Multiple sequence alignment - TraesCS2B01G246400

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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 TraesCS2B01G246400 chr2B 100.000 2850 0 0 1 2850 250730528 250727679 0.000000e+00 5264.0
1 TraesCS2B01G246400 chr2B 84.549 466 62 8 1537 2001 793230234 793229778 1.200000e-123 453.0
2 TraesCS2B01G246400 chr2B 93.846 65 4 0 969 1033 793259134 793259070 6.500000e-17 99.0
3 TraesCS2B01G246400 chr2A 92.126 2159 97 17 152 2265 209386283 209384153 0.000000e+00 2977.0
4 TraesCS2B01G246400 chr2A 86.614 508 53 12 1498 2001 768729495 768729991 5.370000e-152 547.0
5 TraesCS2B01G246400 chr2A 85.532 470 58 4 1533 2001 768982766 768983226 1.540000e-132 483.0
6 TraesCS2B01G246400 chr2A 90.141 142 14 0 2327 2468 209384152 209384011 4.850000e-43 185.0
7 TraesCS2B01G246400 chr2A 92.424 66 3 2 2484 2547 209384028 209383963 3.020000e-15 93.5
8 TraesCS2B01G246400 chr2A 91.803 61 5 0 969 1029 768728775 768728835 5.060000e-13 86.1
9 TraesCS2B01G246400 chr2D 91.277 2201 109 31 152 2298 194753723 194751552 0.000000e+00 2924.0
10 TraesCS2B01G246400 chr2D 93.478 276 17 1 2302 2577 194751505 194751231 2.640000e-110 409.0
11 TraesCS2B01G246400 chr2D 77.388 513 78 19 969 1468 643852983 643853470 1.300000e-68 270.0
12 TraesCS2B01G246400 chr2D 88.722 133 11 3 1 132 194754240 194754111 2.940000e-35 159.0
13 TraesCS2B01G246400 chr2D 86.111 108 14 1 1749 1856 643780403 643780509 6.450000e-22 115.0
14 TraesCS2B01G246400 chr1D 96.522 115 4 0 2735 2849 271228370 271228484 1.040000e-44 191.0
15 TraesCS2B01G246400 chr3D 96.491 114 4 0 2734 2847 359516745 359516632 3.750000e-44 189.0
16 TraesCS2B01G246400 chr4A 95.652 115 5 0 2735 2849 6252564 6252450 4.850000e-43 185.0
17 TraesCS2B01G246400 chr4A 94.828 116 6 0 2734 2849 672109491 672109376 6.270000e-42 182.0
18 TraesCS2B01G246400 chr5B 94.167 120 7 0 2730 2849 39774028 39773909 1.740000e-42 183.0
19 TraesCS2B01G246400 chr6A 94.828 116 6 0 2734 2849 449695053 449695168 6.270000e-42 182.0
20 TraesCS2B01G246400 chr4B 94.118 119 7 0 2731 2849 364035636 364035754 6.270000e-42 182.0
21 TraesCS2B01G246400 chr3A 94.828 116 6 0 2734 2849 132198087 132197972 6.270000e-42 182.0
22 TraesCS2B01G246400 chr1B 94.828 116 6 0 2734 2849 509475553 509475668 6.270000e-42 182.0


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 TraesCS2B01G246400 chr2B 250727679 250730528 2849 True 5264.000000 5264 100.000000 1 2850 1 chr2B.!!$R1 2849
1 TraesCS2B01G246400 chr2A 209383963 209386283 2320 True 1085.166667 2977 91.563667 152 2547 3 chr2A.!!$R1 2395
2 TraesCS2B01G246400 chr2A 768728775 768729991 1216 False 316.550000 547 89.208500 969 2001 2 chr2A.!!$F2 1032
3 TraesCS2B01G246400 chr2D 194751231 194754240 3009 True 1164.000000 2924 91.159000 1 2577 3 chr2D.!!$R1 2576

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
236 609 0.25064 ATCTGCGCATGATTCCCTCC 60.251 55.0 12.24 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2129 2963 0.171679 TGCAACATATGTGCAGCAGC 59.828 50.0 21.44 14.1 42.57 5.25 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
28 29 1.208706 TCATAGCGTTCCAATCCCCA 58.791 50.000 0.00 0.00 0.00 4.96
33 34 1.525995 CGTTCCAATCCCCATCCCG 60.526 63.158 0.00 0.00 0.00 5.14
35 36 3.414136 TTCCAATCCCCATCCCGCG 62.414 63.158 0.00 0.00 0.00 6.46
47 48 0.463833 ATCCCGCGAATCAACCTTCC 60.464 55.000 8.23 0.00 0.00 3.46
59 60 0.984995 AACCTTCCCCTTCTTCTCCG 59.015 55.000 0.00 0.00 0.00 4.63
62 63 1.605058 CTTCCCCTTCTTCTCCGCGA 61.605 60.000 8.23 0.00 0.00 5.87
63 64 1.885163 TTCCCCTTCTTCTCCGCGAC 61.885 60.000 8.23 0.00 0.00 5.19
64 65 2.184579 CCCTTCTTCTCCGCGACC 59.815 66.667 8.23 0.00 0.00 4.79
65 66 2.646175 CCCTTCTTCTCCGCGACCA 61.646 63.158 8.23 0.00 0.00 4.02
66 67 1.517832 CCTTCTTCTCCGCGACCAT 59.482 57.895 8.23 0.00 0.00 3.55
67 68 0.528684 CCTTCTTCTCCGCGACCATC 60.529 60.000 8.23 0.00 0.00 3.51
73 74 2.044352 TCCGCGACCATCCAGAGA 60.044 61.111 8.23 0.00 0.00 3.10
75 76 2.418910 CCGCGACCATCCAGAGACT 61.419 63.158 8.23 0.00 0.00 3.24
98 100 1.573026 GCTTAGGGTTAGCGAGCTTC 58.427 55.000 1.86 0.00 0.00 3.86
129 131 1.869946 TCCACCCCTTCCCTCCCTA 60.870 63.158 0.00 0.00 0.00 3.53
132 134 2.039724 CCCCTTCCCTCCCTACCC 60.040 72.222 0.00 0.00 0.00 3.69
133 135 2.039724 CCCTTCCCTCCCTACCCC 60.040 72.222 0.00 0.00 0.00 4.95
134 136 2.792222 CCTTCCCTCCCTACCCCA 59.208 66.667 0.00 0.00 0.00 4.96
135 137 1.384643 CCTTCCCTCCCTACCCCAG 60.385 68.421 0.00 0.00 0.00 4.45
136 138 1.710341 CTTCCCTCCCTACCCCAGA 59.290 63.158 0.00 0.00 0.00 3.86
137 139 0.269173 CTTCCCTCCCTACCCCAGAT 59.731 60.000 0.00 0.00 0.00 2.90
138 140 0.267960 TTCCCTCCCTACCCCAGATC 59.732 60.000 0.00 0.00 0.00 2.75
139 141 1.534235 CCCTCCCTACCCCAGATCG 60.534 68.421 0.00 0.00 0.00 3.69
140 142 2.210711 CCTCCCTACCCCAGATCGC 61.211 68.421 0.00 0.00 0.00 4.58
141 143 2.122989 TCCCTACCCCAGATCGCC 60.123 66.667 0.00 0.00 0.00 5.54
142 144 2.122813 CCCTACCCCAGATCGCCT 60.123 66.667 0.00 0.00 0.00 5.52
143 145 2.210711 CCCTACCCCAGATCGCCTC 61.211 68.421 0.00 0.00 0.00 4.70
144 146 2.210711 CCTACCCCAGATCGCCTCC 61.211 68.421 0.00 0.00 0.00 4.30
145 147 2.122989 TACCCCAGATCGCCTCCC 60.123 66.667 0.00 0.00 0.00 4.30
146 148 2.664835 CTACCCCAGATCGCCTCCCT 62.665 65.000 0.00 0.00 0.00 4.20
147 149 2.658321 TACCCCAGATCGCCTCCCTC 62.658 65.000 0.00 0.00 0.00 4.30
148 150 3.237741 CCCAGATCGCCTCCCTCC 61.238 72.222 0.00 0.00 0.00 4.30
149 151 3.610669 CCAGATCGCCTCCCTCCG 61.611 72.222 0.00 0.00 0.00 4.63
150 152 4.292178 CAGATCGCCTCCCTCCGC 62.292 72.222 0.00 0.00 0.00 5.54
184 554 2.990479 GTCGGCATCCACTTCCCT 59.010 61.111 0.00 0.00 0.00 4.20
189 559 2.190578 CATCCACTTCCCTCCGCC 59.809 66.667 0.00 0.00 0.00 6.13
209 579 0.905357 CCTCCCTCCACTTACAGGTG 59.095 60.000 0.00 0.00 37.00 4.00
223 593 0.738762 CAGGTGTGGACAGATCTGCG 60.739 60.000 22.83 0.00 0.00 5.18
236 609 0.250640 ATCTGCGCATGATTCCCTCC 60.251 55.000 12.24 0.00 0.00 4.30
295 672 2.107204 AGGATTCTGCTTGTTCAGTGGT 59.893 45.455 0.00 0.00 35.63 4.16
340 717 6.316390 GGATTTCTACGGTGATTTCATGTCTT 59.684 38.462 0.00 0.00 0.00 3.01
407 784 7.959658 ATTGATTGATGGTAGATGGTGAAAA 57.040 32.000 0.00 0.00 0.00 2.29
485 862 5.644977 TGAGGTAGTACAGATGTTGAGTG 57.355 43.478 2.06 0.00 0.00 3.51
499 876 3.068560 GTTGAGTGTAATGCCGGTAACA 58.931 45.455 1.90 0.00 0.00 2.41
500 877 2.967362 TGAGTGTAATGCCGGTAACAG 58.033 47.619 1.90 0.00 0.00 3.16
508 885 2.672961 TGCCGGTAACAGATTGAGAG 57.327 50.000 1.90 0.00 0.00 3.20
509 886 1.207089 TGCCGGTAACAGATTGAGAGG 59.793 52.381 1.90 0.00 0.00 3.69
511 888 2.103263 GCCGGTAACAGATTGAGAGGAT 59.897 50.000 1.90 0.00 0.00 3.24
534 911 4.650545 TTTCGCAAATCCACGTAGTTAC 57.349 40.909 0.00 0.00 41.61 2.50
538 915 3.303495 CGCAAATCCACGTAGTTACTGAG 59.697 47.826 0.00 0.00 41.61 3.35
569 946 2.571653 TCTTGTTGGTCTAGTGGATGGG 59.428 50.000 0.00 0.00 0.00 4.00
636 1016 5.862323 CAGTCCAAAGCAAGAATTTCATCTG 59.138 40.000 0.00 0.00 0.00 2.90
664 1044 5.948842 ACACCAAACAAATTAGTCTAGGGT 58.051 37.500 0.00 0.00 0.00 4.34
665 1045 7.081857 ACACCAAACAAATTAGTCTAGGGTA 57.918 36.000 0.00 0.00 0.00 3.69
666 1046 7.696017 ACACCAAACAAATTAGTCTAGGGTAT 58.304 34.615 0.00 0.00 0.00 2.73
709 1092 8.469200 CACCATAGACAACAAATTTGTATCCAT 58.531 33.333 23.53 15.15 41.31 3.41
727 1110 3.330701 TCCATAAGTCTTTCCAAGCAGGT 59.669 43.478 0.00 0.00 39.02 4.00
794 1177 1.684869 GCTGGCTTATGGCACCCTTAA 60.685 52.381 0.22 0.00 44.10 1.85
863 1246 9.855361 CTGTATTTCAATAAATAGAACTCAGCG 57.145 33.333 0.00 0.00 38.05 5.18
881 1264 1.402325 GCGGTTTCAGTTGGTATTGGC 60.402 52.381 0.00 0.00 0.00 4.52
918 1301 5.579718 CACATGAATCTGATCTTTCCAAGC 58.420 41.667 0.00 0.00 0.00 4.01
1124 1510 9.436957 GTACCTCTGAATTCTGAAATAGTTTGA 57.563 33.333 14.97 0.00 0.00 2.69
1154 1540 5.184864 TCAAACAAACACACCAGAAGTCAAT 59.815 36.000 0.00 0.00 0.00 2.57
1156 1542 4.997565 ACAAACACACCAGAAGTCAATTG 58.002 39.130 0.00 0.00 0.00 2.32
1157 1543 4.462483 ACAAACACACCAGAAGTCAATTGT 59.538 37.500 5.13 0.00 0.00 2.71
1161 1547 7.672983 AACACACCAGAAGTCAATTGTATAG 57.327 36.000 5.13 0.00 0.00 1.31
1162 1548 6.173339 ACACACCAGAAGTCAATTGTATAGG 58.827 40.000 5.13 4.39 0.00 2.57
1163 1549 6.173339 CACACCAGAAGTCAATTGTATAGGT 58.827 40.000 5.13 4.99 0.00 3.08
1168 1559 5.520288 CAGAAGTCAATTGTATAGGTGGTCG 59.480 44.000 5.13 0.00 0.00 4.79
1186 1577 1.828595 TCGTAGTGGGTGCACATATGT 59.171 47.619 20.43 1.41 0.00 2.29
1240 1631 9.396022 CTTTTGTAGGATGTGTAATGGACTAAT 57.604 33.333 0.00 0.00 0.00 1.73
1473 1867 8.434733 TTCATCATTCTTGCTATTCTTCTCTG 57.565 34.615 0.00 0.00 0.00 3.35
1475 1869 7.494952 TCATCATTCTTGCTATTCTTCTCTGTG 59.505 37.037 0.00 0.00 0.00 3.66
1490 1895 8.658499 TCTTCTCTGTGGTTTACTTTTCTAAC 57.342 34.615 0.00 0.00 0.00 2.34
1494 1899 8.262227 TCTCTGTGGTTTACTTTTCTAACAAGA 58.738 33.333 0.00 0.00 0.00 3.02
1642 2449 1.134848 GGAGCTCTGCGACAGAAGATT 60.135 52.381 14.64 0.00 40.18 2.40
1783 2590 2.538449 CTCACACCGTATATTTGGCGTC 59.462 50.000 0.00 0.00 0.00 5.19
1786 2593 0.103572 ACCGTATATTTGGCGTCGCT 59.896 50.000 18.11 0.00 0.00 4.93
1910 2718 1.157870 ACTGTTTCGTCGTTGGGCAG 61.158 55.000 0.00 0.00 0.00 4.85
1952 2761 9.950496 ACAGTTGTCATAAAGTCTTATCAATCT 57.050 29.630 0.00 0.00 0.00 2.40
2001 2811 8.880750 GGAAACTATCCTAAACATCAGTGTAAC 58.119 37.037 0.00 0.00 45.56 2.50
2035 2869 1.486310 TGGGATCCGAACCAGATCTTG 59.514 52.381 5.45 0.00 40.07 3.02
2057 2891 3.303229 GTGCTTTGGTTTCAGTGTTTTCG 59.697 43.478 0.00 0.00 0.00 3.46
2098 2932 6.090763 GGGCATTAGTGTTTGATAGTTTTTGC 59.909 38.462 0.00 0.00 0.00 3.68
2102 2936 4.620982 AGTGTTTGATAGTTTTTGCCTGC 58.379 39.130 0.00 0.00 0.00 4.85
2147 2981 0.171679 TGCTGCTGCACATATGTTGC 59.828 50.000 14.93 17.91 45.31 4.17
2176 3010 2.044123 ATTTTCGACTCCAGGGCATC 57.956 50.000 0.00 0.00 0.00 3.91
2191 3026 0.541764 GCATCTTTGGTTGTGGGGGA 60.542 55.000 0.00 0.00 0.00 4.81
2193 3028 2.539302 CATCTTTGGTTGTGGGGGAAT 58.461 47.619 0.00 0.00 0.00 3.01
2221 3056 4.195334 CCCCGCCTGATTCCTGGG 62.195 72.222 0.00 0.00 39.69 4.45
2222 3057 3.411517 CCCGCCTGATTCCTGGGT 61.412 66.667 0.00 0.00 35.05 4.51
2225 3060 1.048724 CCGCCTGATTCCTGGGTAGA 61.049 60.000 0.00 0.00 32.58 2.59
2227 3062 1.209504 CGCCTGATTCCTGGGTAGAAA 59.790 52.381 0.00 0.00 32.58 2.52
2254 3089 4.265056 GTGGCCGGGGACAACTGT 62.265 66.667 2.18 0.00 33.39 3.55
2255 3090 3.948719 TGGCCGGGGACAACTGTC 61.949 66.667 2.18 0.98 44.04 3.51
2278 3113 3.004862 CTGGGCAAATTGGCTTCAAATC 58.995 45.455 18.88 1.40 43.20 2.17
2298 3133 4.858965 TCCCCGGGCTAAAAATAAACTA 57.141 40.909 17.73 0.00 0.00 2.24
2299 3134 4.784177 TCCCCGGGCTAAAAATAAACTAG 58.216 43.478 17.73 0.00 0.00 2.57
2300 3135 4.227982 TCCCCGGGCTAAAAATAAACTAGT 59.772 41.667 17.73 0.00 0.00 2.57
2305 3183 5.501897 CGGGCTAAAAATAAACTAGTGCTCG 60.502 44.000 0.00 0.00 35.63 5.03
2355 3233 2.589442 TCGTGGTTGGTCCGTTGC 60.589 61.111 0.00 0.00 39.52 4.17
2406 3284 1.368950 GCATCTCGCCTGGCTGATA 59.631 57.895 17.92 8.84 32.94 2.15
2431 3309 2.649034 GAGAACACCGCCGTCTCA 59.351 61.111 0.00 0.00 0.00 3.27
2473 3351 3.499737 GCGGCCGTCCTCAACATG 61.500 66.667 28.70 0.00 0.00 3.21
2474 3352 2.264480 CGGCCGTCCTCAACATGA 59.736 61.111 19.50 0.00 0.00 3.07
2475 3353 2.100631 CGGCCGTCCTCAACATGAC 61.101 63.158 19.50 0.00 0.00 3.06
2476 3354 1.003839 GGCCGTCCTCAACATGACA 60.004 57.895 0.00 0.00 0.00 3.58
2477 3355 1.298859 GGCCGTCCTCAACATGACAC 61.299 60.000 0.00 0.00 0.00 3.67
2478 3356 1.298859 GCCGTCCTCAACATGACACC 61.299 60.000 0.00 0.00 0.00 4.16
2479 3357 0.321671 CCGTCCTCAACATGACACCT 59.678 55.000 0.00 0.00 0.00 4.00
2480 3358 1.432514 CGTCCTCAACATGACACCTG 58.567 55.000 0.00 0.00 0.00 4.00
2481 3359 1.270305 CGTCCTCAACATGACACCTGT 60.270 52.381 0.00 0.00 0.00 4.00
2482 3360 2.417719 GTCCTCAACATGACACCTGTC 58.582 52.381 0.00 0.00 44.97 3.51
2490 3368 2.643272 GACACCTGTCGAGCACGA 59.357 61.111 0.88 0.88 46.56 4.35
2550 3460 2.686915 GAGATCTGAGCAAACCCATTGG 59.313 50.000 0.00 0.00 39.54 3.16
2558 3468 1.838112 CAAACCCATTGGAGCTGCTA 58.162 50.000 6.82 0.00 35.27 3.49
2559 3469 2.170166 CAAACCCATTGGAGCTGCTAA 58.830 47.619 6.82 0.00 35.27 3.09
2577 3487 1.523758 AAAGCTTGTCGATGACCACC 58.476 50.000 0.00 0.00 0.00 4.61
2578 3488 0.687354 AAGCTTGTCGATGACCACCT 59.313 50.000 0.00 0.00 0.00 4.00
2579 3489 0.036952 AGCTTGTCGATGACCACCTG 60.037 55.000 0.00 0.00 0.00 4.00
2580 3490 1.021390 GCTTGTCGATGACCACCTGG 61.021 60.000 0.00 0.00 42.17 4.45
2581 3491 1.003839 TTGTCGATGACCACCTGGC 60.004 57.895 0.00 0.00 39.32 4.85
2582 3492 2.509336 GTCGATGACCACCTGGCG 60.509 66.667 0.00 0.00 39.32 5.69
2583 3493 4.451150 TCGATGACCACCTGGCGC 62.451 66.667 0.00 0.00 39.32 6.53
2584 3494 4.457496 CGATGACCACCTGGCGCT 62.457 66.667 7.64 0.00 39.32 5.92
2585 3495 2.045926 GATGACCACCTGGCGCTT 60.046 61.111 7.64 0.00 39.32 4.68
2586 3496 2.045926 ATGACCACCTGGCGCTTC 60.046 61.111 7.64 0.00 39.32 3.86
2587 3497 2.527951 GATGACCACCTGGCGCTTCT 62.528 60.000 7.64 0.00 39.32 2.85
2588 3498 2.743928 GACCACCTGGCGCTTCTG 60.744 66.667 7.64 0.00 39.32 3.02
2590 3500 4.711949 CCACCTGGCGCTTCTGCT 62.712 66.667 7.64 0.00 36.97 4.24
2591 3501 3.123620 CACCTGGCGCTTCTGCTC 61.124 66.667 7.64 0.00 36.97 4.26
2592 3502 4.749310 ACCTGGCGCTTCTGCTCG 62.749 66.667 7.64 0.00 36.97 5.03
2598 3508 2.278857 CGCTTCTGCTCGGCGTAT 60.279 61.111 6.85 0.00 43.28 3.06
2599 3509 2.580470 CGCTTCTGCTCGGCGTATG 61.580 63.158 6.85 0.00 43.28 2.39
2600 3510 2.240500 GCTTCTGCTCGGCGTATGG 61.241 63.158 6.85 0.00 36.03 2.74
2601 3511 1.592669 CTTCTGCTCGGCGTATGGG 60.593 63.158 6.85 0.00 0.00 4.00
2602 3512 2.298158 CTTCTGCTCGGCGTATGGGT 62.298 60.000 6.85 0.00 0.00 4.51
2603 3513 2.572095 TTCTGCTCGGCGTATGGGTG 62.572 60.000 6.85 0.00 0.00 4.61
2604 3514 3.371097 CTGCTCGGCGTATGGGTGT 62.371 63.158 6.85 0.00 0.00 4.16
2605 3515 2.125269 GCTCGGCGTATGGGTGTT 60.125 61.111 6.85 0.00 0.00 3.32
2606 3516 2.171725 GCTCGGCGTATGGGTGTTC 61.172 63.158 6.85 0.00 0.00 3.18
2607 3517 1.520787 CTCGGCGTATGGGTGTTCC 60.521 63.158 6.85 0.00 0.00 3.62
2608 3518 2.888534 CGGCGTATGGGTGTTCCG 60.889 66.667 0.00 0.00 38.76 4.30
2609 3519 3.199891 GGCGTATGGGTGTTCCGC 61.200 66.667 0.00 0.00 43.35 5.54
2610 3520 3.199891 GCGTATGGGTGTTCCGCC 61.200 66.667 0.00 0.00 38.52 6.13
2611 3521 2.266372 CGTATGGGTGTTCCGCCA 59.734 61.111 0.00 0.00 38.76 5.69
2612 3522 1.153249 CGTATGGGTGTTCCGCCAT 60.153 57.895 0.00 0.00 38.76 4.40
2613 3523 1.157870 CGTATGGGTGTTCCGCCATC 61.158 60.000 0.00 0.00 38.76 3.51
2614 3524 0.818040 GTATGGGTGTTCCGCCATCC 60.818 60.000 0.00 0.00 38.76 3.51
2615 3525 2.318519 TATGGGTGTTCCGCCATCCG 62.319 60.000 0.00 0.00 38.54 4.18
2617 3527 4.778143 GGTGTTCCGCCATCCGCT 62.778 66.667 0.00 0.00 33.65 5.52
2618 3528 2.746277 GTGTTCCGCCATCCGCTT 60.746 61.111 0.00 0.00 35.03 4.68
2619 3529 2.745884 TGTTCCGCCATCCGCTTG 60.746 61.111 0.00 0.00 35.03 4.01
2620 3530 3.508840 GTTCCGCCATCCGCTTGG 61.509 66.667 0.00 0.00 39.94 3.61
2621 3531 4.028490 TTCCGCCATCCGCTTGGT 62.028 61.111 4.09 0.00 39.11 3.67
2622 3532 4.776322 TCCGCCATCCGCTTGGTG 62.776 66.667 8.09 8.09 45.10 4.17
2637 3547 3.594134 CTTGGTGAGCTAGAGAAACAGG 58.406 50.000 0.00 0.00 0.00 4.00
2638 3548 1.902508 TGGTGAGCTAGAGAAACAGGG 59.097 52.381 0.00 0.00 0.00 4.45
2639 3549 2.180276 GGTGAGCTAGAGAAACAGGGA 58.820 52.381 0.00 0.00 0.00 4.20
2640 3550 2.769095 GGTGAGCTAGAGAAACAGGGAT 59.231 50.000 0.00 0.00 0.00 3.85
2641 3551 3.181470 GGTGAGCTAGAGAAACAGGGATC 60.181 52.174 0.00 0.00 0.00 3.36
2642 3552 3.704061 GTGAGCTAGAGAAACAGGGATCT 59.296 47.826 0.00 0.00 0.00 2.75
2643 3553 3.957497 TGAGCTAGAGAAACAGGGATCTC 59.043 47.826 0.00 0.00 41.92 2.75
2644 3554 3.957497 GAGCTAGAGAAACAGGGATCTCA 59.043 47.826 0.00 0.00 43.62 3.27
2645 3555 4.555689 AGCTAGAGAAACAGGGATCTCAT 58.444 43.478 0.00 0.00 43.62 2.90
2646 3556 5.710646 AGCTAGAGAAACAGGGATCTCATA 58.289 41.667 0.00 0.00 43.62 2.15
2647 3557 6.322126 AGCTAGAGAAACAGGGATCTCATAT 58.678 40.000 0.00 0.00 43.62 1.78
2648 3558 6.211184 AGCTAGAGAAACAGGGATCTCATATG 59.789 42.308 0.00 0.00 43.62 1.78
2649 3559 6.014669 GCTAGAGAAACAGGGATCTCATATGT 60.015 42.308 1.90 0.00 43.62 2.29
2650 3560 6.821616 AGAGAAACAGGGATCTCATATGTT 57.178 37.500 1.90 0.00 43.62 2.71
2651 3561 6.825610 AGAGAAACAGGGATCTCATATGTTC 58.174 40.000 1.90 0.00 43.62 3.18
2652 3562 5.934781 AGAAACAGGGATCTCATATGTTCC 58.065 41.667 1.90 7.88 33.17 3.62
2653 3563 4.713792 AACAGGGATCTCATATGTTCCC 57.286 45.455 22.83 22.83 46.94 3.97
2656 3566 3.064900 GGGATCTCATATGTTCCCAGC 57.935 52.381 24.22 7.93 46.02 4.85
2657 3567 2.373169 GGGATCTCATATGTTCCCAGCA 59.627 50.000 24.22 0.00 46.02 4.41
2658 3568 3.558746 GGGATCTCATATGTTCCCAGCAG 60.559 52.174 24.22 6.80 46.02 4.24
2659 3569 2.627515 TCTCATATGTTCCCAGCAGC 57.372 50.000 1.90 0.00 0.00 5.25
2660 3570 1.141657 TCTCATATGTTCCCAGCAGCC 59.858 52.381 1.90 0.00 0.00 4.85
2661 3571 0.183492 TCATATGTTCCCAGCAGCCC 59.817 55.000 1.90 0.00 0.00 5.19
2662 3572 1.149174 ATATGTTCCCAGCAGCCCG 59.851 57.895 0.00 0.00 0.00 6.13
2663 3573 2.965716 ATATGTTCCCAGCAGCCCGC 62.966 60.000 0.00 0.00 42.91 6.13
2683 3593 3.386543 ACTGGCGGTGATGATTAGC 57.613 52.632 0.00 0.00 0.00 3.09
2684 3594 0.833287 ACTGGCGGTGATGATTAGCT 59.167 50.000 0.00 0.00 0.00 3.32
2685 3595 1.210478 ACTGGCGGTGATGATTAGCTT 59.790 47.619 0.00 0.00 0.00 3.74
2686 3596 1.600957 CTGGCGGTGATGATTAGCTTG 59.399 52.381 0.00 0.00 0.00 4.01
2687 3597 0.947244 GGCGGTGATGATTAGCTTGG 59.053 55.000 0.00 0.00 0.00 3.61
2688 3598 1.668419 GCGGTGATGATTAGCTTGGT 58.332 50.000 0.00 0.00 0.00 3.67
2689 3599 1.331756 GCGGTGATGATTAGCTTGGTG 59.668 52.381 0.00 0.00 0.00 4.17
2690 3600 2.905075 CGGTGATGATTAGCTTGGTGA 58.095 47.619 0.00 0.00 0.00 4.02
2691 3601 3.270027 CGGTGATGATTAGCTTGGTGAA 58.730 45.455 0.00 0.00 0.00 3.18
2692 3602 3.310774 CGGTGATGATTAGCTTGGTGAAG 59.689 47.826 0.00 0.00 0.00 3.02
2699 3609 4.954933 GCTTGGTGAAGCGGGATA 57.045 55.556 0.00 0.00 45.12 2.59
2700 3610 3.403936 GCTTGGTGAAGCGGGATAT 57.596 52.632 0.00 0.00 45.12 1.63
2701 3611 0.947244 GCTTGGTGAAGCGGGATATG 59.053 55.000 0.00 0.00 45.12 1.78
2702 3612 1.747206 GCTTGGTGAAGCGGGATATGT 60.747 52.381 0.00 0.00 45.12 2.29
2703 3613 2.643551 CTTGGTGAAGCGGGATATGTT 58.356 47.619 0.00 0.00 0.00 2.71
2704 3614 2.799126 TGGTGAAGCGGGATATGTTT 57.201 45.000 0.00 0.00 0.00 2.83
2705 3615 2.639065 TGGTGAAGCGGGATATGTTTC 58.361 47.619 0.00 0.00 0.00 2.78
2706 3616 1.947456 GGTGAAGCGGGATATGTTTCC 59.053 52.381 0.00 0.00 34.83 3.13
2707 3617 2.421529 GGTGAAGCGGGATATGTTTCCT 60.422 50.000 0.00 0.00 35.97 3.36
2708 3618 2.872858 GTGAAGCGGGATATGTTTCCTC 59.127 50.000 0.00 0.00 35.97 3.71
2709 3619 2.503765 TGAAGCGGGATATGTTTCCTCA 59.496 45.455 0.00 0.00 35.97 3.86
2710 3620 3.054728 TGAAGCGGGATATGTTTCCTCAA 60.055 43.478 0.00 0.00 35.97 3.02
2711 3621 3.864789 AGCGGGATATGTTTCCTCAAT 57.135 42.857 0.00 0.00 35.97 2.57
2712 3622 4.170468 AGCGGGATATGTTTCCTCAATT 57.830 40.909 0.00 0.00 35.97 2.32
2713 3623 3.885297 AGCGGGATATGTTTCCTCAATTG 59.115 43.478 0.00 0.00 35.97 2.32
2714 3624 3.550842 GCGGGATATGTTTCCTCAATTGC 60.551 47.826 0.00 0.00 35.97 3.56
2715 3625 3.631686 CGGGATATGTTTCCTCAATTGCA 59.368 43.478 0.00 0.00 35.97 4.08
2716 3626 4.279169 CGGGATATGTTTCCTCAATTGCAT 59.721 41.667 0.00 0.00 35.97 3.96
2717 3627 5.535333 GGGATATGTTTCCTCAATTGCATG 58.465 41.667 0.00 0.00 35.97 4.06
2718 3628 5.510179 GGGATATGTTTCCTCAATTGCATGG 60.510 44.000 0.00 3.23 35.97 3.66
2719 3629 5.069516 GGATATGTTTCCTCAATTGCATGGT 59.930 40.000 0.00 0.00 32.68 3.55
2720 3630 3.663995 TGTTTCCTCAATTGCATGGTG 57.336 42.857 0.00 0.00 0.00 4.17
2721 3631 3.229293 TGTTTCCTCAATTGCATGGTGA 58.771 40.909 0.00 0.00 0.00 4.02
2722 3632 3.640498 TGTTTCCTCAATTGCATGGTGAA 59.360 39.130 0.00 1.29 0.00 3.18
2723 3633 4.283978 TGTTTCCTCAATTGCATGGTGAAT 59.716 37.500 0.00 0.00 0.00 2.57
2724 3634 4.724074 TTCCTCAATTGCATGGTGAATC 57.276 40.909 0.00 0.00 0.00 2.52
2725 3635 3.972133 TCCTCAATTGCATGGTGAATCT 58.028 40.909 0.00 0.00 0.00 2.40
2726 3636 3.697542 TCCTCAATTGCATGGTGAATCTG 59.302 43.478 0.00 0.00 0.00 2.90
2727 3637 3.446161 CCTCAATTGCATGGTGAATCTGT 59.554 43.478 0.00 0.00 0.00 3.41
2728 3638 4.421058 CTCAATTGCATGGTGAATCTGTG 58.579 43.478 0.00 0.00 0.00 3.66
2729 3639 2.927477 CAATTGCATGGTGAATCTGTGC 59.073 45.455 0.00 0.00 36.39 4.57
2730 3640 0.889994 TTGCATGGTGAATCTGTGCC 59.110 50.000 0.00 0.00 35.03 5.01
2731 3641 1.307355 TGCATGGTGAATCTGTGCCG 61.307 55.000 0.00 0.00 35.03 5.69
2732 3642 1.996786 GCATGGTGAATCTGTGCCGG 61.997 60.000 0.00 0.00 0.00 6.13
2733 3643 1.750399 ATGGTGAATCTGTGCCGGC 60.750 57.895 22.73 22.73 0.00 6.13
2734 3644 2.045926 GGTGAATCTGTGCCGGCT 60.046 61.111 29.70 5.42 0.00 5.52
2735 3645 2.109126 GGTGAATCTGTGCCGGCTC 61.109 63.158 29.70 25.38 0.00 4.70
2736 3646 1.375908 GTGAATCTGTGCCGGCTCA 60.376 57.895 29.70 28.75 0.00 4.26
2737 3647 0.955428 GTGAATCTGTGCCGGCTCAA 60.955 55.000 29.22 20.43 0.00 3.02
2738 3648 0.955428 TGAATCTGTGCCGGCTCAAC 60.955 55.000 29.22 19.41 0.00 3.18
2739 3649 1.648467 GAATCTGTGCCGGCTCAACC 61.648 60.000 29.22 15.59 0.00 3.77
2740 3650 3.628646 ATCTGTGCCGGCTCAACCC 62.629 63.158 29.22 10.59 33.26 4.11
2747 3657 3.508840 CGGCTCAACCCGGCAATC 61.509 66.667 0.00 0.00 44.46 2.67
2748 3658 2.044946 GGCTCAACCCGGCAATCT 60.045 61.111 0.00 0.00 0.00 2.40
2749 3659 2.409870 GGCTCAACCCGGCAATCTG 61.410 63.158 0.00 0.00 0.00 2.90
2750 3660 1.377202 GCTCAACCCGGCAATCTGA 60.377 57.895 0.00 0.00 0.00 3.27
2751 3661 1.648467 GCTCAACCCGGCAATCTGAC 61.648 60.000 0.00 0.00 0.00 3.51
2752 3662 1.002624 TCAACCCGGCAATCTGACC 60.003 57.895 0.00 0.00 0.00 4.02
2753 3663 2.046285 CAACCCGGCAATCTGACCC 61.046 63.158 0.00 0.00 0.00 4.46
2754 3664 2.534396 AACCCGGCAATCTGACCCA 61.534 57.895 0.00 0.00 0.00 4.51
2755 3665 1.863155 AACCCGGCAATCTGACCCAT 61.863 55.000 0.00 0.00 0.00 4.00
2756 3666 1.825191 CCCGGCAATCTGACCCATG 60.825 63.158 0.00 0.00 0.00 3.66
2757 3667 1.825191 CCGGCAATCTGACCCATGG 60.825 63.158 4.14 4.14 0.00 3.66
2758 3668 1.825191 CGGCAATCTGACCCATGGG 60.825 63.158 30.23 30.23 42.03 4.00
2802 3712 0.690762 CCGAATGGGTAGGGTATGGG 59.309 60.000 0.00 0.00 0.00 4.00
2803 3713 1.430992 CGAATGGGTAGGGTATGGGT 58.569 55.000 0.00 0.00 0.00 4.51
2804 3714 1.346722 CGAATGGGTAGGGTATGGGTC 59.653 57.143 0.00 0.00 0.00 4.46
2805 3715 1.346722 GAATGGGTAGGGTATGGGTCG 59.653 57.143 0.00 0.00 0.00 4.79
2806 3716 0.266753 ATGGGTAGGGTATGGGTCGT 59.733 55.000 0.00 0.00 0.00 4.34
2807 3717 0.397535 TGGGTAGGGTATGGGTCGTC 60.398 60.000 0.00 0.00 0.00 4.20
2808 3718 0.397535 GGGTAGGGTATGGGTCGTCA 60.398 60.000 0.00 0.00 0.00 4.35
2809 3719 1.713297 GGTAGGGTATGGGTCGTCAT 58.287 55.000 0.00 0.00 0.00 3.06
2810 3720 1.617357 GGTAGGGTATGGGTCGTCATC 59.383 57.143 0.00 0.00 0.00 2.92
2811 3721 2.595238 GTAGGGTATGGGTCGTCATCT 58.405 52.381 0.00 0.00 0.00 2.90
2812 3722 2.176247 AGGGTATGGGTCGTCATCTT 57.824 50.000 0.00 0.00 0.00 2.40
2813 3723 2.478292 AGGGTATGGGTCGTCATCTTT 58.522 47.619 0.00 0.00 0.00 2.52
2814 3724 3.649843 AGGGTATGGGTCGTCATCTTTA 58.350 45.455 0.00 0.00 0.00 1.85
2815 3725 3.387050 AGGGTATGGGTCGTCATCTTTAC 59.613 47.826 0.00 0.00 0.00 2.01
2816 3726 3.493873 GGGTATGGGTCGTCATCTTTACC 60.494 52.174 0.00 0.00 0.00 2.85
2821 3731 2.561569 GGTCGTCATCTTTACCCATGG 58.438 52.381 4.14 4.14 0.00 3.66
2822 3732 2.561569 GTCGTCATCTTTACCCATGGG 58.438 52.381 30.23 30.23 42.03 4.00
2837 3747 3.975025 GGGTAAGCCCGATGGGTA 58.025 61.111 3.40 0.00 46.51 3.69
2838 3748 2.223852 GGGTAAGCCCGATGGGTAA 58.776 57.895 3.40 0.00 46.51 2.85
2839 3749 0.179037 GGGTAAGCCCGATGGGTAAC 60.179 60.000 3.40 0.00 46.51 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.463833 GGAAGGTTGATTCGCGGGAT 60.464 55.000 6.13 0.00 0.00 3.85
33 34 1.095600 GAAGGGGAAGGTTGATTCGC 58.904 55.000 0.00 0.00 40.40 4.70
35 36 4.265893 GAGAAGAAGGGGAAGGTTGATTC 58.734 47.826 0.00 0.00 0.00 2.52
47 48 1.961180 ATGGTCGCGGAGAAGAAGGG 61.961 60.000 6.13 0.00 0.00 3.95
59 60 1.520342 GCAGTCTCTGGATGGTCGC 60.520 63.158 0.00 0.00 31.21 5.19
62 63 3.023949 GCGGCAGTCTCTGGATGGT 62.024 63.158 0.00 0.00 31.21 3.55
63 64 2.202987 GCGGCAGTCTCTGGATGG 60.203 66.667 0.00 0.00 31.21 3.51
64 65 0.461548 TAAGCGGCAGTCTCTGGATG 59.538 55.000 1.45 0.00 31.21 3.51
65 66 0.749649 CTAAGCGGCAGTCTCTGGAT 59.250 55.000 1.45 0.00 31.21 3.41
66 67 1.323271 CCTAAGCGGCAGTCTCTGGA 61.323 60.000 1.45 0.00 31.21 3.86
67 68 1.142748 CCTAAGCGGCAGTCTCTGG 59.857 63.158 1.45 0.00 31.21 3.86
73 74 1.221021 GCTAACCCTAAGCGGCAGT 59.779 57.895 1.45 0.00 0.00 4.40
129 131 4.095400 AGGGAGGCGATCTGGGGT 62.095 66.667 0.00 0.00 0.00 4.95
132 134 3.610669 CGGAGGGAGGCGATCTGG 61.611 72.222 0.00 0.00 0.00 3.86
133 135 4.292178 GCGGAGGGAGGCGATCTG 62.292 72.222 0.00 0.00 0.00 2.90
189 559 0.252742 ACCTGTAAGTGGAGGGAGGG 60.253 60.000 0.00 0.00 33.16 4.30
209 579 0.460811 TCATGCGCAGATCTGTCCAC 60.461 55.000 23.38 11.18 0.00 4.02
262 635 2.061773 CAGAATCCTTATGGCGCTACG 58.938 52.381 7.64 0.00 0.00 3.51
268 641 3.696051 TGAACAAGCAGAATCCTTATGGC 59.304 43.478 0.00 0.00 0.00 4.40
340 717 6.486657 GCTTCATAGGTTTGGCTCATTACATA 59.513 38.462 0.00 0.00 0.00 2.29
422 799 4.515191 ACACACACGCATCTGAAATAAACT 59.485 37.500 0.00 0.00 0.00 2.66
485 862 4.439057 TCTCAATCTGTTACCGGCATTAC 58.561 43.478 0.00 0.00 0.00 1.89
499 876 5.964958 TTTGCGAAAAATCCTCTCAATCT 57.035 34.783 0.00 0.00 0.00 2.40
500 877 6.802950 GATTTGCGAAAAATCCTCTCAATC 57.197 37.500 11.11 0.00 32.07 2.67
509 886 4.719040 ACTACGTGGATTTGCGAAAAATC 58.281 39.130 5.70 12.97 36.25 2.17
511 888 4.555348 AACTACGTGGATTTGCGAAAAA 57.445 36.364 5.70 0.00 0.00 1.94
525 902 5.656213 AATTAGCCACTCAGTAACTACGT 57.344 39.130 0.00 0.00 0.00 3.57
534 911 4.520492 ACCAACAAGAAATTAGCCACTCAG 59.480 41.667 0.00 0.00 0.00 3.35
538 915 5.705905 ACTAGACCAACAAGAAATTAGCCAC 59.294 40.000 0.00 0.00 0.00 5.01
541 918 5.938125 TCCACTAGACCAACAAGAAATTAGC 59.062 40.000 0.00 0.00 0.00 3.09
592 969 2.171659 TGGCAGGTTCACAAGTAAGACA 59.828 45.455 0.00 0.00 0.00 3.41
636 1016 9.673454 CCTAGACTAATTTGTTTGGTGTTTAAC 57.327 33.333 0.00 0.00 0.00 2.01
664 1044 6.381498 TGGTGAATGGTGGAGTCTTAAATA 57.619 37.500 0.00 0.00 0.00 1.40
665 1045 5.255397 TGGTGAATGGTGGAGTCTTAAAT 57.745 39.130 0.00 0.00 0.00 1.40
666 1046 4.715534 TGGTGAATGGTGGAGTCTTAAA 57.284 40.909 0.00 0.00 0.00 1.52
669 1049 4.080863 GTCTATGGTGAATGGTGGAGTCTT 60.081 45.833 0.00 0.00 0.00 3.01
671 1051 3.197766 TGTCTATGGTGAATGGTGGAGTC 59.802 47.826 0.00 0.00 0.00 3.36
672 1052 3.181329 TGTCTATGGTGAATGGTGGAGT 58.819 45.455 0.00 0.00 0.00 3.85
722 1105 5.007136 GCTAGTGAAATTAGTGATCACCTGC 59.993 44.000 22.21 11.16 43.46 4.85
794 1177 4.157105 CGAATTTCCAGTAAACCCCGAAAT 59.843 41.667 0.00 0.00 35.27 2.17
862 1245 1.883275 TGCCAATACCAACTGAAACCG 59.117 47.619 0.00 0.00 0.00 4.44
863 1246 4.535526 AATGCCAATACCAACTGAAACC 57.464 40.909 0.00 0.00 0.00 3.27
881 1264 6.856426 CAGATTCATGTGCATACTGCTAAATG 59.144 38.462 0.00 2.65 45.31 2.32
895 1278 5.357314 AGCTTGGAAAGATCAGATTCATGTG 59.643 40.000 0.00 0.00 38.98 3.21
918 1301 6.284459 AGAAAGTGGTTCTTTGTCTACTGAG 58.716 40.000 0.00 0.00 44.64 3.35
1124 1510 7.285401 ACTTCTGGTGTGTTTGTTTGATATCTT 59.715 33.333 3.98 0.00 0.00 2.40
1154 1540 3.025978 CCCACTACGACCACCTATACAA 58.974 50.000 0.00 0.00 0.00 2.41
1156 1542 2.360165 CACCCACTACGACCACCTATAC 59.640 54.545 0.00 0.00 0.00 1.47
1157 1543 2.658285 CACCCACTACGACCACCTATA 58.342 52.381 0.00 0.00 0.00 1.31
1161 1547 2.047560 GCACCCACTACGACCACC 60.048 66.667 0.00 0.00 0.00 4.61
1162 1548 1.666872 GTGCACCCACTACGACCAC 60.667 63.158 5.22 0.00 38.93 4.16
1163 1549 1.476845 ATGTGCACCCACTACGACCA 61.477 55.000 15.69 0.00 42.54 4.02
1186 1577 2.694628 ACAAGAATGCACTTGAAAGGCA 59.305 40.909 20.45 8.13 46.85 4.75
1240 1631 1.194121 TCCAGCTTGCACCTCAGCTA 61.194 55.000 10.21 0.00 35.68 3.32
1473 1867 6.424683 CGGTCTTGTTAGAAAAGTAAACCAC 58.575 40.000 0.00 0.00 30.65 4.16
1475 1869 5.528690 ACCGGTCTTGTTAGAAAAGTAAACC 59.471 40.000 0.00 0.00 30.65 3.27
1490 1895 2.858260 GCAACAAATGTGACCGGTCTTG 60.858 50.000 33.39 28.59 0.00 3.02
1494 1899 0.467290 AGGCAACAAATGTGACCGGT 60.467 50.000 6.92 6.92 41.41 5.28
1642 2449 1.762957 GATCGGTTTCCAGATGGAGGA 59.237 52.381 1.13 0.00 46.36 3.71
1783 2590 4.790962 ATGGCAGCACCCAGAGCG 62.791 66.667 0.00 0.00 38.50 5.03
1786 2593 1.072806 GATATGATGGCAGCACCCAGA 59.927 52.381 7.97 0.00 38.50 3.86
1867 2674 1.837439 AGCAATGTTACCCCTCATCGA 59.163 47.619 0.00 0.00 0.00 3.59
1926 2734 9.950496 AGATTGATAAGACTTTATGACAACTGT 57.050 29.630 0.00 0.00 29.67 3.55
2001 2811 5.885881 TCGGATCCCAAAATTATGTTTTCG 58.114 37.500 6.06 0.00 0.00 3.46
2035 2869 3.303229 CGAAAACACTGAAACCAAAGCAC 59.697 43.478 0.00 0.00 0.00 4.40
2129 2963 0.171679 TGCAACATATGTGCAGCAGC 59.828 50.000 21.44 14.10 42.57 5.25
2147 2981 5.334105 CCTGGAGTCGAAAATACAACACTTG 60.334 44.000 0.00 0.00 0.00 3.16
2176 3010 3.089284 GACTATTCCCCCACAACCAAAG 58.911 50.000 0.00 0.00 0.00 2.77
2215 3050 0.690762 GTGGCAGTTTCTACCCAGGA 59.309 55.000 0.00 0.00 0.00 3.86
2221 3056 0.953960 CCACGGGTGGCAGTTTCTAC 60.954 60.000 4.68 0.00 44.73 2.59
2222 3057 1.373435 CCACGGGTGGCAGTTTCTA 59.627 57.895 4.68 0.00 44.73 2.10
2246 3081 0.467290 TTTGCCCAGGGACAGTTGTC 60.467 55.000 10.89 3.67 44.04 3.18
2247 3082 0.188342 ATTTGCCCAGGGACAGTTGT 59.812 50.000 10.89 0.00 0.00 3.32
2248 3083 1.001181 CAATTTGCCCAGGGACAGTTG 59.999 52.381 10.89 11.59 0.00 3.16
2249 3084 1.341080 CAATTTGCCCAGGGACAGTT 58.659 50.000 10.89 3.53 0.00 3.16
2250 3085 0.542702 CCAATTTGCCCAGGGACAGT 60.543 55.000 10.89 0.00 0.00 3.55
2251 3086 1.891722 GCCAATTTGCCCAGGGACAG 61.892 60.000 10.89 0.00 0.00 3.51
2252 3087 1.912763 GCCAATTTGCCCAGGGACA 60.913 57.895 10.89 3.72 0.00 4.02
2253 3088 1.194121 AAGCCAATTTGCCCAGGGAC 61.194 55.000 10.89 0.46 0.00 4.46
2254 3089 0.904394 GAAGCCAATTTGCCCAGGGA 60.904 55.000 10.89 0.00 0.00 4.20
2255 3090 1.193462 TGAAGCCAATTTGCCCAGGG 61.193 55.000 0.00 0.00 0.00 4.45
2262 3097 2.620242 CGGGGATTTGAAGCCAATTTG 58.380 47.619 0.00 0.00 35.79 2.32
2278 3113 4.337274 CACTAGTTTATTTTTAGCCCGGGG 59.663 45.833 25.28 9.31 0.00 5.73
2298 3133 0.464036 TGACAAGACCAACGAGCACT 59.536 50.000 0.00 0.00 0.00 4.40
2299 3134 1.261619 CTTGACAAGACCAACGAGCAC 59.738 52.381 9.76 0.00 0.00 4.40
2300 3135 1.581934 CTTGACAAGACCAACGAGCA 58.418 50.000 9.76 0.00 0.00 4.26
2305 3183 0.954452 CAGCCCTTGACAAGACCAAC 59.046 55.000 16.99 1.38 0.00 3.77
2404 3282 1.002033 GCGGTGTTCTCGTCGGTATAT 60.002 52.381 0.00 0.00 0.00 0.86
2406 3284 1.138247 GCGGTGTTCTCGTCGGTAT 59.862 57.895 0.00 0.00 0.00 2.73
2460 3338 0.321671 AGGTGTCATGTTGAGGACGG 59.678 55.000 0.00 0.00 35.57 4.79
2466 3344 1.605457 GCTCGACAGGTGTCATGTTGA 60.605 52.381 10.63 0.90 44.99 3.18
2467 3345 0.792640 GCTCGACAGGTGTCATGTTG 59.207 55.000 10.63 0.00 44.99 3.33
2468 3346 0.392706 TGCTCGACAGGTGTCATGTT 59.607 50.000 10.63 0.00 44.99 2.71
2469 3347 0.319900 GTGCTCGACAGGTGTCATGT 60.320 55.000 10.63 0.00 44.99 3.21
2470 3348 1.347097 CGTGCTCGACAGGTGTCATG 61.347 60.000 10.63 3.47 44.99 3.07
2471 3349 1.080501 CGTGCTCGACAGGTGTCAT 60.081 57.895 10.63 0.00 44.99 3.06
2472 3350 2.130073 CTCGTGCTCGACAGGTGTCA 62.130 60.000 6.80 0.00 44.99 3.58
2473 3351 1.442857 CTCGTGCTCGACAGGTGTC 60.443 63.158 6.80 0.00 41.35 3.67
2474 3352 2.645567 CTCGTGCTCGACAGGTGT 59.354 61.111 6.80 0.00 41.35 4.16
2475 3353 2.126307 CCTCGTGCTCGACAGGTG 60.126 66.667 6.80 0.00 41.35 4.00
2476 3354 2.597805 ACCTCGTGCTCGACAGGT 60.598 61.111 14.28 14.28 41.35 4.00
2477 3355 2.179517 GACCTCGTGCTCGACAGG 59.820 66.667 6.80 10.58 41.35 4.00
2478 3356 2.202362 CGACCTCGTGCTCGACAG 60.202 66.667 6.80 4.44 41.35 3.51
2493 3371 4.069232 CTTGGCTGGCGAGGACGA 62.069 66.667 10.51 0.00 42.66 4.20
2495 3373 4.704833 TGCTTGGCTGGCGAGGAC 62.705 66.667 18.94 5.07 0.00 3.85
2496 3374 4.399395 CTGCTTGGCTGGCGAGGA 62.399 66.667 18.94 15.58 0.00 3.71
2558 3468 1.072331 AGGTGGTCATCGACAAGCTTT 59.928 47.619 0.00 0.00 40.90 3.51
2559 3469 0.687354 AGGTGGTCATCGACAAGCTT 59.313 50.000 0.00 0.00 40.90 3.74
2582 3492 2.240500 CCATACGCCGAGCAGAAGC 61.241 63.158 0.00 0.00 42.56 3.86
2583 3493 1.592669 CCCATACGCCGAGCAGAAG 60.593 63.158 0.00 0.00 0.00 2.85
2584 3494 2.355986 ACCCATACGCCGAGCAGAA 61.356 57.895 0.00 0.00 0.00 3.02
2585 3495 2.758327 ACCCATACGCCGAGCAGA 60.758 61.111 0.00 0.00 0.00 4.26
2586 3496 2.586079 CACCCATACGCCGAGCAG 60.586 66.667 0.00 0.00 0.00 4.24
2587 3497 2.845752 GAACACCCATACGCCGAGCA 62.846 60.000 0.00 0.00 0.00 4.26
2588 3498 2.125269 AACACCCATACGCCGAGC 60.125 61.111 0.00 0.00 0.00 5.03
2589 3499 1.520787 GGAACACCCATACGCCGAG 60.521 63.158 0.00 0.00 34.14 4.63
2590 3500 2.580276 GGAACACCCATACGCCGA 59.420 61.111 0.00 0.00 34.14 5.54
2591 3501 2.888534 CGGAACACCCATACGCCG 60.889 66.667 0.00 0.00 34.14 6.46
2592 3502 3.199891 GCGGAACACCCATACGCC 61.200 66.667 0.00 0.00 44.01 5.68
2594 3504 1.153249 ATGGCGGAACACCCATACG 60.153 57.895 0.00 0.00 39.96 3.06
2595 3505 0.818040 GGATGGCGGAACACCCATAC 60.818 60.000 0.00 0.00 41.74 2.39
2596 3506 1.529796 GGATGGCGGAACACCCATA 59.470 57.895 0.00 0.00 41.74 2.74
2597 3507 2.275418 GGATGGCGGAACACCCAT 59.725 61.111 0.00 0.00 44.25 4.00
2598 3508 4.402528 CGGATGGCGGAACACCCA 62.403 66.667 0.00 0.00 35.21 4.51
2608 3518 3.512516 GCTCACCAAGCGGATGGC 61.513 66.667 6.19 0.00 44.75 4.40
2616 3526 3.594134 CCTGTTTCTCTAGCTCACCAAG 58.406 50.000 0.00 0.00 0.00 3.61
2617 3527 2.303022 CCCTGTTTCTCTAGCTCACCAA 59.697 50.000 0.00 0.00 0.00 3.67
2618 3528 1.902508 CCCTGTTTCTCTAGCTCACCA 59.097 52.381 0.00 0.00 0.00 4.17
2619 3529 2.180276 TCCCTGTTTCTCTAGCTCACC 58.820 52.381 0.00 0.00 0.00 4.02
2620 3530 3.704061 AGATCCCTGTTTCTCTAGCTCAC 59.296 47.826 0.00 0.00 0.00 3.51
2621 3531 3.957497 GAGATCCCTGTTTCTCTAGCTCA 59.043 47.826 0.00 0.00 36.32 4.26
2622 3532 3.957497 TGAGATCCCTGTTTCTCTAGCTC 59.043 47.826 0.00 0.00 39.30 4.09
2623 3533 3.987745 TGAGATCCCTGTTTCTCTAGCT 58.012 45.455 0.00 0.00 39.30 3.32
2624 3534 4.953940 ATGAGATCCCTGTTTCTCTAGC 57.046 45.455 0.00 0.00 39.30 3.42
2625 3535 7.537596 ACATATGAGATCCCTGTTTCTCTAG 57.462 40.000 10.38 0.00 39.30 2.43
2626 3536 7.015682 GGAACATATGAGATCCCTGTTTCTCTA 59.984 40.741 10.38 0.00 39.30 2.43
2627 3537 6.183361 GGAACATATGAGATCCCTGTTTCTCT 60.183 42.308 10.38 0.00 39.30 3.10
2628 3538 5.994668 GGAACATATGAGATCCCTGTTTCTC 59.005 44.000 10.38 0.00 39.07 2.87
2629 3539 5.163152 GGGAACATATGAGATCCCTGTTTCT 60.163 44.000 25.59 0.00 46.65 2.52
2630 3540 5.066593 GGGAACATATGAGATCCCTGTTTC 58.933 45.833 25.59 10.89 46.65 2.78
2631 3541 5.053978 GGGAACATATGAGATCCCTGTTT 57.946 43.478 25.59 3.91 46.65 2.83
2632 3542 4.713792 GGGAACATATGAGATCCCTGTT 57.286 45.455 25.59 5.73 46.65 3.16
2637 3547 3.672808 CTGCTGGGAACATATGAGATCC 58.327 50.000 10.38 13.07 41.51 3.36
2638 3548 3.072944 GCTGCTGGGAACATATGAGATC 58.927 50.000 10.38 4.68 41.51 2.75
2639 3549 2.224719 GGCTGCTGGGAACATATGAGAT 60.225 50.000 10.38 0.00 41.51 2.75
2640 3550 1.141657 GGCTGCTGGGAACATATGAGA 59.858 52.381 10.38 0.00 41.51 3.27
2641 3551 1.602311 GGCTGCTGGGAACATATGAG 58.398 55.000 10.38 0.00 41.51 2.90
2642 3552 0.183492 GGGCTGCTGGGAACATATGA 59.817 55.000 10.38 0.00 41.51 2.15
2643 3553 1.168407 CGGGCTGCTGGGAACATATG 61.168 60.000 0.00 0.00 41.51 1.78
2644 3554 1.149174 CGGGCTGCTGGGAACATAT 59.851 57.895 0.00 0.00 41.51 1.78
2645 3555 2.589540 CGGGCTGCTGGGAACATA 59.410 61.111 0.00 0.00 41.51 2.29
2665 3575 0.833287 AGCTAATCATCACCGCCAGT 59.167 50.000 0.00 0.00 0.00 4.00
2666 3576 1.600957 CAAGCTAATCATCACCGCCAG 59.399 52.381 0.00 0.00 0.00 4.85
2667 3577 1.667236 CAAGCTAATCATCACCGCCA 58.333 50.000 0.00 0.00 0.00 5.69
2668 3578 0.947244 CCAAGCTAATCATCACCGCC 59.053 55.000 0.00 0.00 0.00 6.13
2669 3579 1.331756 CACCAAGCTAATCATCACCGC 59.668 52.381 0.00 0.00 0.00 5.68
2670 3580 2.905075 TCACCAAGCTAATCATCACCG 58.095 47.619 0.00 0.00 0.00 4.94
2671 3581 4.889832 CTTCACCAAGCTAATCATCACC 57.110 45.455 0.00 0.00 0.00 4.02
2683 3593 2.332063 ACATATCCCGCTTCACCAAG 57.668 50.000 0.00 0.00 0.00 3.61
2684 3594 2.799126 AACATATCCCGCTTCACCAA 57.201 45.000 0.00 0.00 0.00 3.67
2685 3595 2.639065 GAAACATATCCCGCTTCACCA 58.361 47.619 0.00 0.00 0.00 4.17
2686 3596 1.947456 GGAAACATATCCCGCTTCACC 59.053 52.381 0.00 0.00 33.05 4.02
2687 3597 2.872858 GAGGAAACATATCCCGCTTCAC 59.127 50.000 0.00 0.00 40.59 3.18
2688 3598 2.503765 TGAGGAAACATATCCCGCTTCA 59.496 45.455 0.00 0.00 40.59 3.02
2689 3599 3.194005 TGAGGAAACATATCCCGCTTC 57.806 47.619 0.00 0.00 40.59 3.86
2690 3600 3.644966 TTGAGGAAACATATCCCGCTT 57.355 42.857 0.00 0.00 40.59 4.68
2691 3601 3.864789 ATTGAGGAAACATATCCCGCT 57.135 42.857 0.00 0.00 40.59 5.52
2692 3602 3.550842 GCAATTGAGGAAACATATCCCGC 60.551 47.826 10.34 0.00 40.59 6.13
2693 3603 3.631686 TGCAATTGAGGAAACATATCCCG 59.368 43.478 10.34 0.00 40.59 5.14
2694 3604 5.510179 CCATGCAATTGAGGAAACATATCCC 60.510 44.000 10.34 0.00 40.59 3.85
2695 3605 5.069516 ACCATGCAATTGAGGAAACATATCC 59.930 40.000 10.34 0.00 39.96 2.59
2696 3606 5.981315 CACCATGCAATTGAGGAAACATATC 59.019 40.000 10.34 0.00 0.00 1.63
2697 3607 5.657745 TCACCATGCAATTGAGGAAACATAT 59.342 36.000 10.34 0.00 0.00 1.78
2698 3608 5.015515 TCACCATGCAATTGAGGAAACATA 58.984 37.500 10.34 0.00 0.00 2.29
2699 3609 3.833650 TCACCATGCAATTGAGGAAACAT 59.166 39.130 10.34 0.00 0.00 2.71
2700 3610 3.229293 TCACCATGCAATTGAGGAAACA 58.771 40.909 10.34 0.00 0.00 2.83
2701 3611 3.940209 TCACCATGCAATTGAGGAAAC 57.060 42.857 10.34 0.00 0.00 2.78
2702 3612 4.773674 AGATTCACCATGCAATTGAGGAAA 59.226 37.500 10.34 8.00 0.00 3.13
2703 3613 4.158949 CAGATTCACCATGCAATTGAGGAA 59.841 41.667 10.34 3.32 0.00 3.36
2704 3614 3.697542 CAGATTCACCATGCAATTGAGGA 59.302 43.478 10.34 0.00 0.00 3.71
2705 3615 3.446161 ACAGATTCACCATGCAATTGAGG 59.554 43.478 10.34 9.90 0.00 3.86
2706 3616 4.421058 CACAGATTCACCATGCAATTGAG 58.579 43.478 10.34 0.00 0.00 3.02
2707 3617 3.367600 GCACAGATTCACCATGCAATTGA 60.368 43.478 10.34 0.00 36.30 2.57
2708 3618 2.927477 GCACAGATTCACCATGCAATTG 59.073 45.455 0.00 0.00 36.30 2.32
2709 3619 2.093869 GGCACAGATTCACCATGCAATT 60.094 45.455 0.00 0.00 38.05 2.32
2710 3620 1.479323 GGCACAGATTCACCATGCAAT 59.521 47.619 0.00 0.00 38.05 3.56
2711 3621 0.889994 GGCACAGATTCACCATGCAA 59.110 50.000 0.00 0.00 38.05 4.08
2712 3622 1.307355 CGGCACAGATTCACCATGCA 61.307 55.000 0.00 0.00 38.05 3.96
2713 3623 1.430632 CGGCACAGATTCACCATGC 59.569 57.895 0.00 0.00 35.51 4.06
2714 3624 1.996786 GCCGGCACAGATTCACCATG 61.997 60.000 24.80 0.00 0.00 3.66
2715 3625 1.750399 GCCGGCACAGATTCACCAT 60.750 57.895 24.80 0.00 0.00 3.55
2716 3626 2.359850 GCCGGCACAGATTCACCA 60.360 61.111 24.80 0.00 0.00 4.17
2717 3627 2.045926 AGCCGGCACAGATTCACC 60.046 61.111 31.54 0.00 0.00 4.02
2718 3628 0.955428 TTGAGCCGGCACAGATTCAC 60.955 55.000 31.54 8.27 0.00 3.18
2719 3629 0.955428 GTTGAGCCGGCACAGATTCA 60.955 55.000 31.54 19.69 0.00 2.57
2720 3630 1.648467 GGTTGAGCCGGCACAGATTC 61.648 60.000 31.54 16.99 0.00 2.52
2721 3631 1.675641 GGTTGAGCCGGCACAGATT 60.676 57.895 31.54 6.18 0.00 2.40
2722 3632 2.045926 GGTTGAGCCGGCACAGAT 60.046 61.111 31.54 7.13 0.00 2.90
2723 3633 4.329545 GGGTTGAGCCGGCACAGA 62.330 66.667 31.54 16.18 38.44 3.41
2730 3640 3.508840 GATTGCCGGGTTGAGCCG 61.509 66.667 14.27 14.27 38.44 5.52
2731 3641 2.044946 AGATTGCCGGGTTGAGCC 60.045 61.111 2.18 0.00 0.00 4.70
2732 3642 1.377202 TCAGATTGCCGGGTTGAGC 60.377 57.895 2.18 0.00 0.00 4.26
2733 3643 1.026718 GGTCAGATTGCCGGGTTGAG 61.027 60.000 2.18 0.00 0.00 3.02
2734 3644 1.002624 GGTCAGATTGCCGGGTTGA 60.003 57.895 2.18 0.00 0.00 3.18
2735 3645 2.046285 GGGTCAGATTGCCGGGTTG 61.046 63.158 2.18 0.00 0.00 3.77
2736 3646 1.863155 ATGGGTCAGATTGCCGGGTT 61.863 55.000 2.18 0.00 0.00 4.11
2737 3647 2.308722 ATGGGTCAGATTGCCGGGT 61.309 57.895 2.18 0.00 0.00 5.28
2738 3648 1.825191 CATGGGTCAGATTGCCGGG 60.825 63.158 2.18 0.00 0.00 5.73
2739 3649 1.825191 CCATGGGTCAGATTGCCGG 60.825 63.158 2.85 0.00 0.00 6.13
2740 3650 1.825191 CCCATGGGTCAGATTGCCG 60.825 63.158 23.93 0.00 0.00 5.69
2741 3651 4.265206 CCCATGGGTCAGATTGCC 57.735 61.111 23.93 0.00 0.00 4.52
2783 3693 0.690762 CCCATACCCTACCCATTCGG 59.309 60.000 0.00 0.00 37.81 4.30
2784 3694 1.346722 GACCCATACCCTACCCATTCG 59.653 57.143 0.00 0.00 0.00 3.34
2785 3695 1.346722 CGACCCATACCCTACCCATTC 59.653 57.143 0.00 0.00 0.00 2.67
2786 3696 1.344701 ACGACCCATACCCTACCCATT 60.345 52.381 0.00 0.00 0.00 3.16
2787 3697 0.266753 ACGACCCATACCCTACCCAT 59.733 55.000 0.00 0.00 0.00 4.00
2788 3698 0.397535 GACGACCCATACCCTACCCA 60.398 60.000 0.00 0.00 0.00 4.51
2789 3699 0.397535 TGACGACCCATACCCTACCC 60.398 60.000 0.00 0.00 0.00 3.69
2790 3700 1.617357 GATGACGACCCATACCCTACC 59.383 57.143 0.00 0.00 0.00 3.18
2791 3701 2.595238 AGATGACGACCCATACCCTAC 58.405 52.381 0.00 0.00 0.00 3.18
2792 3702 3.323774 AAGATGACGACCCATACCCTA 57.676 47.619 0.00 0.00 0.00 3.53
2793 3703 2.176247 AAGATGACGACCCATACCCT 57.824 50.000 0.00 0.00 0.00 4.34
2794 3704 3.493873 GGTAAAGATGACGACCCATACCC 60.494 52.174 0.00 0.00 0.00 3.69
2795 3705 3.725490 GGTAAAGATGACGACCCATACC 58.275 50.000 0.00 0.00 0.00 2.73
2801 3711 2.561569 CCATGGGTAAAGATGACGACC 58.438 52.381 2.85 0.00 0.00 4.79
2802 3712 2.561569 CCCATGGGTAAAGATGACGAC 58.438 52.381 23.93 0.00 0.00 4.34
2828 3738 1.690352 ACTAATCGGGTTACCCATCGG 59.310 52.381 21.58 3.84 45.83 4.18
2829 3739 2.750948 CACTAATCGGGTTACCCATCG 58.249 52.381 21.58 6.72 45.83 3.84


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

AutoCloner maintained by Alex Coulton.