Multiple sequence alignment - TraesCS7A01G203400

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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 TraesCS7A01G203400 chr7A 100.000 2637 0 0 1 2637 165438651 165441287 0.000000e+00 4870.0
1 TraesCS7A01G203400 chr7A 87.222 540 67 2 1038 1576 388088945 388089483 4.820000e-172 614.0
2 TraesCS7A01G203400 chr7A 81.266 379 51 16 485 858 552160727 552160364 3.320000e-74 289.0
3 TraesCS7A01G203400 chr7A 90.094 212 12 8 1 207 507650632 507650839 1.560000e-67 267.0
4 TraesCS7A01G203400 chr7A 90.123 81 8 0 1535 1615 238798769 238798689 3.590000e-19 106.0
5 TraesCS7A01G203400 chr7A 88.889 81 8 1 1536 1615 514978523 514978443 6.010000e-17 99.0
6 TraesCS7A01G203400 chr6A 96.641 2441 80 2 198 2637 221239122 221236683 0.000000e+00 4052.0
7 TraesCS7A01G203400 chr6A 95.494 1620 72 1 197 1815 221246698 221245079 0.000000e+00 2586.0
8 TraesCS7A01G203400 chr6A 95.470 287 12 1 198 484 322217542 322217257 8.600000e-125 457.0
9 TraesCS7A01G203400 chr6A 94.845 291 15 0 198 488 587620244 587619954 3.090000e-124 455.0
10 TraesCS7A01G203400 chr6A 94.218 294 15 2 195 488 249839058 249839349 5.180000e-122 448.0
11 TraesCS7A01G203400 chr6A 84.890 364 45 8 485 842 317330196 317330555 2.500000e-95 359.0
12 TraesCS7A01G203400 chr6A 85.100 349 42 8 501 842 317343232 317343577 5.400000e-92 348.0
13 TraesCS7A01G203400 chr6A 93.722 223 13 1 1041 1262 239976535 239976757 1.510000e-87 333.0
14 TraesCS7A01G203400 chr6A 91.905 210 10 7 1 207 105555892 105556097 1.190000e-73 287.0
15 TraesCS7A01G203400 chr5A 88.980 980 83 23 1671 2637 121100272 121099305 0.000000e+00 1188.0
16 TraesCS7A01G203400 chr5A 94.502 291 16 0 198 488 182521298 182521008 1.440000e-122 449.0
17 TraesCS7A01G203400 chr5A 91.542 201 11 6 1 197 168151464 168151662 3.340000e-69 272.0
18 TraesCS7A01G203400 chr3A 89.038 967 86 18 1680 2637 294421205 294420250 0.000000e+00 1181.0
19 TraesCS7A01G203400 chr3A 88.175 981 95 18 1668 2637 294438746 294439716 0.000000e+00 1149.0
20 TraesCS7A01G203400 chr3A 92.703 370 27 0 1038 1407 116393283 116392914 3.860000e-148 534.0
21 TraesCS7A01G203400 chr3A 90.270 370 36 0 1038 1407 116401108 116400739 3.950000e-133 484.0
22 TraesCS7A01G203400 chr3A 91.727 278 23 0 485 762 410571603 410571880 1.140000e-103 387.0
23 TraesCS7A01G203400 chr3A 91.367 278 24 0 485 762 197093327 197093050 5.330000e-102 381.0
24 TraesCS7A01G203400 chr3A 83.602 372 50 9 485 848 393639489 393639121 3.250000e-89 339.0
25 TraesCS7A01G203400 chr3A 92.481 133 9 1 908 1040 116393455 116393324 3.460000e-44 189.0
26 TraesCS7A01G203400 chr3A 92.481 133 9 1 908 1040 116401280 116401149 3.460000e-44 189.0
27 TraesCS7A01G203400 chr3A 89.157 83 6 3 1535 1615 262691416 262691335 1.670000e-17 100.0
28 TraesCS7A01G203400 chr3A 88.889 81 9 0 1535 1615 271518906 271518986 1.670000e-17 100.0
29 TraesCS7A01G203400 chr2A 87.584 1039 104 24 1612 2637 317557613 317556587 0.000000e+00 1181.0
30 TraesCS7A01G203400 chr2A 88.493 982 95 18 1666 2637 548001356 548002329 0.000000e+00 1171.0
31 TraesCS7A01G203400 chr2A 87.342 1027 106 22 1623 2637 317564885 317563871 0.000000e+00 1155.0
32 TraesCS7A01G203400 chr2A 90.094 212 12 7 1 207 113349407 113349200 1.560000e-67 267.0
33 TraesCS7A01G203400 chr2A 91.000 200 14 3 1 196 417251694 417251893 1.560000e-67 267.0
34 TraesCS7A01G203400 chr1A 87.805 984 94 23 1668 2637 52322854 52323825 0.000000e+00 1129.0
35 TraesCS7A01G203400 chr1A 87.602 984 96 24 1668 2637 52315099 52316070 0.000000e+00 1118.0
36 TraesCS7A01G203400 chr1A 82.368 380 53 11 528 905 14205865 14205498 4.240000e-83 318.0
37 TraesCS7A01G203400 chr1A 91.626 203 11 4 1 197 351498447 351498649 2.590000e-70 276.0
38 TraesCS7A01G203400 chr1A 91.457 199 15 2 1 197 378254092 378253894 3.340000e-69 272.0
39 TraesCS7A01G203400 chr1A 90.741 162 14 1 1395 1555 519581962 519581801 5.720000e-52 215.0
40 TraesCS7A01G203400 chr1A 90.184 163 15 1 1395 1556 267813034 267813196 7.390000e-51 211.0
41 TraesCS7A01G203400 chr1A 90.123 162 14 2 1401 1561 519589867 519589707 2.660000e-50 209.0
42 TraesCS7A01G203400 chr4A 87.572 523 58 2 1039 1561 243330829 243330314 1.350000e-167 599.0
43 TraesCS7A01G203400 chr4A 86.137 541 73 2 1038 1577 243322741 243322202 1.360000e-162 582.0
44 TraesCS7A01G203400 chr4A 95.918 294 12 0 195 488 199446497 199446790 6.600000e-131 477.0
45 TraesCS7A01G203400 chr4A 95.238 294 14 0 195 488 199439511 199439804 1.430000e-127 466.0
46 TraesCS7A01G203400 chr4A 94.218 294 17 0 195 488 625903518 625903811 1.440000e-122 449.0
47 TraesCS7A01G203400 chr4A 84.483 348 39 9 485 823 181612150 181612491 1.960000e-86 329.0
48 TraesCS7A01G203400 chr4A 91.133 203 12 4 1 197 142015190 142014988 1.200000e-68 270.0
49 TraesCS7A01G203400 chr4A 89.720 214 12 8 1 207 139075868 139076078 5.600000e-67 265.0
50 TraesCS7A01G203400 chr4A 92.481 133 9 1 908 1040 243322913 243322782 3.460000e-44 189.0
51 TraesCS7A01G203400 chr4A 85.938 64 8 1 942 1004 19977587 19977650 1.690000e-07 67.6
52 TraesCS7A01G203400 chr4D 80.548 365 57 11 534 894 266279591 266279237 4.330000e-68 268.0
53 TraesCS7A01G203400 chrUn 87.097 124 16 0 490 613 429590051 429589928 9.840000e-30 141.0


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 TraesCS7A01G203400 chr7A 165438651 165441287 2636 False 4870.0 4870 100.0000 1 2637 1 chr7A.!!$F1 2636
1 TraesCS7A01G203400 chr7A 388088945 388089483 538 False 614.0 614 87.2220 1038 1576 1 chr7A.!!$F2 538
2 TraesCS7A01G203400 chr6A 221236683 221239122 2439 True 4052.0 4052 96.6410 198 2637 1 chr6A.!!$R1 2439
3 TraesCS7A01G203400 chr6A 221245079 221246698 1619 True 2586.0 2586 95.4940 197 1815 1 chr6A.!!$R2 1618
4 TraesCS7A01G203400 chr5A 121099305 121100272 967 True 1188.0 1188 88.9800 1671 2637 1 chr5A.!!$R1 966
5 TraesCS7A01G203400 chr3A 294420250 294421205 955 True 1181.0 1181 89.0380 1680 2637 1 chr3A.!!$R3 957
6 TraesCS7A01G203400 chr3A 294438746 294439716 970 False 1149.0 1149 88.1750 1668 2637 1 chr3A.!!$F2 969
7 TraesCS7A01G203400 chr3A 116392914 116393455 541 True 361.5 534 92.5920 908 1407 2 chr3A.!!$R5 499
8 TraesCS7A01G203400 chr3A 116400739 116401280 541 True 336.5 484 91.3755 908 1407 2 chr3A.!!$R6 499
9 TraesCS7A01G203400 chr2A 317556587 317557613 1026 True 1181.0 1181 87.5840 1612 2637 1 chr2A.!!$R2 1025
10 TraesCS7A01G203400 chr2A 548001356 548002329 973 False 1171.0 1171 88.4930 1666 2637 1 chr2A.!!$F2 971
11 TraesCS7A01G203400 chr2A 317563871 317564885 1014 True 1155.0 1155 87.3420 1623 2637 1 chr2A.!!$R3 1014
12 TraesCS7A01G203400 chr1A 52322854 52323825 971 False 1129.0 1129 87.8050 1668 2637 1 chr1A.!!$F2 969
13 TraesCS7A01G203400 chr1A 52315099 52316070 971 False 1118.0 1118 87.6020 1668 2637 1 chr1A.!!$F1 969
14 TraesCS7A01G203400 chr4A 243330314 243330829 515 True 599.0 599 87.5720 1039 1561 1 chr4A.!!$R2 522
15 TraesCS7A01G203400 chr4A 243322202 243322913 711 True 385.5 582 89.3090 908 1577 2 chr4A.!!$R3 669

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
124 125 0.174617 GAGTTCAGGCCTTCTCGGAG 59.825 60.0 0.0 0.0 33.16 4.63 F
1415 1460 0.037605 CGCTTCGACCTACCCTGTTT 60.038 55.0 0.0 0.0 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1546 1591 0.108186 CGTATGGAGGCAGAGCAACA 60.108 55.0 0.00 0.00 0.00 3.33 R
2546 2606 0.511221 CCTCACAAACGCGGTGTTAG 59.489 55.0 12.47 14.48 40.84 2.34 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
25 26 3.276846 GCGCCAACTGTCGTGGTT 61.277 61.111 0.00 0.00 0.00 3.67
26 27 2.935955 CGCCAACTGTCGTGGTTC 59.064 61.111 0.84 0.00 0.00 3.62
27 28 1.594293 CGCCAACTGTCGTGGTTCT 60.594 57.895 0.84 0.00 0.00 3.01
28 29 0.319211 CGCCAACTGTCGTGGTTCTA 60.319 55.000 0.84 0.00 0.00 2.10
29 30 1.870580 CGCCAACTGTCGTGGTTCTAA 60.871 52.381 0.84 0.00 0.00 2.10
30 31 2.423577 GCCAACTGTCGTGGTTCTAAT 58.576 47.619 0.84 0.00 0.00 1.73
31 32 3.592059 GCCAACTGTCGTGGTTCTAATA 58.408 45.455 0.84 0.00 0.00 0.98
32 33 3.370061 GCCAACTGTCGTGGTTCTAATAC 59.630 47.826 0.84 0.00 0.00 1.89
33 34 4.817517 CCAACTGTCGTGGTTCTAATACT 58.182 43.478 0.00 0.00 0.00 2.12
34 35 4.625742 CCAACTGTCGTGGTTCTAATACTG 59.374 45.833 0.00 0.00 0.00 2.74
35 36 5.466819 CAACTGTCGTGGTTCTAATACTGA 58.533 41.667 0.00 0.00 0.00 3.41
36 37 5.056894 ACTGTCGTGGTTCTAATACTGAC 57.943 43.478 0.00 0.00 0.00 3.51
37 38 4.521639 ACTGTCGTGGTTCTAATACTGACA 59.478 41.667 0.00 0.00 34.32 3.58
38 39 5.055642 TGTCGTGGTTCTAATACTGACAG 57.944 43.478 0.00 0.00 31.99 3.51
39 40 4.521639 TGTCGTGGTTCTAATACTGACAGT 59.478 41.667 13.68 13.68 31.99 3.55
40 41 5.706833 TGTCGTGGTTCTAATACTGACAGTA 59.293 40.000 17.43 17.43 34.82 2.74
41 42 6.128090 TGTCGTGGTTCTAATACTGACAGTAG 60.128 42.308 19.60 9.19 33.66 2.57
42 43 6.093219 GTCGTGGTTCTAATACTGACAGTAGA 59.907 42.308 19.60 11.31 33.66 2.59
43 44 6.656270 TCGTGGTTCTAATACTGACAGTAGAA 59.344 38.462 19.60 16.10 33.66 2.10
44 45 7.338703 TCGTGGTTCTAATACTGACAGTAGAAT 59.661 37.037 19.60 11.31 37.41 2.40
45 46 7.432545 CGTGGTTCTAATACTGACAGTAGAATG 59.567 40.741 19.60 10.31 37.41 2.67
46 47 7.222999 GTGGTTCTAATACTGACAGTAGAATGC 59.777 40.741 19.60 9.22 37.41 3.56
47 48 6.418226 GGTTCTAATACTGACAGTAGAATGCG 59.582 42.308 19.60 6.23 37.41 4.73
48 49 6.073327 TCTAATACTGACAGTAGAATGCGG 57.927 41.667 19.60 6.77 33.66 5.69
49 50 5.826208 TCTAATACTGACAGTAGAATGCGGA 59.174 40.000 19.60 8.60 33.66 5.54
50 51 2.949451 ACTGACAGTAGAATGCGGAG 57.051 50.000 6.24 0.00 0.00 4.63
51 52 2.171840 ACTGACAGTAGAATGCGGAGT 58.828 47.619 6.24 0.00 0.00 3.85
52 53 3.353557 ACTGACAGTAGAATGCGGAGTA 58.646 45.455 6.24 0.00 0.00 2.59
53 54 3.378742 ACTGACAGTAGAATGCGGAGTAG 59.621 47.826 6.24 0.00 0.00 2.57
54 55 2.688446 TGACAGTAGAATGCGGAGTAGG 59.312 50.000 0.00 0.00 0.00 3.18
55 56 2.688958 GACAGTAGAATGCGGAGTAGGT 59.311 50.000 0.00 0.00 0.00 3.08
56 57 3.881688 GACAGTAGAATGCGGAGTAGGTA 59.118 47.826 0.00 0.00 0.00 3.08
57 58 4.471548 ACAGTAGAATGCGGAGTAGGTAT 58.528 43.478 0.00 0.00 0.00 2.73
58 59 4.278669 ACAGTAGAATGCGGAGTAGGTATG 59.721 45.833 0.00 0.00 0.00 2.39
59 60 4.519350 CAGTAGAATGCGGAGTAGGTATGA 59.481 45.833 0.00 0.00 0.00 2.15
60 61 4.762765 AGTAGAATGCGGAGTAGGTATGAG 59.237 45.833 0.00 0.00 0.00 2.90
61 62 2.894126 AGAATGCGGAGTAGGTATGAGG 59.106 50.000 0.00 0.00 0.00 3.86
62 63 2.677542 ATGCGGAGTAGGTATGAGGA 57.322 50.000 0.00 0.00 0.00 3.71
63 64 1.982660 TGCGGAGTAGGTATGAGGAG 58.017 55.000 0.00 0.00 0.00 3.69
64 65 1.249407 GCGGAGTAGGTATGAGGAGG 58.751 60.000 0.00 0.00 0.00 4.30
65 66 1.249407 CGGAGTAGGTATGAGGAGGC 58.751 60.000 0.00 0.00 0.00 4.70
66 67 1.478837 CGGAGTAGGTATGAGGAGGCA 60.479 57.143 0.00 0.00 0.00 4.75
67 68 2.679082 GGAGTAGGTATGAGGAGGCAA 58.321 52.381 0.00 0.00 0.00 4.52
68 69 2.630580 GGAGTAGGTATGAGGAGGCAAG 59.369 54.545 0.00 0.00 0.00 4.01
69 70 3.567397 GAGTAGGTATGAGGAGGCAAGA 58.433 50.000 0.00 0.00 0.00 3.02
70 71 4.156477 GAGTAGGTATGAGGAGGCAAGAT 58.844 47.826 0.00 0.00 0.00 2.40
71 72 4.156477 AGTAGGTATGAGGAGGCAAGATC 58.844 47.826 0.00 0.00 0.00 2.75
72 73 2.334023 AGGTATGAGGAGGCAAGATCC 58.666 52.381 0.00 0.00 37.07 3.36
77 78 3.966001 AGGAGGCAAGATCCTAGCT 57.034 52.632 0.00 0.00 45.58 3.32
79 80 3.558608 AGGAGGCAAGATCCTAGCTAT 57.441 47.619 0.00 0.00 45.58 2.97
80 81 3.172339 AGGAGGCAAGATCCTAGCTATG 58.828 50.000 0.00 0.00 45.58 2.23
81 82 2.235898 GGAGGCAAGATCCTAGCTATGG 59.764 54.545 0.00 0.00 36.38 2.74
82 83 3.169099 GAGGCAAGATCCTAGCTATGGA 58.831 50.000 12.51 12.51 36.38 3.41
83 84 3.172339 AGGCAAGATCCTAGCTATGGAG 58.828 50.000 14.62 5.47 36.99 3.86
84 85 2.903135 GGCAAGATCCTAGCTATGGAGT 59.097 50.000 14.62 5.18 36.99 3.85
85 86 4.090090 GGCAAGATCCTAGCTATGGAGTA 58.910 47.826 14.62 0.00 36.99 2.59
86 87 4.159506 GGCAAGATCCTAGCTATGGAGTAG 59.840 50.000 14.62 7.96 36.99 2.57
87 88 4.770010 GCAAGATCCTAGCTATGGAGTAGT 59.230 45.833 14.62 1.99 36.99 2.73
88 89 5.245075 GCAAGATCCTAGCTATGGAGTAGTT 59.755 44.000 14.62 1.70 36.99 2.24
89 90 6.686630 CAAGATCCTAGCTATGGAGTAGTTG 58.313 44.000 14.62 11.42 36.99 3.16
90 91 5.959512 AGATCCTAGCTATGGAGTAGTTGT 58.040 41.667 14.62 0.59 36.99 3.32
91 92 7.092748 AGATCCTAGCTATGGAGTAGTTGTA 57.907 40.000 14.62 0.00 36.99 2.41
92 93 6.943718 AGATCCTAGCTATGGAGTAGTTGTAC 59.056 42.308 14.62 0.00 36.99 2.90
93 94 6.009908 TCCTAGCTATGGAGTAGTTGTACA 57.990 41.667 7.59 0.00 32.72 2.90
94 95 6.611785 TCCTAGCTATGGAGTAGTTGTACAT 58.388 40.000 0.00 0.00 32.72 2.29
95 96 7.752638 TCCTAGCTATGGAGTAGTTGTACATA 58.247 38.462 0.00 0.00 32.72 2.29
96 97 7.664731 TCCTAGCTATGGAGTAGTTGTACATAC 59.335 40.741 0.00 0.00 32.72 2.39
97 98 6.315091 AGCTATGGAGTAGTTGTACATACG 57.685 41.667 0.00 0.00 32.72 3.06
98 99 6.060136 AGCTATGGAGTAGTTGTACATACGA 58.940 40.000 0.00 0.00 32.72 3.43
99 100 6.205076 AGCTATGGAGTAGTTGTACATACGAG 59.795 42.308 0.00 0.00 32.72 4.18
100 101 6.017275 GCTATGGAGTAGTTGTACATACGAGT 60.017 42.308 0.00 0.00 32.72 4.18
101 102 6.770746 ATGGAGTAGTTGTACATACGAGTT 57.229 37.500 0.00 0.00 0.00 3.01
102 103 6.579666 TGGAGTAGTTGTACATACGAGTTT 57.420 37.500 0.00 0.00 0.00 2.66
103 104 7.686438 TGGAGTAGTTGTACATACGAGTTTA 57.314 36.000 0.00 0.00 0.00 2.01
104 105 8.284945 TGGAGTAGTTGTACATACGAGTTTAT 57.715 34.615 0.00 0.00 0.00 1.40
105 106 8.186163 TGGAGTAGTTGTACATACGAGTTTATG 58.814 37.037 0.00 0.00 35.82 1.90
106 107 8.400947 GGAGTAGTTGTACATACGAGTTTATGA 58.599 37.037 0.00 0.00 34.14 2.15
107 108 9.435802 GAGTAGTTGTACATACGAGTTTATGAG 57.564 37.037 0.00 0.00 34.14 2.90
108 109 8.954350 AGTAGTTGTACATACGAGTTTATGAGT 58.046 33.333 0.00 0.00 34.14 3.41
109 110 9.565213 GTAGTTGTACATACGAGTTTATGAGTT 57.435 33.333 0.00 0.00 34.14 3.01
110 111 8.684973 AGTTGTACATACGAGTTTATGAGTTC 57.315 34.615 0.00 0.00 34.14 3.01
111 112 8.301720 AGTTGTACATACGAGTTTATGAGTTCA 58.698 33.333 0.00 0.00 34.14 3.18
112 113 8.584600 GTTGTACATACGAGTTTATGAGTTCAG 58.415 37.037 0.00 0.00 34.14 3.02
113 114 7.255569 TGTACATACGAGTTTATGAGTTCAGG 58.744 38.462 0.00 0.00 34.14 3.86
114 115 5.109903 ACATACGAGTTTATGAGTTCAGGC 58.890 41.667 0.00 0.00 34.14 4.85
115 116 2.973945 ACGAGTTTATGAGTTCAGGCC 58.026 47.619 0.00 0.00 0.00 5.19
116 117 2.567615 ACGAGTTTATGAGTTCAGGCCT 59.432 45.455 0.00 0.00 0.00 5.19
117 118 3.008049 ACGAGTTTATGAGTTCAGGCCTT 59.992 43.478 0.00 0.00 0.00 4.35
118 119 3.619038 CGAGTTTATGAGTTCAGGCCTTC 59.381 47.826 0.00 0.00 0.00 3.46
119 120 4.621747 CGAGTTTATGAGTTCAGGCCTTCT 60.622 45.833 0.00 1.19 0.00 2.85
120 121 4.837972 AGTTTATGAGTTCAGGCCTTCTC 58.162 43.478 0.00 12.36 0.00 2.87
121 122 3.526931 TTATGAGTTCAGGCCTTCTCG 57.473 47.619 0.00 0.00 0.00 4.04
122 123 0.539051 ATGAGTTCAGGCCTTCTCGG 59.461 55.000 0.00 0.00 0.00 4.63
123 124 0.541998 TGAGTTCAGGCCTTCTCGGA 60.542 55.000 0.00 0.00 33.16 4.55
124 125 0.174617 GAGTTCAGGCCTTCTCGGAG 59.825 60.000 0.00 0.00 33.16 4.63
125 126 1.219393 GTTCAGGCCTTCTCGGAGG 59.781 63.158 0.00 0.00 39.93 4.30
126 127 1.078528 TTCAGGCCTTCTCGGAGGA 59.921 57.895 0.00 0.00 39.25 3.71
127 128 0.544357 TTCAGGCCTTCTCGGAGGAA 60.544 55.000 0.00 0.00 39.25 3.36
128 129 0.972983 TCAGGCCTTCTCGGAGGAAG 60.973 60.000 0.00 7.54 39.25 3.46
129 130 1.079438 AGGCCTTCTCGGAGGAAGT 59.921 57.895 0.00 0.00 40.56 3.01
130 131 0.335361 AGGCCTTCTCGGAGGAAGTA 59.665 55.000 0.00 0.00 40.56 2.24
131 132 1.192428 GGCCTTCTCGGAGGAAGTAA 58.808 55.000 4.96 0.00 40.56 2.24
132 133 1.763545 GGCCTTCTCGGAGGAAGTAAT 59.236 52.381 4.96 0.00 40.56 1.89
133 134 2.963782 GGCCTTCTCGGAGGAAGTAATA 59.036 50.000 4.96 0.00 40.56 0.98
134 135 3.006003 GGCCTTCTCGGAGGAAGTAATAG 59.994 52.174 4.96 0.00 40.56 1.73
135 136 3.553302 GCCTTCTCGGAGGAAGTAATAGC 60.553 52.174 4.96 3.31 40.56 2.97
136 137 3.006003 CCTTCTCGGAGGAAGTAATAGCC 59.994 52.174 4.96 0.00 40.56 3.93
137 138 2.595238 TCTCGGAGGAAGTAATAGCCC 58.405 52.381 4.96 0.00 0.00 5.19
138 139 2.177233 TCTCGGAGGAAGTAATAGCCCT 59.823 50.000 4.96 0.00 0.00 5.19
139 140 3.396946 TCTCGGAGGAAGTAATAGCCCTA 59.603 47.826 4.96 0.00 0.00 3.53
140 141 4.044317 TCTCGGAGGAAGTAATAGCCCTAT 59.956 45.833 4.96 0.00 0.00 2.57
141 142 4.087182 TCGGAGGAAGTAATAGCCCTATG 58.913 47.826 0.00 0.00 0.00 2.23
142 143 3.195825 CGGAGGAAGTAATAGCCCTATGG 59.804 52.174 0.00 0.00 0.00 2.74
167 168 4.496670 CCTTAAGGCGGTCGACTG 57.503 61.111 20.35 20.35 31.22 3.51
168 169 1.153628 CCTTAAGGCGGTCGACTGG 60.154 63.158 25.20 13.88 31.22 4.00
169 170 1.601419 CCTTAAGGCGGTCGACTGGA 61.601 60.000 25.20 0.00 31.22 3.86
170 171 0.460311 CTTAAGGCGGTCGACTGGAT 59.540 55.000 25.20 6.58 31.22 3.41
171 172 0.899720 TTAAGGCGGTCGACTGGATT 59.100 50.000 25.20 12.91 31.22 3.01
172 173 1.766494 TAAGGCGGTCGACTGGATTA 58.234 50.000 25.20 11.99 31.22 1.75
173 174 1.120530 AAGGCGGTCGACTGGATTAT 58.879 50.000 25.20 0.00 31.22 1.28
174 175 1.991121 AGGCGGTCGACTGGATTATA 58.009 50.000 25.20 0.00 28.47 0.98
175 176 2.526432 AGGCGGTCGACTGGATTATAT 58.474 47.619 25.20 0.00 28.47 0.86
176 177 2.231478 AGGCGGTCGACTGGATTATATG 59.769 50.000 25.20 0.09 28.47 1.78
177 178 2.029290 GGCGGTCGACTGGATTATATGT 60.029 50.000 25.20 0.00 0.00 2.29
178 179 2.987149 GCGGTCGACTGGATTATATGTG 59.013 50.000 25.20 0.00 0.00 3.21
179 180 3.552273 GCGGTCGACTGGATTATATGTGT 60.552 47.826 25.20 0.00 0.00 3.72
180 181 3.981416 CGGTCGACTGGATTATATGTGTG 59.019 47.826 16.99 0.00 0.00 3.82
181 182 4.499188 CGGTCGACTGGATTATATGTGTGT 60.499 45.833 16.99 0.00 0.00 3.72
182 183 4.745125 GGTCGACTGGATTATATGTGTGTG 59.255 45.833 16.46 0.00 0.00 3.82
183 184 5.348986 GTCGACTGGATTATATGTGTGTGT 58.651 41.667 8.70 0.00 0.00 3.72
184 185 5.810587 GTCGACTGGATTATATGTGTGTGTT 59.189 40.000 8.70 0.00 0.00 3.32
185 186 6.312918 GTCGACTGGATTATATGTGTGTGTTT 59.687 38.462 8.70 0.00 0.00 2.83
186 187 7.490079 GTCGACTGGATTATATGTGTGTGTTTA 59.510 37.037 8.70 0.00 0.00 2.01
187 188 7.490079 TCGACTGGATTATATGTGTGTGTTTAC 59.510 37.037 0.00 0.00 0.00 2.01
188 189 7.276878 CGACTGGATTATATGTGTGTGTTTACA 59.723 37.037 0.00 0.00 0.00 2.41
189 190 8.856153 ACTGGATTATATGTGTGTGTTTACAA 57.144 30.769 0.00 0.00 38.82 2.41
190 191 9.290988 ACTGGATTATATGTGTGTGTTTACAAA 57.709 29.630 0.00 0.00 38.82 2.83
288 289 2.841907 CGTGTTGCATTTCATCATGTCG 59.158 45.455 0.00 0.00 30.46 4.35
488 489 6.317391 GTCTTGTTATAGTGTAGGTAGACCGT 59.683 42.308 0.00 0.00 42.08 4.83
510 511 2.177811 GGCCCTACCTAACCTCTCTT 57.822 55.000 0.00 0.00 34.51 2.85
520 521 1.122019 AACCTCTCTTGTCAGCCCGT 61.122 55.000 0.00 0.00 0.00 5.28
556 557 2.584608 CCGAAAGCTGTCCCGGAT 59.415 61.111 0.73 0.00 44.29 4.18
619 620 3.547054 AAGGTCTACAAAACGTCACCA 57.453 42.857 0.00 0.00 34.39 4.17
660 661 2.817901 AGCTATTTTATTCGCGACCGT 58.182 42.857 9.15 0.00 35.54 4.83
663 664 2.012937 ATTTTATTCGCGACCGTCCA 57.987 45.000 9.15 0.00 35.54 4.02
668 669 2.234300 ATTCGCGACCGTCCAATTAT 57.766 45.000 9.15 0.00 35.54 1.28
708 709 3.538387 ACCCCTAACTATTTCCACCTGT 58.462 45.455 0.00 0.00 0.00 4.00
773 774 4.569180 CCATCCATTCCGCCCGCT 62.569 66.667 0.00 0.00 0.00 5.52
834 835 1.696686 CCAACCACCATCCATCCCA 59.303 57.895 0.00 0.00 0.00 4.37
881 883 1.241315 ACCGCCTTCCATGTTTTCCG 61.241 55.000 0.00 0.00 0.00 4.30
1056 1101 2.392974 GCCGTCGCCGTTTACCAAT 61.393 57.895 0.00 0.00 0.00 3.16
1086 1131 0.539051 CGCACCCATCTCCTCTCTTT 59.461 55.000 0.00 0.00 0.00 2.52
1210 1255 1.505353 GTCTCCATCCGACGTCGTT 59.495 57.895 33.49 19.57 37.74 3.85
1262 1307 2.030562 CTGTCGTTGCCGGACCTT 59.969 61.111 5.05 0.00 33.95 3.50
1415 1460 0.037605 CGCTTCGACCTACCCTGTTT 60.038 55.000 0.00 0.00 0.00 2.83
1579 1624 1.300481 CATACGAGGAGACGAGCAGA 58.700 55.000 0.00 0.00 37.03 4.26
1634 1679 3.314331 CGGCCCAGTGTCTCCAGT 61.314 66.667 0.00 0.00 0.00 4.00
1646 1691 1.687146 CTCCAGTGAGGCCCAGCTA 60.687 63.158 0.00 0.00 37.29 3.32
2090 2141 6.435428 AGCTCGGTTTGTAACAAACTTTATG 58.565 36.000 2.63 0.00 0.00 1.90
2292 2348 1.246056 TGCTTCACCTCTTGCCATGC 61.246 55.000 0.00 0.00 0.00 4.06
2303 2359 4.418392 CTCTTGCCATGCTAACAACATTC 58.582 43.478 0.00 0.00 0.00 2.67
2535 2595 1.503818 TTCCGGTGTTGCTTCTTCGC 61.504 55.000 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.873698 TTAGAACCACGACAGTTGGC 58.126 50.000 0.00 0.00 0.00 4.52
11 12 4.625742 CAGTATTAGAACCACGACAGTTGG 59.374 45.833 0.00 0.00 0.00 3.77
12 13 5.345202 GTCAGTATTAGAACCACGACAGTTG 59.655 44.000 0.00 0.00 0.00 3.16
13 14 5.010314 TGTCAGTATTAGAACCACGACAGTT 59.990 40.000 0.00 0.00 0.00 3.16
14 15 4.521639 TGTCAGTATTAGAACCACGACAGT 59.478 41.667 0.00 0.00 0.00 3.55
15 16 5.055642 TGTCAGTATTAGAACCACGACAG 57.944 43.478 0.00 0.00 0.00 3.51
16 17 4.521639 ACTGTCAGTATTAGAACCACGACA 59.478 41.667 2.87 0.00 0.00 4.35
17 18 5.056894 ACTGTCAGTATTAGAACCACGAC 57.943 43.478 2.87 0.00 0.00 4.34
18 19 6.175471 TCTACTGTCAGTATTAGAACCACGA 58.825 40.000 13.10 0.81 29.08 4.35
19 20 6.432607 TCTACTGTCAGTATTAGAACCACG 57.567 41.667 13.10 0.00 29.08 4.94
20 21 7.222999 GCATTCTACTGTCAGTATTAGAACCAC 59.777 40.741 15.69 7.49 27.04 4.16
21 22 7.265673 GCATTCTACTGTCAGTATTAGAACCA 58.734 38.462 15.69 0.00 27.04 3.67
22 23 6.418226 CGCATTCTACTGTCAGTATTAGAACC 59.582 42.308 15.69 10.56 27.04 3.62
23 24 6.418226 CCGCATTCTACTGTCAGTATTAGAAC 59.582 42.308 15.69 6.66 27.04 3.01
24 25 6.320418 TCCGCATTCTACTGTCAGTATTAGAA 59.680 38.462 15.70 15.70 29.08 2.10
25 26 5.826208 TCCGCATTCTACTGTCAGTATTAGA 59.174 40.000 13.10 6.51 29.08 2.10
26 27 6.073327 TCCGCATTCTACTGTCAGTATTAG 57.927 41.667 13.10 4.14 29.08 1.73
27 28 5.593095 ACTCCGCATTCTACTGTCAGTATTA 59.407 40.000 13.10 5.11 29.08 0.98
28 29 4.402793 ACTCCGCATTCTACTGTCAGTATT 59.597 41.667 13.10 0.00 29.08 1.89
29 30 3.954904 ACTCCGCATTCTACTGTCAGTAT 59.045 43.478 13.10 0.00 29.08 2.12
30 31 3.353557 ACTCCGCATTCTACTGTCAGTA 58.646 45.455 12.16 12.16 0.00 2.74
31 32 2.171840 ACTCCGCATTCTACTGTCAGT 58.828 47.619 10.99 10.99 0.00 3.41
32 33 2.949451 ACTCCGCATTCTACTGTCAG 57.051 50.000 0.00 0.00 0.00 3.51
33 34 2.688446 CCTACTCCGCATTCTACTGTCA 59.312 50.000 0.00 0.00 0.00 3.58
34 35 2.688958 ACCTACTCCGCATTCTACTGTC 59.311 50.000 0.00 0.00 0.00 3.51
35 36 2.736347 ACCTACTCCGCATTCTACTGT 58.264 47.619 0.00 0.00 0.00 3.55
36 37 4.519350 TCATACCTACTCCGCATTCTACTG 59.481 45.833 0.00 0.00 0.00 2.74
37 38 4.726583 TCATACCTACTCCGCATTCTACT 58.273 43.478 0.00 0.00 0.00 2.57
38 39 4.082679 CCTCATACCTACTCCGCATTCTAC 60.083 50.000 0.00 0.00 0.00 2.59
39 40 4.079970 CCTCATACCTACTCCGCATTCTA 58.920 47.826 0.00 0.00 0.00 2.10
40 41 2.894126 CCTCATACCTACTCCGCATTCT 59.106 50.000 0.00 0.00 0.00 2.40
41 42 2.891580 TCCTCATACCTACTCCGCATTC 59.108 50.000 0.00 0.00 0.00 2.67
42 43 2.894126 CTCCTCATACCTACTCCGCATT 59.106 50.000 0.00 0.00 0.00 3.56
43 44 2.520069 CTCCTCATACCTACTCCGCAT 58.480 52.381 0.00 0.00 0.00 4.73
44 45 1.478837 CCTCCTCATACCTACTCCGCA 60.479 57.143 0.00 0.00 0.00 5.69
45 46 1.249407 CCTCCTCATACCTACTCCGC 58.751 60.000 0.00 0.00 0.00 5.54
46 47 1.249407 GCCTCCTCATACCTACTCCG 58.751 60.000 0.00 0.00 0.00 4.63
47 48 2.383442 TGCCTCCTCATACCTACTCC 57.617 55.000 0.00 0.00 0.00 3.85
48 49 3.567397 TCTTGCCTCCTCATACCTACTC 58.433 50.000 0.00 0.00 0.00 2.59
49 50 3.689872 TCTTGCCTCCTCATACCTACT 57.310 47.619 0.00 0.00 0.00 2.57
50 51 3.259625 GGATCTTGCCTCCTCATACCTAC 59.740 52.174 0.00 0.00 0.00 3.18
51 52 3.142977 AGGATCTTGCCTCCTCATACCTA 59.857 47.826 0.00 0.00 38.87 3.08
52 53 2.090267 AGGATCTTGCCTCCTCATACCT 60.090 50.000 0.00 0.00 38.87 3.08
53 54 2.334023 AGGATCTTGCCTCCTCATACC 58.666 52.381 0.00 0.00 38.87 2.73
54 55 3.056179 GCTAGGATCTTGCCTCCTCATAC 60.056 52.174 0.00 0.00 42.25 2.39
55 56 3.169099 GCTAGGATCTTGCCTCCTCATA 58.831 50.000 0.00 0.00 42.25 2.15
56 57 1.977129 GCTAGGATCTTGCCTCCTCAT 59.023 52.381 0.00 0.00 42.25 2.90
57 58 1.062581 AGCTAGGATCTTGCCTCCTCA 60.063 52.381 0.00 0.00 42.25 3.86
58 59 1.715785 AGCTAGGATCTTGCCTCCTC 58.284 55.000 0.00 0.00 42.25 3.71
59 60 3.172339 CATAGCTAGGATCTTGCCTCCT 58.828 50.000 0.00 0.00 45.22 3.69
60 61 2.235898 CCATAGCTAGGATCTTGCCTCC 59.764 54.545 7.04 0.00 39.50 4.30
61 62 3.169099 TCCATAGCTAGGATCTTGCCTC 58.831 50.000 7.04 0.00 39.50 4.70
62 63 3.172339 CTCCATAGCTAGGATCTTGCCT 58.828 50.000 7.04 0.00 42.15 4.75
63 64 2.903135 ACTCCATAGCTAGGATCTTGCC 59.097 50.000 7.04 0.00 33.03 4.52
64 65 4.770010 ACTACTCCATAGCTAGGATCTTGC 59.230 45.833 7.04 0.00 33.99 4.01
65 66 6.266558 ACAACTACTCCATAGCTAGGATCTTG 59.733 42.308 7.04 10.26 33.99 3.02
66 67 6.377912 ACAACTACTCCATAGCTAGGATCTT 58.622 40.000 7.04 1.36 33.99 2.40
67 68 5.959512 ACAACTACTCCATAGCTAGGATCT 58.040 41.667 7.04 1.88 33.99 2.75
68 69 6.715718 TGTACAACTACTCCATAGCTAGGATC 59.284 42.308 7.04 0.00 33.99 3.36
69 70 6.611785 TGTACAACTACTCCATAGCTAGGAT 58.388 40.000 7.04 3.93 33.99 3.24
70 71 6.009908 TGTACAACTACTCCATAGCTAGGA 57.990 41.667 7.04 9.11 33.73 2.94
71 72 6.902771 ATGTACAACTACTCCATAGCTAGG 57.097 41.667 0.00 0.00 33.73 3.02
72 73 7.387122 TCGTATGTACAACTACTCCATAGCTAG 59.613 40.741 0.00 0.00 33.73 3.42
73 74 7.219322 TCGTATGTACAACTACTCCATAGCTA 58.781 38.462 0.00 0.00 33.73 3.32
74 75 6.060136 TCGTATGTACAACTACTCCATAGCT 58.940 40.000 0.00 0.00 33.73 3.32
75 76 6.017275 ACTCGTATGTACAACTACTCCATAGC 60.017 42.308 0.00 0.00 33.73 2.97
76 77 7.493743 ACTCGTATGTACAACTACTCCATAG 57.506 40.000 0.00 0.00 36.89 2.23
77 78 7.870509 AACTCGTATGTACAACTACTCCATA 57.129 36.000 0.00 0.00 0.00 2.74
78 79 6.770746 AACTCGTATGTACAACTACTCCAT 57.229 37.500 0.00 0.00 0.00 3.41
79 80 6.579666 AAACTCGTATGTACAACTACTCCA 57.420 37.500 0.00 0.00 0.00 3.86
80 81 8.400947 TCATAAACTCGTATGTACAACTACTCC 58.599 37.037 0.00 0.00 33.85 3.85
81 82 9.435802 CTCATAAACTCGTATGTACAACTACTC 57.564 37.037 0.00 0.00 33.85 2.59
82 83 8.954350 ACTCATAAACTCGTATGTACAACTACT 58.046 33.333 0.00 0.00 33.85 2.57
83 84 9.565213 AACTCATAAACTCGTATGTACAACTAC 57.435 33.333 0.00 0.00 33.85 2.73
84 85 9.778993 GAACTCATAAACTCGTATGTACAACTA 57.221 33.333 0.00 0.00 33.85 2.24
85 86 8.301720 TGAACTCATAAACTCGTATGTACAACT 58.698 33.333 0.00 0.00 33.85 3.16
86 87 8.456904 TGAACTCATAAACTCGTATGTACAAC 57.543 34.615 0.00 0.00 33.85 3.32
87 88 7.758076 CCTGAACTCATAAACTCGTATGTACAA 59.242 37.037 0.00 0.00 33.85 2.41
88 89 7.255569 CCTGAACTCATAAACTCGTATGTACA 58.744 38.462 0.00 0.00 33.85 2.90
89 90 6.198591 GCCTGAACTCATAAACTCGTATGTAC 59.801 42.308 0.00 0.00 33.85 2.90
90 91 6.270815 GCCTGAACTCATAAACTCGTATGTA 58.729 40.000 0.00 0.00 33.85 2.29
91 92 5.109903 GCCTGAACTCATAAACTCGTATGT 58.890 41.667 0.00 0.00 33.85 2.29
92 93 4.508124 GGCCTGAACTCATAAACTCGTATG 59.492 45.833 0.00 0.00 33.49 2.39
93 94 4.406003 AGGCCTGAACTCATAAACTCGTAT 59.594 41.667 3.11 0.00 0.00 3.06
94 95 3.767673 AGGCCTGAACTCATAAACTCGTA 59.232 43.478 3.11 0.00 0.00 3.43
95 96 2.567615 AGGCCTGAACTCATAAACTCGT 59.432 45.455 3.11 0.00 0.00 4.18
96 97 3.252974 AGGCCTGAACTCATAAACTCG 57.747 47.619 3.11 0.00 0.00 4.18
97 98 4.837972 AGAAGGCCTGAACTCATAAACTC 58.162 43.478 5.69 0.00 0.00 3.01
98 99 4.621747 CGAGAAGGCCTGAACTCATAAACT 60.622 45.833 24.56 0.73 0.00 2.66
99 100 3.619038 CGAGAAGGCCTGAACTCATAAAC 59.381 47.826 24.56 7.08 0.00 2.01
100 101 3.369471 CCGAGAAGGCCTGAACTCATAAA 60.369 47.826 24.56 0.00 0.00 1.40
101 102 2.168521 CCGAGAAGGCCTGAACTCATAA 59.831 50.000 24.56 0.00 0.00 1.90
102 103 1.757118 CCGAGAAGGCCTGAACTCATA 59.243 52.381 24.56 0.00 0.00 2.15
103 104 0.539051 CCGAGAAGGCCTGAACTCAT 59.461 55.000 24.56 3.45 0.00 2.90
104 105 0.541998 TCCGAGAAGGCCTGAACTCA 60.542 55.000 24.56 11.08 40.77 3.41
105 106 0.174617 CTCCGAGAAGGCCTGAACTC 59.825 60.000 5.69 14.95 40.77 3.01
106 107 1.261238 CCTCCGAGAAGGCCTGAACT 61.261 60.000 5.69 6.55 40.77 3.01
107 108 1.219393 CCTCCGAGAAGGCCTGAAC 59.781 63.158 5.69 0.53 40.77 3.18
108 109 0.544357 TTCCTCCGAGAAGGCCTGAA 60.544 55.000 5.69 0.00 40.77 3.02
109 110 0.972983 CTTCCTCCGAGAAGGCCTGA 60.973 60.000 5.69 0.00 39.71 3.86
110 111 1.261238 ACTTCCTCCGAGAAGGCCTG 61.261 60.000 5.69 0.00 46.24 4.85
111 112 0.335361 TACTTCCTCCGAGAAGGCCT 59.665 55.000 0.00 0.00 46.24 5.19
112 113 1.192428 TTACTTCCTCCGAGAAGGCC 58.808 55.000 0.00 0.00 46.24 5.19
113 114 3.553302 GCTATTACTTCCTCCGAGAAGGC 60.553 52.174 12.46 4.44 46.24 4.35
114 115 3.006003 GGCTATTACTTCCTCCGAGAAGG 59.994 52.174 12.46 4.01 46.24 3.46
116 117 2.963782 GGGCTATTACTTCCTCCGAGAA 59.036 50.000 0.00 0.00 0.00 2.87
117 118 2.177233 AGGGCTATTACTTCCTCCGAGA 59.823 50.000 0.00 0.00 0.00 4.04
118 119 2.599677 AGGGCTATTACTTCCTCCGAG 58.400 52.381 0.00 0.00 0.00 4.63
119 120 2.769602 AGGGCTATTACTTCCTCCGA 57.230 50.000 0.00 0.00 0.00 4.55
120 121 3.195825 CCATAGGGCTATTACTTCCTCCG 59.804 52.174 0.00 0.00 0.00 4.63
121 122 4.828072 CCATAGGGCTATTACTTCCTCC 57.172 50.000 0.00 0.00 0.00 4.30
150 151 1.153628 CCAGTCGACCGCCTTAAGG 60.154 63.158 17.81 17.81 38.53 2.69
151 152 0.460311 ATCCAGTCGACCGCCTTAAG 59.540 55.000 13.01 0.00 0.00 1.85
152 153 0.899720 AATCCAGTCGACCGCCTTAA 59.100 50.000 13.01 0.00 0.00 1.85
153 154 1.766494 TAATCCAGTCGACCGCCTTA 58.234 50.000 13.01 3.18 0.00 2.69
154 155 1.120530 ATAATCCAGTCGACCGCCTT 58.879 50.000 13.01 4.18 0.00 4.35
155 156 1.991121 TATAATCCAGTCGACCGCCT 58.009 50.000 13.01 0.00 0.00 5.52
156 157 2.029290 ACATATAATCCAGTCGACCGCC 60.029 50.000 13.01 0.00 0.00 6.13
157 158 2.987149 CACATATAATCCAGTCGACCGC 59.013 50.000 13.01 0.00 0.00 5.68
158 159 3.981416 CACACATATAATCCAGTCGACCG 59.019 47.826 13.01 0.70 0.00 4.79
159 160 4.745125 CACACACATATAATCCAGTCGACC 59.255 45.833 13.01 0.00 0.00 4.79
160 161 5.348986 ACACACACATATAATCCAGTCGAC 58.651 41.667 7.70 7.70 0.00 4.20
161 162 5.592104 ACACACACATATAATCCAGTCGA 57.408 39.130 0.00 0.00 0.00 4.20
162 163 6.662414 AAACACACACATATAATCCAGTCG 57.338 37.500 0.00 0.00 0.00 4.18
163 164 8.487313 TGTAAACACACACATATAATCCAGTC 57.513 34.615 0.00 0.00 0.00 3.51
164 165 8.856153 TTGTAAACACACACATATAATCCAGT 57.144 30.769 0.00 0.00 0.00 4.00
170 171 9.619316 GCATCTTTTGTAAACACACACATATAA 57.381 29.630 0.00 0.00 0.00 0.98
171 172 9.008965 AGCATCTTTTGTAAACACACACATATA 57.991 29.630 0.00 0.00 0.00 0.86
172 173 7.809331 CAGCATCTTTTGTAAACACACACATAT 59.191 33.333 0.00 0.00 0.00 1.78
173 174 7.138081 CAGCATCTTTTGTAAACACACACATA 58.862 34.615 0.00 0.00 0.00 2.29
174 175 5.978919 CAGCATCTTTTGTAAACACACACAT 59.021 36.000 0.00 0.00 0.00 3.21
175 176 5.105957 ACAGCATCTTTTGTAAACACACACA 60.106 36.000 0.00 0.00 0.00 3.72
176 177 5.339990 ACAGCATCTTTTGTAAACACACAC 58.660 37.500 0.00 0.00 0.00 3.82
177 178 5.574891 ACAGCATCTTTTGTAAACACACA 57.425 34.783 0.00 0.00 0.00 3.72
178 179 6.140108 CGTTACAGCATCTTTTGTAAACACAC 59.860 38.462 0.00 0.00 40.35 3.82
179 180 6.195868 CGTTACAGCATCTTTTGTAAACACA 58.804 36.000 0.00 0.00 40.35 3.72
180 181 5.115021 GCGTTACAGCATCTTTTGTAAACAC 59.885 40.000 0.00 0.00 40.35 3.32
181 182 5.209240 GCGTTACAGCATCTTTTGTAAACA 58.791 37.500 0.00 0.00 40.35 2.83
182 183 4.615541 GGCGTTACAGCATCTTTTGTAAAC 59.384 41.667 0.00 0.00 40.35 2.01
183 184 4.320641 GGGCGTTACAGCATCTTTTGTAAA 60.321 41.667 0.00 0.00 40.35 2.01
184 185 3.189702 GGGCGTTACAGCATCTTTTGTAA 59.810 43.478 0.00 0.00 37.42 2.41
185 186 2.745281 GGGCGTTACAGCATCTTTTGTA 59.255 45.455 0.00 0.00 39.27 2.41
186 187 1.539827 GGGCGTTACAGCATCTTTTGT 59.460 47.619 0.00 0.00 39.27 2.83
187 188 1.135402 GGGGCGTTACAGCATCTTTTG 60.135 52.381 0.00 0.00 39.27 2.44
188 189 1.173913 GGGGCGTTACAGCATCTTTT 58.826 50.000 0.00 0.00 39.27 2.27
189 190 1.024579 CGGGGCGTTACAGCATCTTT 61.025 55.000 0.00 0.00 39.27 2.52
190 191 1.449601 CGGGGCGTTACAGCATCTT 60.450 57.895 0.00 0.00 39.27 2.40
191 192 2.186903 CGGGGCGTTACAGCATCT 59.813 61.111 0.00 0.00 39.27 2.90
192 193 1.883084 CTCGGGGCGTTACAGCATC 60.883 63.158 0.00 0.00 39.27 3.91
193 194 2.186903 CTCGGGGCGTTACAGCAT 59.813 61.111 0.00 0.00 39.27 3.79
194 195 2.992689 TCTCGGGGCGTTACAGCA 60.993 61.111 0.00 0.00 39.27 4.41
195 196 2.508663 GTCTCGGGGCGTTACAGC 60.509 66.667 0.00 0.00 0.00 4.40
288 289 3.430333 TGATGATGCAATGCACATGAC 57.570 42.857 21.47 12.32 43.04 3.06
687 688 3.522343 GACAGGTGGAAATAGTTAGGGGT 59.478 47.826 0.00 0.00 0.00 4.95
790 791 0.469144 GAGGAAGCCGAGGAGGAGAT 60.469 60.000 0.00 0.00 45.00 2.75
834 835 1.467190 TGGTTGGAGGGGGTGGATT 60.467 57.895 0.00 0.00 0.00 3.01
881 883 1.202114 TGATGATCTTTTTGGTGGCGC 59.798 47.619 0.00 0.00 0.00 6.53
1086 1131 4.388118 GGAGAGAAGAATAGGAGGAGGGAA 60.388 50.000 0.00 0.00 0.00 3.97
1210 1255 0.842030 ACAGATCCAAGGCCAGGACA 60.842 55.000 18.15 0.00 38.13 4.02
1262 1307 3.241530 AACCCTGGCGAGCAGACA 61.242 61.111 0.00 0.00 35.81 3.41
1415 1460 1.248101 TGGCCGAGAGTGACGAATGA 61.248 55.000 0.00 0.00 0.00 2.57
1546 1591 0.108186 CGTATGGAGGCAGAGCAACA 60.108 55.000 0.00 0.00 0.00 3.33
1579 1624 3.667282 CAGGCGCTGTGCTTGCTT 61.667 61.111 12.38 0.00 44.22 3.91
1598 1643 2.047274 CGTGGTGGAGCGGTCAAT 60.047 61.111 17.59 0.00 0.00 2.57
1634 1679 2.283604 TCACGTAGCTGGGCCTCA 60.284 61.111 4.53 0.00 0.00 3.86
1646 1691 3.066814 GAGGCCGGTAGGTCACGT 61.067 66.667 1.90 0.00 46.92 4.49
1895 1946 5.762825 ACATATGATGCATGGTTTGAGAC 57.237 39.130 10.38 0.00 0.00 3.36
2090 2141 5.186992 AGGCATTTTTCTACCCCATTTACAC 59.813 40.000 0.00 0.00 0.00 2.90
2303 2359 8.203937 TCTCGTTTATGTACCCAACAATATTG 57.796 34.615 14.01 14.01 42.70 1.90
2535 2595 1.864176 GGTGTTAGCGGAACCAACG 59.136 57.895 2.58 0.00 37.22 4.10
2546 2606 0.511221 CCTCACAAACGCGGTGTTAG 59.489 55.000 12.47 14.48 40.84 2.34
2552 2612 2.943653 GGTTCCTCACAAACGCGG 59.056 61.111 12.47 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.