Multiple sequence alignment - TraesCS1B01G333700

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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 TraesCS1B01G333700 chr1B 100.000 6085 0 0 1 6085 560181665 560187749 0.000000e+00 11237.0
1 TraesCS1B01G333700 chr1B 81.898 1823 273 39 855 2659 560491305 560493088 0.000000e+00 1485.0
2 TraesCS1B01G333700 chr1B 82.520 1516 221 21 1196 2701 560217112 560218593 0.000000e+00 1291.0
3 TraesCS1B01G333700 chr1B 83.024 1402 194 28 1351 2746 560502019 560503382 0.000000e+00 1230.0
4 TraesCS1B01G333700 chr1B 79.604 505 61 21 2669 3146 560218598 560219087 2.120000e-84 324.0
5 TraesCS1B01G333700 chr1B 78.630 365 64 12 845 1200 560211500 560211859 4.740000e-56 230.0
6 TraesCS1B01G333700 chrUn 98.404 2820 42 2 3269 6085 194117165 194114346 0.000000e+00 4955.0
7 TraesCS1B01G333700 chr3B 98.267 2828 45 3 3262 6085 766104286 766107113 0.000000e+00 4948.0
8 TraesCS1B01G333700 chr3B 98.190 2818 48 2 3271 6085 741973406 741976223 0.000000e+00 4918.0
9 TraesCS1B01G333700 chr6B 98.229 2824 45 4 3265 6085 716403995 716406816 0.000000e+00 4933.0
10 TraesCS1B01G333700 chr2B 98.129 2832 50 2 3257 6085 497040134 497042965 0.000000e+00 4933.0
11 TraesCS1B01G333700 chr2B 98.156 2820 46 5 3270 6085 778421190 778424007 0.000000e+00 4915.0
12 TraesCS1B01G333700 chr5B 98.158 2823 44 5 3267 6085 127772122 127774940 0.000000e+00 4918.0
13 TraesCS1B01G333700 chr5B 98.224 2815 46 3 3274 6085 708907792 708904979 0.000000e+00 4918.0
14 TraesCS1B01G333700 chr4B 98.190 2818 44 3 3271 6085 575730048 575732861 0.000000e+00 4915.0
15 TraesCS1B01G333700 chr1D 86.683 2478 236 51 843 3271 414715907 414718339 0.000000e+00 2662.0
16 TraesCS1B01G333700 chr1D 81.663 1876 290 30 845 2701 414737054 414738894 0.000000e+00 1509.0
17 TraesCS1B01G333700 chr1D 79.383 519 50 30 2669 3146 414738899 414739401 4.580000e-81 313.0
18 TraesCS1B01G333700 chr1D 77.500 320 48 21 492 801 414715515 414715820 2.920000e-38 171.0
19 TraesCS1B01G333700 chr1A 92.312 1821 110 16 889 2701 511485656 511487454 0.000000e+00 2560.0
20 TraesCS1B01G333700 chr1A 81.192 2031 308 47 739 2746 511623256 511625235 0.000000e+00 1567.0
21 TraesCS1B01G333700 chr1A 90.469 661 30 8 162 808 511484984 511485625 0.000000e+00 841.0
22 TraesCS1B01G333700 chr1A 79.769 519 52 27 2669 3146 511487459 511487965 1.640000e-85 327.0
23 TraesCS1B01G333700 chr2D 84.932 146 18 4 3 145 480511243 480511099 1.770000e-30 145.0
24 TraesCS1B01G333700 chr4D 100.000 29 0 0 304 332 31015766 31015738 3.000000e-03 54.7


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 TraesCS1B01G333700 chr1B 560181665 560187749 6084 False 11237.000000 11237 100.000000 1 6085 1 chr1B.!!$F1 6084
1 TraesCS1B01G333700 chr1B 560491305 560493088 1783 False 1485.000000 1485 81.898000 855 2659 1 chr1B.!!$F3 1804
2 TraesCS1B01G333700 chr1B 560502019 560503382 1363 False 1230.000000 1230 83.024000 1351 2746 1 chr1B.!!$F4 1395
3 TraesCS1B01G333700 chr1B 560217112 560219087 1975 False 807.500000 1291 81.062000 1196 3146 2 chr1B.!!$F5 1950
4 TraesCS1B01G333700 chrUn 194114346 194117165 2819 True 4955.000000 4955 98.404000 3269 6085 1 chrUn.!!$R1 2816
5 TraesCS1B01G333700 chr3B 766104286 766107113 2827 False 4948.000000 4948 98.267000 3262 6085 1 chr3B.!!$F2 2823
6 TraesCS1B01G333700 chr3B 741973406 741976223 2817 False 4918.000000 4918 98.190000 3271 6085 1 chr3B.!!$F1 2814
7 TraesCS1B01G333700 chr6B 716403995 716406816 2821 False 4933.000000 4933 98.229000 3265 6085 1 chr6B.!!$F1 2820
8 TraesCS1B01G333700 chr2B 497040134 497042965 2831 False 4933.000000 4933 98.129000 3257 6085 1 chr2B.!!$F1 2828
9 TraesCS1B01G333700 chr2B 778421190 778424007 2817 False 4915.000000 4915 98.156000 3270 6085 1 chr2B.!!$F2 2815
10 TraesCS1B01G333700 chr5B 127772122 127774940 2818 False 4918.000000 4918 98.158000 3267 6085 1 chr5B.!!$F1 2818
11 TraesCS1B01G333700 chr5B 708904979 708907792 2813 True 4918.000000 4918 98.224000 3274 6085 1 chr5B.!!$R1 2811
12 TraesCS1B01G333700 chr4B 575730048 575732861 2813 False 4915.000000 4915 98.190000 3271 6085 1 chr4B.!!$F1 2814
13 TraesCS1B01G333700 chr1D 414715515 414718339 2824 False 1416.500000 2662 82.091500 492 3271 2 chr1D.!!$F1 2779
14 TraesCS1B01G333700 chr1D 414737054 414739401 2347 False 911.000000 1509 80.523000 845 3146 2 chr1D.!!$F2 2301
15 TraesCS1B01G333700 chr1A 511623256 511625235 1979 False 1567.000000 1567 81.192000 739 2746 1 chr1A.!!$F1 2007
16 TraesCS1B01G333700 chr1A 511484984 511487965 2981 False 1242.666667 2560 87.516667 162 3146 3 chr1A.!!$F2 2984

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
37 38 0.042448 GCCGTAAATGATCCGAACGC 60.042 55.0 0.00 0.0 32.43 4.84 F
96 97 0.329931 TTACGGTGGCATTGATGGGT 59.670 50.0 0.00 0.0 0.00 4.51 F
815 841 0.371645 GCACTTTCTCGAATGCTCGG 59.628 55.0 0.00 0.0 45.49 4.63 F
1563 1669 0.518636 CCAGAATAATCATGCGCGGG 59.481 55.0 8.83 0.0 0.00 6.13 F
2692 2810 0.390603 CTGCGTTACAATGACGGGGA 60.391 55.0 0.00 0.0 40.66 4.81 F
3089 3304 0.460459 GCCGGTTGCCTCTAGAACTC 60.460 60.0 1.90 0.0 0.00 3.01 F
4585 4809 0.457166 GTACACGCCGATGCACACTA 60.457 55.0 0.00 0.0 37.32 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1041 1143 1.278985 TCCACTATGCTCCACACAAGG 59.721 52.381 0.0 0.0 0.00 3.61 R
1800 1906 1.323412 AGGCACATCTAGCTCGGTAG 58.677 55.000 0.0 0.0 0.00 3.18 R
2592 2709 0.178961 ACAAACCTTTCTGCCCCTCC 60.179 55.000 0.0 0.0 0.00 4.30 R
3146 3362 0.252479 AGTCAGAGCAGAATGGCAGG 59.748 55.000 0.0 0.0 35.86 4.85 R
3920 4144 2.450886 TGGATGCTCTACCCTGGATCTA 59.549 50.000 0.0 0.0 32.71 1.98 R
4956 5180 2.158914 TGTCATGGCATCTAATCGCACT 60.159 45.455 0.0 0.0 0.00 4.40 R
5914 6139 2.167693 TGGACTACGCCTTACCAGAATG 59.832 50.000 0.0 0.0 0.00 2.67 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 2.481289 GGATAATGTCAGGGGCTAGC 57.519 55.000 6.04 6.04 0.00 3.42
20 21 1.003696 GGATAATGTCAGGGGCTAGCC 59.996 57.143 26.55 26.55 0.00 3.93
21 22 0.687354 ATAATGTCAGGGGCTAGCCG 59.313 55.000 27.24 14.07 36.85 5.52
22 23 0.689745 TAATGTCAGGGGCTAGCCGT 60.690 55.000 27.24 14.54 36.85 5.68
23 24 0.689745 AATGTCAGGGGCTAGCCGTA 60.690 55.000 27.24 9.65 36.85 4.02
24 25 0.689745 ATGTCAGGGGCTAGCCGTAA 60.690 55.000 27.24 10.02 36.85 3.18
25 26 0.905809 TGTCAGGGGCTAGCCGTAAA 60.906 55.000 27.24 10.40 36.85 2.01
26 27 0.468648 GTCAGGGGCTAGCCGTAAAT 59.531 55.000 27.24 8.26 36.85 1.40
27 28 0.468226 TCAGGGGCTAGCCGTAAATG 59.532 55.000 27.24 19.08 36.85 2.32
28 29 0.468226 CAGGGGCTAGCCGTAAATGA 59.532 55.000 27.24 0.00 36.85 2.57
29 30 1.072331 CAGGGGCTAGCCGTAAATGAT 59.928 52.381 27.24 3.92 36.85 2.45
30 31 1.348036 AGGGGCTAGCCGTAAATGATC 59.652 52.381 27.24 9.88 36.85 2.92
31 32 1.610886 GGGGCTAGCCGTAAATGATCC 60.611 57.143 27.24 15.25 36.85 3.36
32 33 1.429463 GGCTAGCCGTAAATGATCCG 58.571 55.000 20.16 0.00 0.00 4.18
33 34 1.000506 GGCTAGCCGTAAATGATCCGA 59.999 52.381 20.16 0.00 0.00 4.55
34 35 2.547218 GGCTAGCCGTAAATGATCCGAA 60.547 50.000 20.16 0.00 0.00 4.30
35 36 2.475487 GCTAGCCGTAAATGATCCGAAC 59.525 50.000 2.29 0.00 0.00 3.95
36 37 1.567504 AGCCGTAAATGATCCGAACG 58.432 50.000 0.00 0.00 0.00 3.95
37 38 0.042448 GCCGTAAATGATCCGAACGC 60.042 55.000 0.00 0.00 32.43 4.84
38 39 1.282817 CCGTAAATGATCCGAACGCA 58.717 50.000 0.00 0.00 32.43 5.24
39 40 1.661617 CCGTAAATGATCCGAACGCAA 59.338 47.619 0.00 0.00 32.43 4.85
40 41 2.536130 CCGTAAATGATCCGAACGCAAC 60.536 50.000 0.00 0.00 32.43 4.17
41 42 2.536130 CGTAAATGATCCGAACGCAACC 60.536 50.000 0.00 0.00 0.00 3.77
42 43 0.446222 AAATGATCCGAACGCAACCG 59.554 50.000 0.00 0.00 41.14 4.44
43 44 1.366111 AATGATCCGAACGCAACCGG 61.366 55.000 0.00 0.00 46.57 5.28
44 45 3.861263 GATCCGAACGCAACCGGC 61.861 66.667 0.00 0.00 44.96 6.13
54 55 4.708386 CAACCGGCGGCCACCTAA 62.708 66.667 28.71 0.00 0.00 2.69
55 56 3.723922 AACCGGCGGCCACCTAAT 61.724 61.111 28.71 0.00 0.00 1.73
56 57 2.368821 AACCGGCGGCCACCTAATA 61.369 57.895 28.71 0.00 0.00 0.98
57 58 1.912826 AACCGGCGGCCACCTAATAA 61.913 55.000 28.71 0.00 0.00 1.40
58 59 1.153127 CCGGCGGCCACCTAATAAA 60.153 57.895 20.71 0.00 0.00 1.40
59 60 0.748729 CCGGCGGCCACCTAATAAAA 60.749 55.000 20.71 0.00 0.00 1.52
60 61 1.096416 CGGCGGCCACCTAATAAAAA 58.904 50.000 20.71 0.00 0.00 1.94
82 83 5.917541 AATGTACTGTTTGTCACTTACGG 57.082 39.130 0.00 0.00 0.00 4.02
83 84 4.389890 TGTACTGTTTGTCACTTACGGT 57.610 40.909 0.00 0.00 35.65 4.83
84 85 4.114073 TGTACTGTTTGTCACTTACGGTG 58.886 43.478 5.01 0.00 46.60 4.94
85 86 2.557317 ACTGTTTGTCACTTACGGTGG 58.443 47.619 0.00 0.00 45.38 4.61
92 93 2.779755 TCACTTACGGTGGCATTGAT 57.220 45.000 0.00 0.00 45.38 2.57
93 94 2.355197 TCACTTACGGTGGCATTGATG 58.645 47.619 0.00 0.00 45.38 3.07
94 95 1.401552 CACTTACGGTGGCATTGATGG 59.598 52.381 0.00 0.00 41.90 3.51
95 96 1.024271 CTTACGGTGGCATTGATGGG 58.976 55.000 0.00 0.00 0.00 4.00
96 97 0.329931 TTACGGTGGCATTGATGGGT 59.670 50.000 0.00 0.00 0.00 4.51
97 98 1.205055 TACGGTGGCATTGATGGGTA 58.795 50.000 0.00 0.00 0.00 3.69
98 99 0.329931 ACGGTGGCATTGATGGGTAA 59.670 50.000 0.00 0.00 0.00 2.85
99 100 1.064017 ACGGTGGCATTGATGGGTAAT 60.064 47.619 0.00 0.00 0.00 1.89
100 101 2.031120 CGGTGGCATTGATGGGTAATT 58.969 47.619 0.00 0.00 0.00 1.40
101 102 2.430332 CGGTGGCATTGATGGGTAATTT 59.570 45.455 0.00 0.00 0.00 1.82
102 103 3.490761 CGGTGGCATTGATGGGTAATTTC 60.491 47.826 0.00 0.00 0.00 2.17
103 104 3.706086 GGTGGCATTGATGGGTAATTTCT 59.294 43.478 0.00 0.00 0.00 2.52
104 105 4.892934 GGTGGCATTGATGGGTAATTTCTA 59.107 41.667 0.00 0.00 0.00 2.10
105 106 5.539955 GGTGGCATTGATGGGTAATTTCTAT 59.460 40.000 0.00 0.00 0.00 1.98
106 107 6.449698 GTGGCATTGATGGGTAATTTCTATG 58.550 40.000 0.00 0.00 0.00 2.23
107 108 6.265196 GTGGCATTGATGGGTAATTTCTATGA 59.735 38.462 0.00 0.00 0.00 2.15
108 109 6.838090 TGGCATTGATGGGTAATTTCTATGAA 59.162 34.615 3.63 0.00 0.00 2.57
109 110 7.147976 GGCATTGATGGGTAATTTCTATGAAC 58.852 38.462 3.63 0.00 0.00 3.18
110 111 7.014615 GGCATTGATGGGTAATTTCTATGAACT 59.985 37.037 3.63 0.00 0.00 3.01
111 112 8.416329 GCATTGATGGGTAATTTCTATGAACTT 58.584 33.333 3.63 0.00 0.00 2.66
115 116 9.627123 TGATGGGTAATTTCTATGAACTTTAGG 57.373 33.333 0.00 0.00 0.00 2.69
116 117 9.847224 GATGGGTAATTTCTATGAACTTTAGGA 57.153 33.333 0.00 0.00 0.00 2.94
117 118 9.853177 ATGGGTAATTTCTATGAACTTTAGGAG 57.147 33.333 0.00 0.00 0.00 3.69
118 119 8.832735 TGGGTAATTTCTATGAACTTTAGGAGT 58.167 33.333 0.00 0.00 41.47 3.85
129 130 8.842358 ATGAACTTTAGGAGTAATTTTCGTGA 57.158 30.769 0.00 0.00 37.72 4.35
130 131 8.080083 TGAACTTTAGGAGTAATTTTCGTGAC 57.920 34.615 0.00 0.00 37.72 3.67
131 132 6.701432 ACTTTAGGAGTAATTTTCGTGACG 57.299 37.500 0.00 0.00 36.65 4.35
132 133 6.218746 ACTTTAGGAGTAATTTTCGTGACGT 58.781 36.000 4.40 0.00 36.65 4.34
133 134 7.370383 ACTTTAGGAGTAATTTTCGTGACGTA 58.630 34.615 4.40 0.00 36.65 3.57
134 135 8.031277 ACTTTAGGAGTAATTTTCGTGACGTAT 58.969 33.333 4.40 0.00 36.65 3.06
135 136 9.507280 CTTTAGGAGTAATTTTCGTGACGTATA 57.493 33.333 4.40 0.00 0.00 1.47
136 137 9.853555 TTTAGGAGTAATTTTCGTGACGTATAA 57.146 29.630 4.40 0.00 0.00 0.98
137 138 7.746526 AGGAGTAATTTTCGTGACGTATAAC 57.253 36.000 4.40 0.00 0.00 1.89
138 139 7.542025 AGGAGTAATTTTCGTGACGTATAACT 58.458 34.615 4.40 2.70 0.00 2.24
139 140 8.677300 AGGAGTAATTTTCGTGACGTATAACTA 58.323 33.333 4.40 0.00 0.00 2.24
140 141 8.951969 GGAGTAATTTTCGTGACGTATAACTAG 58.048 37.037 4.40 0.00 0.00 2.57
141 142 9.708222 GAGTAATTTTCGTGACGTATAACTAGA 57.292 33.333 4.40 0.00 0.00 2.43
144 145 6.859715 TTTTCGTGACGTATAACTAGAAGC 57.140 37.500 4.40 0.00 0.00 3.86
145 146 4.187594 TCGTGACGTATAACTAGAAGCG 57.812 45.455 4.40 0.00 0.00 4.68
146 147 3.865164 TCGTGACGTATAACTAGAAGCGA 59.135 43.478 4.40 0.00 0.00 4.93
147 148 3.958767 CGTGACGTATAACTAGAAGCGAC 59.041 47.826 0.00 0.00 0.00 5.19
148 149 3.958767 GTGACGTATAACTAGAAGCGACG 59.041 47.826 0.00 2.17 35.10 5.12
149 150 2.963478 GACGTATAACTAGAAGCGACGC 59.037 50.000 13.03 13.03 32.28 5.19
150 151 2.611292 ACGTATAACTAGAAGCGACGCT 59.389 45.455 18.46 18.46 42.56 5.07
350 351 8.840833 AAAATGATTTACGCCCTTTTTATGTT 57.159 26.923 0.00 0.00 0.00 2.71
351 352 7.826260 AATGATTTACGCCCTTTTTATGTTG 57.174 32.000 0.00 0.00 0.00 3.33
352 353 6.334102 TGATTTACGCCCTTTTTATGTTGT 57.666 33.333 0.00 0.00 0.00 3.32
353 354 7.450124 TGATTTACGCCCTTTTTATGTTGTA 57.550 32.000 0.00 0.00 0.00 2.41
354 355 8.057536 TGATTTACGCCCTTTTTATGTTGTAT 57.942 30.769 0.00 0.00 0.00 2.29
355 356 9.175312 TGATTTACGCCCTTTTTATGTTGTATA 57.825 29.630 0.00 0.00 0.00 1.47
431 433 7.014134 TGACATTTTCTATGGCTTTGTTTGAGA 59.986 33.333 0.00 0.00 0.00 3.27
434 436 9.044150 CATTTTCTATGGCTTTGTTTGAGAAAA 57.956 29.630 8.77 8.77 42.41 2.29
469 471 5.532557 GTCTTTTCAGAACCATTTTGAGGG 58.467 41.667 0.00 0.00 0.00 4.30
474 476 1.077169 AGAACCATTTTGAGGGGTCCC 59.923 52.381 0.00 0.00 42.03 4.46
515 520 2.117156 CATTCCTTGGGCTGAGCGG 61.117 63.158 0.00 0.00 0.00 5.52
593 601 0.891904 AATTCAAACCACCCGACCCG 60.892 55.000 0.00 0.00 0.00 5.28
808 834 1.374947 CCCCCTGCACTTTCTCGAA 59.625 57.895 0.00 0.00 0.00 3.71
810 836 1.089920 CCCCTGCACTTTCTCGAATG 58.910 55.000 0.00 0.00 0.00 2.67
811 837 0.449388 CCCTGCACTTTCTCGAATGC 59.551 55.000 0.00 0.00 38.59 3.56
812 838 1.446907 CCTGCACTTTCTCGAATGCT 58.553 50.000 6.75 0.00 38.90 3.79
813 839 1.396301 CCTGCACTTTCTCGAATGCTC 59.604 52.381 6.75 0.00 38.90 4.26
814 840 1.060266 CTGCACTTTCTCGAATGCTCG 59.940 52.381 6.75 0.00 46.87 5.03
815 841 0.371645 GCACTTTCTCGAATGCTCGG 59.628 55.000 0.00 0.00 45.49 4.63
818 844 0.917259 CTTTCTCGAATGCTCGGTCG 59.083 55.000 0.00 0.00 45.49 4.79
819 845 0.524414 TTTCTCGAATGCTCGGTCGA 59.476 50.000 0.00 0.00 45.49 4.20
820 846 0.738975 TTCTCGAATGCTCGGTCGAT 59.261 50.000 0.00 0.00 44.63 3.59
821 847 0.738975 TCTCGAATGCTCGGTCGATT 59.261 50.000 0.00 0.00 44.63 3.34
822 848 1.124462 CTCGAATGCTCGGTCGATTC 58.876 55.000 0.00 0.00 44.63 2.52
830 881 1.787057 CTCGGTCGATTCCTCCTCGG 61.787 65.000 0.00 0.00 36.78 4.63
834 885 2.050350 TCGATTCCTCCTCGGCGTT 61.050 57.895 6.85 0.00 36.78 4.84
837 888 1.079127 ATTCCTCCTCGGCGTTGTG 60.079 57.895 6.85 0.06 0.00 3.33
1041 1143 2.154074 ACCTGGGTTGGTCTCACCC 61.154 63.158 0.75 0.75 43.82 4.61
1063 1165 2.768253 TGTGTGGAGCATAGTGGAAG 57.232 50.000 0.00 0.00 0.00 3.46
1329 1434 2.184322 GGCGAGTCTGCCGATCAA 59.816 61.111 9.67 0.00 46.75 2.57
1398 1503 1.087501 GCAAAGAGGTGGACGATTCC 58.912 55.000 0.00 0.00 43.19 3.01
1533 1638 1.905637 TCCAAGTCTACGACTGCAGA 58.094 50.000 23.35 0.00 42.59 4.26
1563 1669 0.518636 CCAGAATAATCATGCGCGGG 59.481 55.000 8.83 0.00 0.00 6.13
1564 1670 1.229428 CAGAATAATCATGCGCGGGT 58.771 50.000 8.83 0.00 0.00 5.28
1565 1671 2.412870 CAGAATAATCATGCGCGGGTA 58.587 47.619 8.83 0.00 0.00 3.69
1566 1672 2.157668 CAGAATAATCATGCGCGGGTAC 59.842 50.000 8.83 0.00 0.00 3.34
1567 1673 1.126113 GAATAATCATGCGCGGGTACG 59.874 52.381 8.83 0.00 44.63 3.67
1599 1705 1.069090 GAAGGCGGACACTGTCACA 59.931 57.895 11.34 0.00 33.68 3.58
1746 1852 1.981256 TTGTGGAAACTGGCTTCTCC 58.019 50.000 0.00 0.00 0.00 3.71
1800 1906 0.674895 AGAGGAATTGGCAGCACGAC 60.675 55.000 0.00 0.00 0.00 4.34
2226 2339 2.256117 AAGAACCCAAAGTCACGAGG 57.744 50.000 0.00 0.00 0.00 4.63
2235 2348 4.408821 GTCACGAGGGGGCATGCA 62.409 66.667 21.36 0.00 0.00 3.96
2301 2414 2.290577 GCAAGTCCAAGTGGAGGAATCT 60.291 50.000 0.00 0.00 46.49 2.40
2441 2555 8.738645 ACAAGAAGTAATTTCTCTGACAAGTT 57.261 30.769 0.00 0.00 45.41 2.66
2511 2625 2.159212 TCATTTCATTGCTGATTGCCCG 60.159 45.455 0.00 0.00 42.00 6.13
2517 2631 1.614996 TTGCTGATTGCCCGAAGAAA 58.385 45.000 0.00 0.00 42.00 2.52
2532 2649 5.057149 CCGAAGAAAGAGGACAAGAAAGAA 58.943 41.667 0.00 0.00 0.00 2.52
2533 2650 5.178438 CCGAAGAAAGAGGACAAGAAAGAAG 59.822 44.000 0.00 0.00 0.00 2.85
2557 2674 3.368948 GGAGAAGAGCAAGTACAAGAGGG 60.369 52.174 0.00 0.00 0.00 4.30
2592 2709 2.774799 GGGCAAGCCATACAAGCCG 61.775 63.158 13.87 0.00 46.12 5.52
2608 2725 2.757077 CGGAGGGGCAGAAAGGTT 59.243 61.111 0.00 0.00 0.00 3.50
2621 2738 4.268644 GCAGAAAGGTTTGTTTCTTTGCTC 59.731 41.667 0.00 0.00 42.93 4.26
2632 2749 4.518970 TGTTTCTTTGCTCCATCTTGTACC 59.481 41.667 0.00 0.00 0.00 3.34
2634 2751 5.755409 TTCTTTGCTCCATCTTGTACCTA 57.245 39.130 0.00 0.00 0.00 3.08
2640 2757 4.141711 TGCTCCATCTTGTACCTACCATTC 60.142 45.833 0.00 0.00 0.00 2.67
2692 2810 0.390603 CTGCGTTACAATGACGGGGA 60.391 55.000 0.00 0.00 40.66 4.81
2769 2938 2.029290 GTGTCCGGTGTCTGAGTAACAT 60.029 50.000 0.00 0.00 0.00 2.71
2774 2943 2.413112 CGGTGTCTGAGTAACATTGCAG 59.587 50.000 0.00 0.00 0.00 4.41
2939 3118 4.342862 TTCAGGCCTTATCTGATAGTGC 57.657 45.455 0.00 10.37 40.46 4.40
3089 3304 0.460459 GCCGGTTGCCTCTAGAACTC 60.460 60.000 1.90 0.00 0.00 3.01
3146 3362 4.161333 GTGAAGCTACATTGCACATTGTC 58.839 43.478 1.71 0.00 34.99 3.18
3147 3363 3.191162 TGAAGCTACATTGCACATTGTCC 59.809 43.478 1.71 0.00 34.99 4.02
3149 3365 2.751259 AGCTACATTGCACATTGTCCTG 59.249 45.455 1.71 0.00 34.99 3.86
3150 3366 2.733227 GCTACATTGCACATTGTCCTGC 60.733 50.000 1.71 3.10 0.00 4.85
3224 3440 9.100554 CATCTGGCATTATTTTTATTCTTTGCA 57.899 29.630 0.00 0.00 0.00 4.08
3225 3441 9.841295 ATCTGGCATTATTTTTATTCTTTGCAT 57.159 25.926 0.00 0.00 0.00 3.96
3246 3462 1.533731 ACCAAACGGTTATGCAGTTCG 59.466 47.619 0.00 0.00 34.50 3.95
3253 3469 5.190992 ACGGTTATGCAGTTCGTATATGA 57.809 39.130 5.57 0.00 32.03 2.15
3435 3653 2.159057 GGGACGCGTTTTAATCTAGGGA 60.159 50.000 15.53 0.00 0.00 4.20
3737 3961 2.231716 TGAGGGAGATCCGTTCTTGA 57.768 50.000 0.00 0.00 41.52 3.02
3920 4144 4.636435 CGGAGGTGGTGGGCGTTT 62.636 66.667 0.00 0.00 0.00 3.60
4380 4604 4.398044 CACCGGTAGGCACTGAAATATTTT 59.602 41.667 6.87 0.00 41.52 1.82
4539 4763 1.902556 GGTACACACCGGTAGGCAT 59.097 57.895 6.87 0.00 42.76 4.40
4572 4796 6.916401 TCGTTACTACAATTTCAGTACACG 57.084 37.500 15.53 15.53 35.50 4.49
4585 4809 0.457166 GTACACGCCGATGCACACTA 60.457 55.000 0.00 0.00 37.32 2.74
4830 5054 6.887626 ATATCAATGTTGCTGATATGCACA 57.112 33.333 4.98 0.00 42.34 4.57
4956 5180 6.888105 TCTCCATCATTTGTACTAGCATTCA 58.112 36.000 0.00 0.00 0.00 2.57
4986 5210 1.490490 GATGCCATGACAAGACCCCTA 59.510 52.381 0.00 0.00 0.00 3.53
5023 5247 2.039613 TGCCTCCAACATCACATGTGTA 59.960 45.455 24.63 12.43 44.07 2.90
5248 5472 7.342284 TGTGGAAGTACCTTAATTTTTGGAACA 59.658 33.333 0.00 0.00 39.86 3.18
5404 5628 5.407049 AGACCAGCCACTACCATATAGAAT 58.593 41.667 0.00 0.00 0.00 2.40
5676 5900 4.455533 ACGGTAATACACGACAAGTACTCA 59.544 41.667 0.00 0.00 0.00 3.41
5914 6139 2.124403 CAGCTGGTGATGGAGCCC 60.124 66.667 5.57 0.00 35.69 5.19
5915 6140 2.611800 AGCTGGTGATGGAGCCCA 60.612 61.111 0.00 0.00 38.19 5.36
6046 6271 5.816449 TCATGTCACGTGCAATTATCAAT 57.184 34.783 11.67 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.003696 GGCTAGCCCCTGACATTATCC 59.996 57.143 24.19 0.00 0.00 2.59
1 2 1.338200 CGGCTAGCCCCTGACATTATC 60.338 57.143 28.09 0.00 0.00 1.75
5 6 0.689745 TTACGGCTAGCCCCTGACAT 60.690 55.000 28.09 7.37 0.00 3.06
6 7 0.905809 TTTACGGCTAGCCCCTGACA 60.906 55.000 28.09 4.54 0.00 3.58
7 8 0.468648 ATTTACGGCTAGCCCCTGAC 59.531 55.000 28.09 1.96 0.00 3.51
8 9 0.468226 CATTTACGGCTAGCCCCTGA 59.532 55.000 28.09 12.27 0.00 3.86
9 10 0.468226 TCATTTACGGCTAGCCCCTG 59.532 55.000 28.09 16.49 0.00 4.45
10 11 1.348036 GATCATTTACGGCTAGCCCCT 59.652 52.381 28.09 15.54 0.00 4.79
11 12 1.610886 GGATCATTTACGGCTAGCCCC 60.611 57.143 28.09 15.55 0.00 5.80
12 13 1.809684 GGATCATTTACGGCTAGCCC 58.190 55.000 28.09 10.15 0.00 5.19
13 14 1.000506 TCGGATCATTTACGGCTAGCC 59.999 52.381 24.75 24.75 0.00 3.93
14 15 2.433868 TCGGATCATTTACGGCTAGC 57.566 50.000 6.04 6.04 0.00 3.42
15 16 2.724690 CGTTCGGATCATTTACGGCTAG 59.275 50.000 0.00 0.00 0.00 3.42
16 17 2.734670 CGTTCGGATCATTTACGGCTA 58.265 47.619 0.00 0.00 0.00 3.93
17 18 1.567504 CGTTCGGATCATTTACGGCT 58.432 50.000 0.00 0.00 0.00 5.52
18 19 0.042448 GCGTTCGGATCATTTACGGC 60.042 55.000 0.00 0.00 33.17 5.68
19 20 1.282817 TGCGTTCGGATCATTTACGG 58.717 50.000 0.00 0.00 33.17 4.02
20 21 2.536130 GGTTGCGTTCGGATCATTTACG 60.536 50.000 0.00 0.00 35.48 3.18
21 22 2.536130 CGGTTGCGTTCGGATCATTTAC 60.536 50.000 0.00 0.00 0.00 2.01
22 23 1.661617 CGGTTGCGTTCGGATCATTTA 59.338 47.619 0.00 0.00 0.00 1.40
23 24 0.446222 CGGTTGCGTTCGGATCATTT 59.554 50.000 0.00 0.00 0.00 2.32
24 25 2.086510 CGGTTGCGTTCGGATCATT 58.913 52.632 0.00 0.00 0.00 2.57
25 26 3.794270 CGGTTGCGTTCGGATCAT 58.206 55.556 0.00 0.00 0.00 2.45
37 38 2.596553 TATTAGGTGGCCGCCGGTTG 62.597 60.000 29.37 0.00 0.00 3.77
38 39 1.912826 TTATTAGGTGGCCGCCGGTT 61.913 55.000 29.37 19.19 0.00 4.44
39 40 1.912826 TTTATTAGGTGGCCGCCGGT 61.913 55.000 29.37 20.46 0.00 5.28
40 41 0.748729 TTTTATTAGGTGGCCGCCGG 60.749 55.000 29.37 0.00 0.00 6.13
41 42 1.096416 TTTTTATTAGGTGGCCGCCG 58.904 50.000 29.37 0.00 0.00 6.46
57 58 7.148205 ACCGTAAGTGACAAACAGTACATTTTT 60.148 33.333 0.00 0.00 0.00 1.94
58 59 6.316890 ACCGTAAGTGACAAACAGTACATTTT 59.683 34.615 0.00 0.00 0.00 1.82
59 60 5.818857 ACCGTAAGTGACAAACAGTACATTT 59.181 36.000 0.00 0.00 0.00 2.32
60 61 5.362263 ACCGTAAGTGACAAACAGTACATT 58.638 37.500 0.00 0.00 0.00 2.71
61 62 4.952460 ACCGTAAGTGACAAACAGTACAT 58.048 39.130 0.00 0.00 0.00 2.29
62 63 4.389890 ACCGTAAGTGACAAACAGTACA 57.610 40.909 0.00 0.00 0.00 2.90
74 75 1.401552 CCATCAATGCCACCGTAAGTG 59.598 52.381 0.00 0.00 46.83 3.16
75 76 1.681780 CCCATCAATGCCACCGTAAGT 60.682 52.381 0.00 0.00 0.00 2.24
76 77 1.024271 CCCATCAATGCCACCGTAAG 58.976 55.000 0.00 0.00 0.00 2.34
77 78 0.329931 ACCCATCAATGCCACCGTAA 59.670 50.000 0.00 0.00 0.00 3.18
78 79 1.205055 TACCCATCAATGCCACCGTA 58.795 50.000 0.00 0.00 0.00 4.02
79 80 0.329931 TTACCCATCAATGCCACCGT 59.670 50.000 0.00 0.00 0.00 4.83
80 81 1.691196 ATTACCCATCAATGCCACCG 58.309 50.000 0.00 0.00 0.00 4.94
81 82 3.706086 AGAAATTACCCATCAATGCCACC 59.294 43.478 0.00 0.00 0.00 4.61
82 83 6.265196 TCATAGAAATTACCCATCAATGCCAC 59.735 38.462 0.00 0.00 0.00 5.01
83 84 6.372104 TCATAGAAATTACCCATCAATGCCA 58.628 36.000 0.00 0.00 0.00 4.92
84 85 6.899393 TCATAGAAATTACCCATCAATGCC 57.101 37.500 0.00 0.00 0.00 4.40
85 86 7.945134 AGTTCATAGAAATTACCCATCAATGC 58.055 34.615 0.00 0.00 0.00 3.56
89 90 9.627123 CCTAAAGTTCATAGAAATTACCCATCA 57.373 33.333 0.00 0.00 0.00 3.07
90 91 9.847224 TCCTAAAGTTCATAGAAATTACCCATC 57.153 33.333 0.00 0.00 0.00 3.51
91 92 9.853177 CTCCTAAAGTTCATAGAAATTACCCAT 57.147 33.333 0.00 0.00 0.00 4.00
92 93 8.832735 ACTCCTAAAGTTCATAGAAATTACCCA 58.167 33.333 0.00 0.00 33.03 4.51
103 104 9.932207 TCACGAAAATTACTCCTAAAGTTCATA 57.068 29.630 0.00 0.00 39.55 2.15
104 105 8.718734 GTCACGAAAATTACTCCTAAAGTTCAT 58.281 33.333 0.00 0.00 39.55 2.57
105 106 7.095940 CGTCACGAAAATTACTCCTAAAGTTCA 60.096 37.037 0.00 0.00 39.55 3.18
106 107 7.095899 ACGTCACGAAAATTACTCCTAAAGTTC 60.096 37.037 2.91 0.00 39.55 3.01
107 108 6.703165 ACGTCACGAAAATTACTCCTAAAGTT 59.297 34.615 2.91 0.00 39.55 2.66
108 109 6.218746 ACGTCACGAAAATTACTCCTAAAGT 58.781 36.000 2.91 0.00 42.33 2.66
109 110 6.701432 ACGTCACGAAAATTACTCCTAAAG 57.299 37.500 2.91 0.00 0.00 1.85
110 111 9.853555 TTATACGTCACGAAAATTACTCCTAAA 57.146 29.630 2.91 0.00 0.00 1.85
111 112 9.289303 GTTATACGTCACGAAAATTACTCCTAA 57.711 33.333 2.91 0.00 0.00 2.69
112 113 8.677300 AGTTATACGTCACGAAAATTACTCCTA 58.323 33.333 2.91 0.00 0.00 2.94
113 114 7.542025 AGTTATACGTCACGAAAATTACTCCT 58.458 34.615 2.91 0.00 0.00 3.69
114 115 7.746526 AGTTATACGTCACGAAAATTACTCC 57.253 36.000 2.91 0.00 0.00 3.85
115 116 9.708222 TCTAGTTATACGTCACGAAAATTACTC 57.292 33.333 2.91 0.00 0.00 2.59
118 119 9.013490 GCTTCTAGTTATACGTCACGAAAATTA 57.987 33.333 2.91 0.00 0.00 1.40
119 120 7.253552 CGCTTCTAGTTATACGTCACGAAAATT 60.254 37.037 2.91 0.00 0.00 1.82
120 121 6.195983 CGCTTCTAGTTATACGTCACGAAAAT 59.804 38.462 2.91 0.00 0.00 1.82
121 122 5.509272 CGCTTCTAGTTATACGTCACGAAAA 59.491 40.000 2.91 0.00 0.00 2.29
122 123 5.023920 CGCTTCTAGTTATACGTCACGAAA 58.976 41.667 2.91 0.00 0.00 3.46
123 124 4.329801 TCGCTTCTAGTTATACGTCACGAA 59.670 41.667 2.91 0.00 0.00 3.85
124 125 3.865164 TCGCTTCTAGTTATACGTCACGA 59.135 43.478 2.91 0.00 0.00 4.35
125 126 3.958767 GTCGCTTCTAGTTATACGTCACG 59.041 47.826 0.00 0.00 0.00 4.35
126 127 3.958767 CGTCGCTTCTAGTTATACGTCAC 59.041 47.826 0.00 0.00 0.00 3.67
127 128 3.544834 GCGTCGCTTCTAGTTATACGTCA 60.545 47.826 10.68 0.00 0.00 4.35
128 129 2.963478 GCGTCGCTTCTAGTTATACGTC 59.037 50.000 10.68 0.00 0.00 4.34
129 130 2.611292 AGCGTCGCTTCTAGTTATACGT 59.389 45.455 15.47 0.00 33.89 3.57
130 131 3.250464 AGCGTCGCTTCTAGTTATACG 57.750 47.619 15.47 0.00 33.89 3.06
142 143 8.193250 TCTTTTTCTAATAATAAAGCGTCGCT 57.807 30.769 15.47 15.47 42.56 4.93
143 144 8.989160 ATCTTTTTCTAATAATAAAGCGTCGC 57.011 30.769 9.80 9.80 0.00 5.19
277 278 5.245531 TGTGCTGGTCATAAGTAGAAAAGG 58.754 41.667 0.00 0.00 0.00 3.11
350 351 9.414295 GAGTTACACGTATTTGGCATATATACA 57.586 33.333 0.97 0.00 0.00 2.29
351 352 9.414295 TGAGTTACACGTATTTGGCATATATAC 57.586 33.333 0.97 3.55 0.00 1.47
353 354 9.502091 AATGAGTTACACGTATTTGGCATATAT 57.498 29.630 0.97 0.00 0.00 0.86
354 355 8.896320 AATGAGTTACACGTATTTGGCATATA 57.104 30.769 0.00 0.00 0.00 0.86
355 356 7.801716 AATGAGTTACACGTATTTGGCATAT 57.198 32.000 0.00 0.00 0.00 1.78
365 366 9.701098 AAATACTGAGAAAATGAGTTACACGTA 57.299 29.630 0.00 0.00 0.00 3.57
405 407 7.014134 TCTCAAACAAAGCCATAGAAAATGTCA 59.986 33.333 0.00 0.00 0.00 3.58
417 419 5.816777 CCTCAAATTTTCTCAAACAAAGCCA 59.183 36.000 0.00 0.00 0.00 4.75
420 422 7.254084 CGAACCCTCAAATTTTCTCAAACAAAG 60.254 37.037 0.00 0.00 0.00 2.77
431 433 6.096282 TCTGAAAAGACGAACCCTCAAATTTT 59.904 34.615 0.00 0.00 0.00 1.82
434 436 4.714632 TCTGAAAAGACGAACCCTCAAAT 58.285 39.130 0.00 0.00 0.00 2.32
515 520 0.681243 AGGAGAAAGAAATGGGCCGC 60.681 55.000 0.00 0.00 0.00 6.53
570 578 0.397187 TCGGGTGGTTTGAATTCGGA 59.603 50.000 0.04 0.00 0.00 4.55
571 579 0.519961 GTCGGGTGGTTTGAATTCGG 59.480 55.000 0.04 0.00 0.00 4.30
593 601 2.668550 GTGGCACTCGGGTTGGTC 60.669 66.667 11.13 0.00 0.00 4.02
601 609 0.874175 TTTCGTGTCAGTGGCACTCG 60.874 55.000 24.48 18.09 34.91 4.18
650 658 4.120755 GGGAGCAGAGCAAGGGGG 62.121 72.222 0.00 0.00 0.00 5.40
651 659 4.120755 GGGGAGCAGAGCAAGGGG 62.121 72.222 0.00 0.00 0.00 4.79
652 660 3.013932 AGGGGAGCAGAGCAAGGG 61.014 66.667 0.00 0.00 0.00 3.95
653 661 2.588989 GAGGGGAGCAGAGCAAGG 59.411 66.667 0.00 0.00 0.00 3.61
654 662 2.588989 GGAGGGGAGCAGAGCAAG 59.411 66.667 0.00 0.00 0.00 4.01
655 663 3.393970 CGGAGGGGAGCAGAGCAA 61.394 66.667 0.00 0.00 0.00 3.91
808 834 0.757188 AGGAGGAATCGACCGAGCAT 60.757 55.000 0.00 0.00 34.73 3.79
810 836 1.360911 GAGGAGGAATCGACCGAGC 59.639 63.158 0.00 0.00 34.73 5.03
811 837 1.649815 CGAGGAGGAATCGACCGAG 59.350 63.158 0.00 0.00 42.76 4.63
812 838 1.822613 CCGAGGAGGAATCGACCGA 60.823 63.158 0.00 0.00 45.00 4.69
813 839 2.722487 CCGAGGAGGAATCGACCG 59.278 66.667 0.00 0.00 45.00 4.79
814 840 2.417936 GCCGAGGAGGAATCGACC 59.582 66.667 0.00 0.00 45.00 4.79
815 841 2.026301 CGCCGAGGAGGAATCGAC 59.974 66.667 0.00 0.00 45.00 4.20
818 844 1.084370 CACAACGCCGAGGAGGAATC 61.084 60.000 0.00 0.00 45.00 2.52
819 845 1.079127 CACAACGCCGAGGAGGAAT 60.079 57.895 0.00 0.00 45.00 3.01
820 846 2.342279 CACAACGCCGAGGAGGAA 59.658 61.111 0.00 0.00 45.00 3.36
821 847 4.373116 GCACAACGCCGAGGAGGA 62.373 66.667 0.00 0.00 45.00 3.71
822 848 4.379243 AGCACAACGCCGAGGAGG 62.379 66.667 0.00 0.00 44.04 4.30
906 986 1.315690 CATCATCATGTCCCAGCACC 58.684 55.000 0.00 0.00 0.00 5.01
917 997 1.069823 GAGCGTGTCCTCCATCATCAT 59.930 52.381 0.00 0.00 0.00 2.45
1041 1143 1.278985 TCCACTATGCTCCACACAAGG 59.721 52.381 0.00 0.00 0.00 3.61
1063 1165 3.793144 CGCACAAGAGAAGCCGGC 61.793 66.667 21.89 21.89 0.00 6.13
1329 1434 3.370840 TTCCAGAGCCTTGTATGCATT 57.629 42.857 3.54 0.00 0.00 3.56
1533 1638 6.654161 GCATGATTATTCTGGATAGCTCTTGT 59.346 38.462 0.00 0.00 0.00 3.16
1567 1673 3.854459 CTTCGCCTTCGCCTTCGC 61.854 66.667 0.00 0.00 35.26 4.70
1568 1674 3.188786 CCTTCGCCTTCGCCTTCG 61.189 66.667 0.00 0.00 35.26 3.79
1569 1675 3.500642 GCCTTCGCCTTCGCCTTC 61.501 66.667 0.00 0.00 35.26 3.46
1577 1683 4.379243 CAGTGTCCGCCTTCGCCT 62.379 66.667 0.00 0.00 0.00 5.52
1746 1852 5.634896 GTTGGATTTGCTTCATCTACACAG 58.365 41.667 0.00 0.00 0.00 3.66
1800 1906 1.323412 AGGCACATCTAGCTCGGTAG 58.677 55.000 0.00 0.00 0.00 3.18
1867 1973 9.566432 CCAAATCTCCTTAGCACTCTTATATTT 57.434 33.333 0.00 0.00 0.00 1.40
2212 2325 2.351276 CCCCCTCGTGACTTTGGG 59.649 66.667 0.00 0.00 39.37 4.12
2235 2348 0.388659 TTTTGCTTGAGCGTGGCAAT 59.611 45.000 9.39 0.00 43.86 3.56
2301 2414 3.239587 TGGTCGTTTTCATCATCGCTA 57.760 42.857 0.00 0.00 0.00 4.26
2398 2512 4.949856 TCTTGTTTCACAGCCTTTCTTTCT 59.050 37.500 0.00 0.00 0.00 2.52
2411 2525 8.612619 TGTCAGAGAAATTACTTCTTGTTTCAC 58.387 33.333 0.00 0.00 44.82 3.18
2508 2622 3.402628 TTCTTGTCCTCTTTCTTCGGG 57.597 47.619 0.00 0.00 0.00 5.14
2511 2625 6.426633 CCTCTTCTTTCTTGTCCTCTTTCTTC 59.573 42.308 0.00 0.00 0.00 2.87
2517 2631 4.746466 TCTCCTCTTCTTTCTTGTCCTCT 58.254 43.478 0.00 0.00 0.00 3.69
2532 2649 4.411927 TCTTGTACTTGCTCTTCTCCTCT 58.588 43.478 0.00 0.00 0.00 3.69
2533 2650 4.381505 CCTCTTGTACTTGCTCTTCTCCTC 60.382 50.000 0.00 0.00 0.00 3.71
2557 2674 2.102252 TGCCCTTGTTGTTGAATGGTTC 59.898 45.455 0.00 0.00 0.00 3.62
2592 2709 0.178961 ACAAACCTTTCTGCCCCTCC 60.179 55.000 0.00 0.00 0.00 4.30
2608 2725 5.009610 GGTACAAGATGGAGCAAAGAAACAA 59.990 40.000 0.00 0.00 0.00 2.83
2621 2738 4.771114 TGGAATGGTAGGTACAAGATGG 57.229 45.455 0.00 0.00 0.00 3.51
2632 2749 6.266103 ACTTCATGGCAAATATGGAATGGTAG 59.734 38.462 0.00 0.00 0.00 3.18
2634 2751 4.964262 ACTTCATGGCAAATATGGAATGGT 59.036 37.500 0.00 0.00 0.00 3.55
2640 2757 7.448161 TCATTACCTACTTCATGGCAAATATGG 59.552 37.037 0.00 0.00 0.00 2.74
2692 2810 2.103771 CCTGAATCCATGTCAGATCGGT 59.896 50.000 12.20 0.00 44.44 4.69
2769 2938 5.707931 TCAACGCATTAAAATCATCTGCAA 58.292 33.333 0.00 0.00 33.13 4.08
2939 3118 8.386606 GCTCAGTAATCAAATTAGACTCAAGTG 58.613 37.037 0.00 0.00 0.00 3.16
3089 3304 7.903431 GTCCATACGACTGTTTTGCTAATTAAG 59.097 37.037 0.00 0.00 38.57 1.85
3146 3362 0.252479 AGTCAGAGCAGAATGGCAGG 59.748 55.000 0.00 0.00 35.86 4.85
3147 3363 1.066358 TCAGTCAGAGCAGAATGGCAG 60.066 52.381 0.00 0.00 34.59 4.85
3149 3365 1.654317 CTCAGTCAGAGCAGAATGGC 58.346 55.000 2.33 0.00 37.59 4.40
3358 3576 4.801891 AGTACTTTCGCGTACTTTCATCA 58.198 39.130 5.77 0.00 45.76 3.07
3435 3653 6.775629 TGCAAATTTTCCTAGGACTAAACTGT 59.224 34.615 12.22 0.00 0.00 3.55
3737 3961 3.890756 TCATCTGCCTTGTGTTGTCAAAT 59.109 39.130 0.00 0.00 0.00 2.32
3920 4144 2.450886 TGGATGCTCTACCCTGGATCTA 59.549 50.000 0.00 0.00 32.71 1.98
4572 4796 5.577835 TGAAATAATTTAGTGTGCATCGGC 58.422 37.500 0.00 0.00 41.68 5.54
4830 5054 5.192927 TCAGACACAAGACTTGGTGAAAAT 58.807 37.500 19.16 0.49 38.38 1.82
4956 5180 2.158914 TGTCATGGCATCTAATCGCACT 60.159 45.455 0.00 0.00 0.00 4.40
4986 5210 7.093377 TGTTGGAGGCAAGAAAATAAATATGCT 60.093 33.333 0.00 0.00 34.37 3.79
5248 5472 5.418840 CCTTGGTCCTACATAGCAACATTTT 59.581 40.000 0.00 0.00 31.53 1.82
5404 5628 7.985184 CCAGGTTGTAGTATGAAATGCTAACTA 59.015 37.037 0.00 0.00 43.19 2.24
5676 5900 5.590259 ACTTGTTATGTCAGCTCTTGTTTGT 59.410 36.000 0.00 0.00 0.00 2.83
5914 6139 2.167693 TGGACTACGCCTTACCAGAATG 59.832 50.000 0.00 0.00 0.00 2.67
5915 6140 2.463752 TGGACTACGCCTTACCAGAAT 58.536 47.619 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.