91
11 12 2.880890 TCTCTTTTGTCCTCTTGCTTGC 59.119 45.455 0.00 0.00 0.00 4.01
12 13 4.336433 TGTTCTCTTTTGTCCTCTTGCTTG 59.664 41.667 0.00 0.00 0.00 4.01
13 14 4.526970 TGTTCTCTTTTGTCCTCTTGCTT 58.473 39.130 0.00 0.00 0.00 3.91
14 15 4.133078 CTGTTCTCTTTTGTCCTCTTGCT 58.867 43.478 0.00 0.00 0.00 3.91
15 16 4.130118 TCTGTTCTCTTTTGTCCTCTTGC 58.870 43.478 0.00 0.00 0.00 4.01
16 17 5.238214 CCTTCTGTTCTCTTTTGTCCTCTTG 59.762 44.000 0.00 0.00 0.00 3.02
17 18 5.131142 TCCTTCTGTTCTCTTTTGTCCTCTT 59.869 40.000 0.00 0.00 0.00 2.85
18 19 4.656112 TCCTTCTGTTCTCTTTTGTCCTCT 59.344 41.667 0.00 0.00 0.00 3.69
19 20 4.962155 TCCTTCTGTTCTCTTTTGTCCTC 58.038 43.478 0.00 0.00 0.00 3.71
20 21 5.126779 GTTCCTTCTGTTCTCTTTTGTCCT 58.873 41.667 0.00 0.00 0.00 3.85
21 22 4.024809 CGTTCCTTCTGTTCTCTTTTGTCC 60.025 45.833 0.00 0.00 0.00 4.02
22 23 4.809426 TCGTTCCTTCTGTTCTCTTTTGTC 59.191 41.667 0.00 0.00 0.00 3.18
23 24 4.571176 GTCGTTCCTTCTGTTCTCTTTTGT 59.429 41.667 0.00 0.00 0.00 2.83
24 25 4.570772 TGTCGTTCCTTCTGTTCTCTTTTG 59.429 41.667 0.00 0.00 0.00 2.44
25 26 4.571176 GTGTCGTTCCTTCTGTTCTCTTTT 59.429 41.667 0.00 0.00 0.00 2.27
26 27 4.120589 GTGTCGTTCCTTCTGTTCTCTTT 58.879 43.478 0.00 0.00 0.00 2.52
27 28 3.132289 TGTGTCGTTCCTTCTGTTCTCTT 59.868 43.478 0.00 0.00 0.00 2.85
28 29 2.693591 TGTGTCGTTCCTTCTGTTCTCT 59.306 45.455 0.00 0.00 0.00 3.10
29 30 3.093717 TGTGTCGTTCCTTCTGTTCTC 57.906 47.619 0.00 0.00 0.00 2.87
30 31 3.069586 TGATGTGTCGTTCCTTCTGTTCT 59.930 43.478 0.00 0.00 0.00 3.01
31 32 3.184581 GTGATGTGTCGTTCCTTCTGTTC 59.815 47.826 0.00 0.00 0.00 3.18
32 33 3.131396 GTGATGTGTCGTTCCTTCTGTT 58.869 45.455 0.00 0.00 0.00 3.16
33 34 2.755650 GTGATGTGTCGTTCCTTCTGT 58.244 47.619 0.00 0.00 0.00 3.41
34 35 1.721389 CGTGATGTGTCGTTCCTTCTG 59.279 52.381 0.00 0.00 0.00 3.02
35 36 1.611977 TCGTGATGTGTCGTTCCTTCT 59.388 47.619 0.00 0.00 0.00 2.85
36 37 1.986378 CTCGTGATGTGTCGTTCCTTC 59.014 52.381 0.00 0.00 0.00 3.46
37 38 1.935300 GCTCGTGATGTGTCGTTCCTT 60.935 52.381 0.00 0.00 0.00 3.36
38 39 0.388649 GCTCGTGATGTGTCGTTCCT 60.389 55.000 0.00 0.00 0.00 3.36
39 40 1.352156 GGCTCGTGATGTGTCGTTCC 61.352 60.000 0.00 0.00 0.00 3.62
40 41 0.666274 TGGCTCGTGATGTGTCGTTC 60.666 55.000 0.00 0.00 0.00 3.95
41 42 0.249699 TTGGCTCGTGATGTGTCGTT 60.250 50.000 0.00 0.00 0.00 3.85
42 43 0.249699 TTTGGCTCGTGATGTGTCGT 60.250 50.000 0.00 0.00 0.00 4.34
43 44 0.865111 TTTTGGCTCGTGATGTGTCG 59.135 50.000 0.00 0.00 0.00 4.35
44 45 1.601903 TGTTTTGGCTCGTGATGTGTC 59.398 47.619 0.00 0.00 0.00 3.67
45 46 1.674359 TGTTTTGGCTCGTGATGTGT 58.326 45.000 0.00 0.00 0.00 3.72
46 47 2.772568 TTGTTTTGGCTCGTGATGTG 57.227 45.000 0.00 0.00 0.00 3.21
47 48 3.552684 CCATTTGTTTTGGCTCGTGATGT 60.553 43.478 0.00 0.00 0.00 3.06
48 49 2.988493 CCATTTGTTTTGGCTCGTGATG 59.012 45.455 0.00 0.00 0.00 3.07
49 50 2.029110 CCCATTTGTTTTGGCTCGTGAT 60.029 45.455 0.00 0.00 32.60 3.06
50 51 1.339610 CCCATTTGTTTTGGCTCGTGA 59.660 47.619 0.00 0.00 32.60 4.35
51 52 1.782044 CCCATTTGTTTTGGCTCGTG 58.218 50.000 0.00 0.00 32.60 4.35
52 53 0.033366 GCCCATTTGTTTTGGCTCGT 59.967 50.000 0.00 0.00 40.77 4.18
53 54 2.826277 GCCCATTTGTTTTGGCTCG 58.174 52.632 0.00 0.00 40.77 5.03
56 57 2.477845 ATCAGCCCATTTGTTTTGGC 57.522 45.000 0.00 0.00 44.35 4.52
57 58 3.244491 TGGAATCAGCCCATTTGTTTTGG 60.244 43.478 0.00 0.00 0.00 3.28
58 59 3.998341 CTGGAATCAGCCCATTTGTTTTG 59.002 43.478 0.00 0.00 33.86 2.44
59 60 3.008266 CCTGGAATCAGCCCATTTGTTTT 59.992 43.478 0.00 0.00 39.61 2.43
60 61 2.568509 CCTGGAATCAGCCCATTTGTTT 59.431 45.455 0.00 0.00 39.61 2.83
61 62 2.181975 CCTGGAATCAGCCCATTTGTT 58.818 47.619 0.00 0.00 39.61 2.83
62 63 1.856629 CCTGGAATCAGCCCATTTGT 58.143 50.000 0.00 0.00 39.61 2.83
63 64 0.462789 GCCTGGAATCAGCCCATTTG 59.537 55.000 0.00 0.00 39.61 2.32
64 65 0.688749 GGCCTGGAATCAGCCCATTT 60.689 55.000 0.00 0.00 38.32 2.32
65 66 1.075748 GGCCTGGAATCAGCCCATT 60.076 57.895 0.00 0.00 38.32 3.16
66 67 2.605299 GGCCTGGAATCAGCCCAT 59.395 61.111 0.00 0.00 38.32 4.00
67 68 3.743017 GGGCCTGGAATCAGCCCA 61.743 66.667 18.60 0.00 46.88 5.36
69 70 1.831286 CATGGGCCTGGAATCAGCC 60.831 63.158 4.53 0.22 39.61 4.85
70 71 0.183492 TACATGGGCCTGGAATCAGC 59.817 55.000 4.53 0.00 39.61 4.26
71 72 1.816961 GCTACATGGGCCTGGAATCAG 60.817 57.143 4.53 0.00 40.59 2.90
72 73 0.183492 GCTACATGGGCCTGGAATCA 59.817 55.000 4.53 0.00 0.00 2.57
73 74 0.886490 CGCTACATGGGCCTGGAATC 60.886 60.000 4.53 0.00 0.00 2.52
74 75 1.149174 CGCTACATGGGCCTGGAAT 59.851 57.895 4.53 0.00 0.00 3.01
75 76 1.344953 ATCGCTACATGGGCCTGGAA 61.345 55.000 4.53 0.00 0.00 3.53
76 77 1.758440 GATCGCTACATGGGCCTGGA 61.758 60.000 4.53 0.00 0.00 3.86
77 78 1.302033 GATCGCTACATGGGCCTGG 60.302 63.158 4.53 0.00 0.00 4.45
78 79 1.302033 GGATCGCTACATGGGCCTG 60.302 63.158 4.53 3.00 0.00 4.85
79 80 1.460305 AGGATCGCTACATGGGCCT 60.460 57.895 4.53 0.00 0.00 5.19
80 81 1.004440 GAGGATCGCTACATGGGCC 60.004 63.158 0.00 0.00 0.00 5.80
81 82 4.683432 GAGGATCGCTACATGGGC 57.317 61.111 0.00 0.00 0.00 5.36
92 93 4.310672 CGCAGCTACACGAGGATC 57.689 61.111 0.00 0.00 0.00 3.36
105 106 4.273005 AGGATTATTTTTACGTGCGCAG 57.727 40.909 12.22 7.95 0.00 5.18
106 107 4.259890 CGTAGGATTATTTTTACGTGCGCA 60.260 41.667 5.66 5.66 35.45 6.09
107 108 4.198584 CGTAGGATTATTTTTACGTGCGC 58.801 43.478 0.00 0.00 35.45 6.09
112 113 9.469239 GAACTTGAACGTAGGATTATTTTTACG 57.531 33.333 0.00 1.82 43.17 3.18
113 114 9.764870 GGAACTTGAACGTAGGATTATTTTTAC 57.235 33.333 0.00 0.00 0.00 2.01
114 115 9.504708 TGGAACTTGAACGTAGGATTATTTTTA 57.495 29.630 0.00 0.00 0.00 1.52
115 116 8.398878 TGGAACTTGAACGTAGGATTATTTTT 57.601 30.769 0.00 0.00 0.00 1.94
116 117 7.361799 GCTGGAACTTGAACGTAGGATTATTTT 60.362 37.037 0.00 0.00 0.00 1.82
117 118 6.093633 GCTGGAACTTGAACGTAGGATTATTT 59.906 38.462 0.00 0.00 0.00 1.40
118 119 5.585047 GCTGGAACTTGAACGTAGGATTATT 59.415 40.000 0.00 0.00 0.00 1.40
119 120 5.116882 GCTGGAACTTGAACGTAGGATTAT 58.883 41.667 0.00 0.00 0.00 1.28
120 121 4.501071 GCTGGAACTTGAACGTAGGATTA 58.499 43.478 0.00 0.00 0.00 1.75
121 122 3.335579 GCTGGAACTTGAACGTAGGATT 58.664 45.455 0.00 0.00 0.00 3.01
122 123 2.354805 GGCTGGAACTTGAACGTAGGAT 60.355 50.000 0.00 0.00 0.00 3.24
123 124 1.001633 GGCTGGAACTTGAACGTAGGA 59.998 52.381 0.00 0.00 0.00 2.94
124 125 1.270625 TGGCTGGAACTTGAACGTAGG 60.271 52.381 0.00 0.00 0.00 3.18
125 126 2.163818 TGGCTGGAACTTGAACGTAG 57.836 50.000 0.00 0.00 0.00 3.51
126 127 2.623878 TTGGCTGGAACTTGAACGTA 57.376 45.000 0.00 0.00 0.00 3.57
127 128 1.757682 TTTGGCTGGAACTTGAACGT 58.242 45.000 0.00 0.00 0.00 3.99
128 129 2.861462 TTTTGGCTGGAACTTGAACG 57.139 45.000 0.00 0.00 0.00 3.95
3044 4310 3.208594 TGGCAATGTAGCTGCTAGATTG 58.791 45.455 36.21 36.21 44.92 2.67
3045 4311 3.565764 TGGCAATGTAGCTGCTAGATT 57.434 42.857 22.11 22.11 39.82 2.40
3046 4312 3.784511 ATGGCAATGTAGCTGCTAGAT 57.215 42.857 13.03 13.03 39.82 1.98
3047 4313 3.208594 CAATGGCAATGTAGCTGCTAGA 58.791 45.455 10.13 9.58 39.82 2.43
3048 4314 2.287427 GCAATGGCAATGTAGCTGCTAG 60.287 50.000 10.13 0.00 39.82 3.42
3049 4315 1.677576 GCAATGGCAATGTAGCTGCTA 59.322 47.619 5.02 5.02 39.82 3.49
3050 4316 0.458669 GCAATGGCAATGTAGCTGCT 59.541 50.000 7.57 7.57 39.82 4.24
3051 4317 2.967740 GCAATGGCAATGTAGCTGC 58.032 52.632 4.21 0.00 40.72 5.25
3062 4328 1.026182 TCCATCACGAGTGCAATGGC 61.026 55.000 15.23 0.00 35.86 4.40
3063 4329 1.131126 GTTCCATCACGAGTGCAATGG 59.869 52.381 14.34 14.34 36.71 3.16
3064 4330 2.079158 AGTTCCATCACGAGTGCAATG 58.921 47.619 0.00 0.00 0.00 2.82
3065 4331 2.079158 CAGTTCCATCACGAGTGCAAT 58.921 47.619 0.00 0.00 0.00 3.56
3066 4332 1.069978 TCAGTTCCATCACGAGTGCAA 59.930 47.619 0.00 0.00 0.00 4.08
3067 4333 0.678950 TCAGTTCCATCACGAGTGCA 59.321 50.000 0.00 0.00 0.00 4.57
3068 4334 1.461127 GTTCAGTTCCATCACGAGTGC 59.539 52.381 0.00 0.00 0.00 4.40
3069 4335 2.754472 TGTTCAGTTCCATCACGAGTG 58.246 47.619 0.00 0.00 0.00 3.51
3070 4336 3.469008 TTGTTCAGTTCCATCACGAGT 57.531 42.857 0.00 0.00 0.00 4.18
3071 4337 4.058124 TCTTTGTTCAGTTCCATCACGAG 58.942 43.478 0.00 0.00 0.00 4.18
3072 4338 4.066646 TCTTTGTTCAGTTCCATCACGA 57.933 40.909 0.00 0.00 0.00 4.35
3073 4339 4.319766 CCTTCTTTGTTCAGTTCCATCACG 60.320 45.833 0.00 0.00 0.00 4.35
3074 4340 4.821805 TCCTTCTTTGTTCAGTTCCATCAC 59.178 41.667 0.00 0.00 0.00 3.06
3075 4341 4.821805 GTCCTTCTTTGTTCAGTTCCATCA 59.178 41.667 0.00 0.00 0.00 3.07
3076 4342 4.821805 TGTCCTTCTTTGTTCAGTTCCATC 59.178 41.667 0.00 0.00 0.00 3.51
3077 4343 4.792068 TGTCCTTCTTTGTTCAGTTCCAT 58.208 39.130 0.00 0.00 0.00 3.41
3078 4344 4.229304 TGTCCTTCTTTGTTCAGTTCCA 57.771 40.909 0.00 0.00 0.00 3.53
3079 4345 5.532779 AGATTGTCCTTCTTTGTTCAGTTCC 59.467 40.000 0.00 0.00 0.00 3.62
3080 4346 6.625873 AGATTGTCCTTCTTTGTTCAGTTC 57.374 37.500 0.00 0.00 0.00 3.01
3081 4347 7.993183 TCTTAGATTGTCCTTCTTTGTTCAGTT 59.007 33.333 0.00 0.00 0.00 3.16
3082 4348 7.509546 TCTTAGATTGTCCTTCTTTGTTCAGT 58.490 34.615 0.00 0.00 0.00 3.41
3083 4349 7.969536 TCTTAGATTGTCCTTCTTTGTTCAG 57.030 36.000 0.00 0.00 0.00 3.02
3084 4350 8.924511 ATTCTTAGATTGTCCTTCTTTGTTCA 57.075 30.769 0.00 0.00 0.00 3.18
3087 4353 9.660180 GTCTATTCTTAGATTGTCCTTCTTTGT 57.340 33.333 0.00 0.00 36.84 2.83
3088 4354 9.658799 TGTCTATTCTTAGATTGTCCTTCTTTG 57.341 33.333 0.00 0.00 36.84 2.77
3095 4361 9.823647 TGAAGATTGTCTATTCTTAGATTGTCC 57.176 33.333 0.00 0.00 36.84 4.02
3101 4367 9.261035 AGAGGTTGAAGATTGTCTATTCTTAGA 57.739 33.333 0.00 0.00 32.46 2.10
3102 4368 9.883142 AAGAGGTTGAAGATTGTCTATTCTTAG 57.117 33.333 0.00 0.00 32.46 2.18
3103 4369 9.877178 GAAGAGGTTGAAGATTGTCTATTCTTA 57.123 33.333 0.00 0.00 32.46 2.10
3104 4370 8.601546 AGAAGAGGTTGAAGATTGTCTATTCTT 58.398 33.333 0.00 0.00 31.43 2.52
3105 4371 8.144862 AGAAGAGGTTGAAGATTGTCTATTCT 57.855 34.615 0.00 0.00 30.87 2.40
3106 4372 8.785329 AAGAAGAGGTTGAAGATTGTCTATTC 57.215 34.615 0.00 0.00 0.00 1.75
3109 4375 9.658799 CATTAAGAAGAGGTTGAAGATTGTCTA 57.341 33.333 0.00 0.00 0.00 2.59
3110 4376 8.160106 ACATTAAGAAGAGGTTGAAGATTGTCT 58.840 33.333 0.00 0.00 0.00 3.41
3111 4377 8.329203 ACATTAAGAAGAGGTTGAAGATTGTC 57.671 34.615 0.00 0.00 0.00 3.18
3112 4378 7.939039 TGACATTAAGAAGAGGTTGAAGATTGT 59.061 33.333 0.00 0.00 0.00 2.71
3113 4379 8.327941 TGACATTAAGAAGAGGTTGAAGATTG 57.672 34.615 0.00 0.00 0.00 2.67
3114 4380 7.120432 GCTGACATTAAGAAGAGGTTGAAGATT 59.880 37.037 0.00 0.00 0.00 2.40
3115 4381 6.597280 GCTGACATTAAGAAGAGGTTGAAGAT 59.403 38.462 0.00 0.00 0.00 2.40
3116 4382 5.934625 GCTGACATTAAGAAGAGGTTGAAGA 59.065 40.000 0.00 0.00 0.00 2.87
3117 4383 5.936956 AGCTGACATTAAGAAGAGGTTGAAG 59.063 40.000 0.00 0.00 0.00 3.02
3118 4384 5.869579 AGCTGACATTAAGAAGAGGTTGAA 58.130 37.500 0.00 0.00 0.00 2.69
3119 4385 5.489792 AGCTGACATTAAGAAGAGGTTGA 57.510 39.130 0.00 0.00 0.00 3.18
3120 4386 6.566197 AAAGCTGACATTAAGAAGAGGTTG 57.434 37.500 0.00 0.00 0.00 3.77
3121 4387 8.691661 TTTAAAGCTGACATTAAGAAGAGGTT 57.308 30.769 0.00 0.00 0.00 3.50
3122 4388 8.691661 TTTTAAAGCTGACATTAAGAAGAGGT 57.308 30.769 0.00 0.00 0.00 3.85
3130 4396 9.823647 TGGTGAAAATTTTAAAGCTGACATTAA 57.176 25.926 2.75 0.00 0.00 1.40
3131 4397 9.823647 TTGGTGAAAATTTTAAAGCTGACATTA 57.176 25.926 2.75 0.00 0.00 1.90
3132 4398 8.729805 TTGGTGAAAATTTTAAAGCTGACATT 57.270 26.923 2.75 0.00 0.00 2.71
3133 4399 7.442062 CCTTGGTGAAAATTTTAAAGCTGACAT 59.558 33.333 2.75 0.00 0.00 3.06
3134 4400 6.760770 CCTTGGTGAAAATTTTAAAGCTGACA 59.239 34.615 2.75 0.00 0.00 3.58
3135 4401 6.761242 ACCTTGGTGAAAATTTTAAAGCTGAC 59.239 34.615 2.75 0.00 0.00 3.51
3136 4402 6.760770 CACCTTGGTGAAAATTTTAAAGCTGA 59.239 34.615 14.15 0.00 0.00 4.26
3137 4403 6.018016 CCACCTTGGTGAAAATTTTAAAGCTG 60.018 38.462 20.27 4.12 31.35 4.24
3138 4404 6.054941 CCACCTTGGTGAAAATTTTAAAGCT 58.945 36.000 20.27 0.00 31.35 3.74
3139 4405 5.238432 CCCACCTTGGTGAAAATTTTAAAGC 59.762 40.000 20.27 5.94 35.17 3.51
3140 4406 6.587273 TCCCACCTTGGTGAAAATTTTAAAG 58.413 36.000 20.27 5.92 35.17 1.85
3141 4407 6.561519 TCCCACCTTGGTGAAAATTTTAAA 57.438 33.333 20.27 0.00 35.17 1.52
3142 4408 6.157123 AGTTCCCACCTTGGTGAAAATTTTAA 59.843 34.615 20.27 0.00 35.17 1.52
3143 4409 5.663556 AGTTCCCACCTTGGTGAAAATTTTA 59.336 36.000 20.27 0.00 35.17 1.52
3144 4410 4.473196 AGTTCCCACCTTGGTGAAAATTTT 59.527 37.500 20.27 2.28 35.17 1.82
3145 4411 4.037222 AGTTCCCACCTTGGTGAAAATTT 58.963 39.130 20.27 5.28 35.17 1.82
3146 4412 3.653164 AGTTCCCACCTTGGTGAAAATT 58.347 40.909 20.27 8.39 35.17 1.82
3147 4413 3.328535 AGTTCCCACCTTGGTGAAAAT 57.671 42.857 20.27 10.71 35.17 1.82
3148 4414 2.838637 AGTTCCCACCTTGGTGAAAA 57.161 45.000 20.27 11.07 35.17 2.29
3149 4415 3.053544 TGTTAGTTCCCACCTTGGTGAAA 60.054 43.478 20.27 11.39 35.17 2.69
3150 4416 2.510382 TGTTAGTTCCCACCTTGGTGAA 59.490 45.455 20.27 5.68 35.17 3.18
3151 4417 2.105821 CTGTTAGTTCCCACCTTGGTGA 59.894 50.000 20.27 0.00 35.17 4.02
3152 4418 2.504367 CTGTTAGTTCCCACCTTGGTG 58.496 52.381 12.54 12.54 35.17 4.17
3153 4419 1.423921 CCTGTTAGTTCCCACCTTGGT 59.576 52.381 0.00 0.00 35.17 3.67
3154 4420 1.886655 GCCTGTTAGTTCCCACCTTGG 60.887 57.143 0.00 0.00 37.25 3.61
3155 4421 1.073923 AGCCTGTTAGTTCCCACCTTG 59.926 52.381 0.00 0.00 0.00 3.61
3156 4422 1.446016 AGCCTGTTAGTTCCCACCTT 58.554 50.000 0.00 0.00 0.00 3.50
3157 4423 1.446016 AAGCCTGTTAGTTCCCACCT 58.554 50.000 0.00 0.00 0.00 4.00
3158 4424 2.708051 GTAAGCCTGTTAGTTCCCACC 58.292 52.381 0.00 0.00 0.00 4.61
3159 4425 2.344025 CGTAAGCCTGTTAGTTCCCAC 58.656 52.381 0.00 0.00 0.00 4.61
3160 4426 2.754946 CGTAAGCCTGTTAGTTCCCA 57.245 50.000 0.00 0.00 0.00 4.37
3179 4445 0.448990 TCACAGAATGCGCAATCTGC 59.551 50.000 41.35 16.76 45.50 4.26
3180 4446 2.716398 CATCACAGAATGCGCAATCTG 58.284 47.619 40.34 40.34 46.69 2.90
3181 4447 1.065102 GCATCACAGAATGCGCAATCT 59.935 47.619 22.13 22.13 42.33 2.40
3182 4448 1.474017 GCATCACAGAATGCGCAATC 58.526 50.000 17.11 17.50 42.33 2.67
3183 4449 3.635433 GCATCACAGAATGCGCAAT 57.365 47.368 17.11 5.60 42.33 3.56


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

AutoCloner maintained by Alex Coulton.