Multiple sequence alignment - TraesCS4B01G131900

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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 TraesCS4B01G131900 chr4B 100.000 2405 0 0 1 2405 172319961 172322365 0.000000e+00 4442.0
1 TraesCS4B01G131900 chr4B 90.217 184 15 3 80 263 20300327 20300507 1.110000e-58 237.0
2 TraesCS4B01G131900 chr4D 88.080 1401 73 24 702 2065 111139853 111141196 0.000000e+00 1576.0
3 TraesCS4B01G131900 chr4D 85.476 420 33 22 266 664 111139437 111139849 1.720000e-111 412.0
4 TraesCS4B01G131900 chr4D 84.726 347 9 14 2068 2405 111141711 111142022 8.350000e-80 307.0
5 TraesCS4B01G131900 chr4A 85.648 648 38 23 1789 2404 465789825 465789201 4.360000e-177 630.0
6 TraesCS4B01G131900 chr4A 89.225 529 22 10 1274 1798 465790498 465790001 1.570000e-176 628.0
7 TraesCS4B01G131900 chr4A 86.923 390 25 5 751 1139 465790886 465790522 4.780000e-112 414.0
8 TraesCS4B01G131900 chr4A 87.083 240 17 7 513 745 465793394 465793162 2.370000e-65 259.0
9 TraesCS4B01G131900 chr4A 93.902 82 5 0 172 253 465793842 465793761 9.030000e-25 124.0
10 TraesCS4B01G131900 chr7D 91.257 183 13 3 81 263 418627152 418627331 1.850000e-61 246.0
11 TraesCS4B01G131900 chr7D 90.164 183 15 3 81 263 417938244 417938423 4.000000e-58 235.0
12 TraesCS4B01G131900 chr6D 90.055 181 17 1 83 263 358209522 358209343 1.440000e-57 233.0
13 TraesCS4B01G131900 chr7A 87.097 186 16 6 79 263 731748544 731748366 1.130000e-48 204.0
14 TraesCS4B01G131900 chr7A 89.308 159 16 1 105 263 94386936 94386779 5.240000e-47 198.0
15 TraesCS4B01G131900 chr7B 91.549 142 10 2 122 263 433881571 433881710 6.780000e-46 195.0
16 TraesCS4B01G131900 chr1A 90.000 150 14 1 114 263 577826151 577826299 2.440000e-45 193.0
17 TraesCS4B01G131900 chr1D 80.769 182 16 8 82 263 21909903 21910065 9.030000e-25 124.0
18 TraesCS4B01G131900 chr2B 88.000 75 6 3 1331 1405 379880968 379880897 4.260000e-13 86.1
19 TraesCS4B01G131900 chr2D 86.250 80 7 4 1331 1410 312026893 312026968 1.530000e-12 84.2


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 TraesCS4B01G131900 chr4B 172319961 172322365 2404 False 4442 4442 100.0000 1 2405 1 chr4B.!!$F2 2404
1 TraesCS4B01G131900 chr4D 111139437 111142022 2585 False 765 1576 86.0940 266 2405 3 chr4D.!!$F1 2139
2 TraesCS4B01G131900 chr4A 465789201 465793842 4641 True 411 630 88.5562 172 2404 5 chr4A.!!$R1 2232

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
65 66 0.035317 GACTCCATGCCAGTGTGTGA 59.965 55.0 0.47 0.0 0.0 3.58 F
66 67 0.035881 ACTCCATGCCAGTGTGTGAG 59.964 55.0 0.00 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1199 3627 0.389426 AGCAGACGTTAATTCGCCGT 60.389 50.0 0.00 0.0 37.56 5.68 R
1754 4191 0.580578 TGTAGTACGAGCGAGCGATC 59.419 55.0 4.36 0.0 34.83 3.69 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
32 33 5.959583 CCTAATCTAGGTCAAAGGTCCTT 57.040 43.478 0.00 0.00 41.18 3.36
33 34 5.919755 CCTAATCTAGGTCAAAGGTCCTTC 58.080 45.833 4.10 0.00 41.18 3.46
34 35 5.663556 CCTAATCTAGGTCAAAGGTCCTTCT 59.336 44.000 4.10 0.00 41.18 2.85
35 36 5.685520 AATCTAGGTCAAAGGTCCTTCTC 57.314 43.478 4.10 0.00 34.29 2.87
36 37 3.442076 TCTAGGTCAAAGGTCCTTCTCC 58.558 50.000 4.10 7.93 34.29 3.71
37 38 0.977395 AGGTCAAAGGTCCTTCTCCG 59.023 55.000 4.10 0.00 0.00 4.63
38 39 0.036294 GGTCAAAGGTCCTTCTCCGG 60.036 60.000 4.10 0.00 0.00 5.14
39 40 0.685660 GTCAAAGGTCCTTCTCCGGT 59.314 55.000 4.10 0.00 0.00 5.28
40 41 1.071857 GTCAAAGGTCCTTCTCCGGTT 59.928 52.381 4.10 0.00 0.00 4.44
41 42 2.301009 GTCAAAGGTCCTTCTCCGGTTA 59.699 50.000 4.10 0.00 0.00 2.85
42 43 3.055312 GTCAAAGGTCCTTCTCCGGTTAT 60.055 47.826 4.10 0.00 0.00 1.89
43 44 3.055385 TCAAAGGTCCTTCTCCGGTTATG 60.055 47.826 4.10 0.00 0.00 1.90
44 45 1.497161 AGGTCCTTCTCCGGTTATGG 58.503 55.000 0.00 2.82 0.00 2.74
45 46 1.007963 AGGTCCTTCTCCGGTTATGGA 59.992 52.381 0.00 5.35 36.37 3.41
59 60 4.567195 TGGAGACTCCATGCCAGT 57.433 55.556 20.74 0.00 42.67 4.00
60 61 1.985614 TGGAGACTCCATGCCAGTG 59.014 57.895 20.74 0.00 42.67 3.66
61 62 0.837691 TGGAGACTCCATGCCAGTGT 60.838 55.000 20.74 0.00 42.67 3.55
62 63 0.392193 GGAGACTCCATGCCAGTGTG 60.392 60.000 17.10 0.00 36.28 3.82
63 64 0.322975 GAGACTCCATGCCAGTGTGT 59.677 55.000 0.47 0.00 0.00 3.72
64 65 0.035881 AGACTCCATGCCAGTGTGTG 59.964 55.000 0.47 0.00 0.00 3.82
65 66 0.035317 GACTCCATGCCAGTGTGTGA 59.965 55.000 0.47 0.00 0.00 3.58
66 67 0.035881 ACTCCATGCCAGTGTGTGAG 59.964 55.000 0.00 0.00 0.00 3.51
67 68 0.675837 CTCCATGCCAGTGTGTGAGG 60.676 60.000 0.00 0.00 0.00 3.86
68 69 1.126948 TCCATGCCAGTGTGTGAGGA 61.127 55.000 0.00 0.00 0.00 3.71
69 70 0.957395 CCATGCCAGTGTGTGAGGAC 60.957 60.000 0.00 0.00 0.00 3.85
70 71 1.004560 ATGCCAGTGTGTGAGGACG 60.005 57.895 0.00 0.00 0.00 4.79
71 72 1.758440 ATGCCAGTGTGTGAGGACGT 61.758 55.000 0.00 0.00 0.00 4.34
72 73 1.227556 GCCAGTGTGTGAGGACGTT 60.228 57.895 0.00 0.00 0.00 3.99
73 74 0.814010 GCCAGTGTGTGAGGACGTTT 60.814 55.000 0.00 0.00 0.00 3.60
74 75 1.663695 CCAGTGTGTGAGGACGTTTT 58.336 50.000 0.00 0.00 0.00 2.43
75 76 2.014128 CCAGTGTGTGAGGACGTTTTT 58.986 47.619 0.00 0.00 0.00 1.94
124 125 9.219603 TCCTGCTTTATTTATTCATAAGGATCG 57.780 33.333 0.00 0.00 0.00 3.69
125 126 9.003658 CCTGCTTTATTTATTCATAAGGATCGT 57.996 33.333 0.00 0.00 0.00 3.73
128 129 9.974750 GCTTTATTTATTCATAAGGATCGTAGC 57.025 33.333 0.00 0.00 0.00 3.58
133 134 8.534333 TTTATTCATAAGGATCGTAGCATCAC 57.466 34.615 0.00 0.00 0.00 3.06
134 135 5.791336 TTCATAAGGATCGTAGCATCACT 57.209 39.130 0.00 0.00 0.00 3.41
135 136 5.791336 TCATAAGGATCGTAGCATCACTT 57.209 39.130 0.00 0.00 0.00 3.16
136 137 6.894339 TCATAAGGATCGTAGCATCACTTA 57.106 37.500 0.00 0.00 0.00 2.24
137 138 6.678878 TCATAAGGATCGTAGCATCACTTAC 58.321 40.000 0.00 0.00 0.00 2.34
138 139 4.323553 AAGGATCGTAGCATCACTTACC 57.676 45.455 0.00 0.00 0.00 2.85
139 140 3.296854 AGGATCGTAGCATCACTTACCA 58.703 45.455 0.00 0.00 0.00 3.25
140 141 3.704566 AGGATCGTAGCATCACTTACCAA 59.295 43.478 0.00 0.00 0.00 3.67
141 142 4.345257 AGGATCGTAGCATCACTTACCAAT 59.655 41.667 0.00 0.00 0.00 3.16
142 143 5.538813 AGGATCGTAGCATCACTTACCAATA 59.461 40.000 0.00 0.00 0.00 1.90
143 144 6.041637 AGGATCGTAGCATCACTTACCAATAA 59.958 38.462 0.00 0.00 0.00 1.40
144 145 6.366332 GGATCGTAGCATCACTTACCAATAAG 59.634 42.308 0.00 0.00 43.14 1.73
145 146 6.459670 TCGTAGCATCACTTACCAATAAGA 57.540 37.500 1.17 0.00 40.38 2.10
146 147 6.504398 TCGTAGCATCACTTACCAATAAGAG 58.496 40.000 1.17 0.00 40.38 2.85
147 148 5.692204 CGTAGCATCACTTACCAATAAGAGG 59.308 44.000 1.17 0.00 40.38 3.69
148 149 5.957771 AGCATCACTTACCAATAAGAGGA 57.042 39.130 1.17 0.00 40.38 3.71
149 150 6.313519 AGCATCACTTACCAATAAGAGGAA 57.686 37.500 1.17 0.00 40.38 3.36
150 151 6.904626 AGCATCACTTACCAATAAGAGGAAT 58.095 36.000 1.17 0.00 40.38 3.01
151 152 8.034313 AGCATCACTTACCAATAAGAGGAATA 57.966 34.615 1.17 0.00 40.38 1.75
152 153 8.494433 AGCATCACTTACCAATAAGAGGAATAA 58.506 33.333 1.17 0.00 40.38 1.40
153 154 8.560374 GCATCACTTACCAATAAGAGGAATAAC 58.440 37.037 1.17 0.00 40.38 1.89
154 155 9.057089 CATCACTTACCAATAAGAGGAATAACC 57.943 37.037 1.17 0.00 40.38 2.85
155 156 8.153221 TCACTTACCAATAAGAGGAATAACCA 57.847 34.615 1.17 0.00 40.38 3.67
156 157 8.044908 TCACTTACCAATAAGAGGAATAACCAC 58.955 37.037 1.17 0.00 40.38 4.16
157 158 7.827236 CACTTACCAATAAGAGGAATAACCACA 59.173 37.037 1.17 0.00 40.38 4.17
158 159 8.557450 ACTTACCAATAAGAGGAATAACCACAT 58.443 33.333 1.17 0.00 40.38 3.21
159 160 8.974060 TTACCAATAAGAGGAATAACCACATC 57.026 34.615 0.00 0.00 42.04 3.06
160 161 6.365520 ACCAATAAGAGGAATAACCACATCC 58.634 40.000 0.00 0.00 42.04 3.51
161 162 6.160459 ACCAATAAGAGGAATAACCACATCCT 59.840 38.462 0.00 0.00 46.14 3.24
162 163 6.488006 CCAATAAGAGGAATAACCACATCCTG 59.512 42.308 0.00 0.00 43.55 3.86
163 164 4.510167 AAGAGGAATAACCACATCCTGG 57.490 45.455 0.00 0.00 43.55 4.45
164 165 2.780010 AGAGGAATAACCACATCCTGGG 59.220 50.000 0.00 0.00 45.78 4.45
165 166 1.215423 AGGAATAACCACATCCTGGGC 59.785 52.381 0.00 0.00 45.78 5.36
166 167 1.308998 GAATAACCACATCCTGGGCG 58.691 55.000 0.00 0.00 45.78 6.13
167 168 0.106719 AATAACCACATCCTGGGCGG 60.107 55.000 0.00 0.00 45.78 6.13
168 169 1.279025 ATAACCACATCCTGGGCGGT 61.279 55.000 0.00 0.00 45.78 5.68
169 170 2.191786 TAACCACATCCTGGGCGGTG 62.192 60.000 0.00 0.10 45.78 4.94
170 171 4.033776 CCACATCCTGGGCGGTGT 62.034 66.667 10.74 2.20 36.18 4.16
199 200 7.285566 TCCAGATATTTGGAGGAGAAAATCTG 58.714 38.462 10.89 0.00 42.24 2.90
210 211 5.472347 AGGAGAAAATCTGGCTATCCTAGT 58.528 41.667 0.00 0.00 33.99 2.57
223 224 5.245075 GGCTATCCTAGTAAGTTCATGAGCT 59.755 44.000 6.20 6.20 0.00 4.09
233 234 8.485976 AGTAAGTTCATGAGCTACTTGATTTC 57.514 34.615 17.69 6.59 34.26 2.17
312 364 2.490991 GGCGGTAATGTATGGTCCTTC 58.509 52.381 0.00 0.00 0.00 3.46
314 366 3.322828 GGCGGTAATGTATGGTCCTTCTA 59.677 47.826 0.00 0.00 0.00 2.10
316 368 5.186409 GGCGGTAATGTATGGTCCTTCTATA 59.814 44.000 0.00 0.00 0.00 1.31
317 369 6.295462 GGCGGTAATGTATGGTCCTTCTATAA 60.295 42.308 0.00 0.00 0.00 0.98
318 370 6.812160 GCGGTAATGTATGGTCCTTCTATAAG 59.188 42.308 0.00 0.00 0.00 1.73
319 371 7.525029 GCGGTAATGTATGGTCCTTCTATAAGT 60.525 40.741 0.00 0.00 0.00 2.24
320 372 9.017509 CGGTAATGTATGGTCCTTCTATAAGTA 57.982 37.037 0.00 0.00 0.00 2.24
401 457 1.406887 GCGCTTCTCCTTGGGTTGATA 60.407 52.381 0.00 0.00 0.00 2.15
402 458 2.555199 CGCTTCTCCTTGGGTTGATAG 58.445 52.381 0.00 0.00 0.00 2.08
410 477 4.651778 TCCTTGGGTTGATAGTTTGACTG 58.348 43.478 0.00 0.00 0.00 3.51
422 489 8.579682 TGATAGTTTGACTGATCATTGATACG 57.420 34.615 0.00 0.00 33.85 3.06
423 490 5.725110 AGTTTGACTGATCATTGATACGC 57.275 39.130 0.00 0.00 33.85 4.42
425 492 6.573434 AGTTTGACTGATCATTGATACGCTA 58.427 36.000 0.00 0.00 33.85 4.26
426 493 6.699204 AGTTTGACTGATCATTGATACGCTAG 59.301 38.462 0.00 0.00 33.85 3.42
437 504 7.892609 TCATTGATACGCTAGTACATGGTTAT 58.107 34.615 0.00 0.00 35.39 1.89
453 520 3.259876 TGGTTATTGTAGTTCGGAGCACT 59.740 43.478 0.00 0.00 0.00 4.40
460 527 5.244785 TGTAGTTCGGAGCACTAATGTAG 57.755 43.478 0.00 0.00 0.00 2.74
462 529 2.496070 AGTTCGGAGCACTAATGTAGCA 59.504 45.455 0.00 0.00 0.00 3.49
467 534 2.932614 GGAGCACTAATGTAGCACACAG 59.067 50.000 0.00 0.00 41.51 3.66
468 535 3.368427 GGAGCACTAATGTAGCACACAGA 60.368 47.826 0.00 0.00 41.51 3.41
469 536 3.589988 AGCACTAATGTAGCACACAGAC 58.410 45.455 0.00 0.00 41.51 3.51
470 537 2.345641 GCACTAATGTAGCACACAGACG 59.654 50.000 0.00 0.00 41.51 4.18
471 538 2.923655 CACTAATGTAGCACACAGACGG 59.076 50.000 0.00 0.00 41.51 4.79
472 539 2.094182 ACTAATGTAGCACACAGACGGG 60.094 50.000 0.00 0.00 41.51 5.28
477 544 0.538746 TAGCACACAGACGGGTGAGA 60.539 55.000 10.50 0.00 41.32 3.27
496 563 2.147958 GAACCAATACACTGTTGCGGA 58.852 47.619 0.00 0.00 0.00 5.54
519 645 1.069636 GCACAAGTACTGCAGTTCAGC 60.070 52.381 27.06 17.57 46.76 4.26
525 651 2.231478 AGTACTGCAGTTCAGCGTACAT 59.769 45.455 27.06 0.00 46.76 2.29
661 790 2.237392 GGAGTACAACTTGCCCTCAGAT 59.763 50.000 0.00 0.00 0.00 2.90
664 793 4.327680 AGTACAACTTGCCCTCAGATTTC 58.672 43.478 0.00 0.00 0.00 2.17
665 794 2.519013 ACAACTTGCCCTCAGATTTCC 58.481 47.619 0.00 0.00 0.00 3.13
667 796 3.160269 CAACTTGCCCTCAGATTTCCTT 58.840 45.455 0.00 0.00 0.00 3.36
668 797 3.532641 ACTTGCCCTCAGATTTCCTTT 57.467 42.857 0.00 0.00 0.00 3.11
669 798 3.849527 ACTTGCCCTCAGATTTCCTTTT 58.150 40.909 0.00 0.00 0.00 2.27
670 799 4.226384 ACTTGCCCTCAGATTTCCTTTTT 58.774 39.130 0.00 0.00 0.00 1.94
671 800 4.281941 ACTTGCCCTCAGATTTCCTTTTTC 59.718 41.667 0.00 0.00 0.00 2.29
678 807 7.500141 CCCTCAGATTTCCTTTTTCTTTTTGA 58.500 34.615 0.00 0.00 0.00 2.69
726 859 1.800655 CGAAGATCACGGCAAGAGGAG 60.801 57.143 0.00 0.00 0.00 3.69
746 881 4.645136 GGAGAAAAACCTCACCAAAACTCT 59.355 41.667 0.00 0.00 34.94 3.24
747 882 5.127194 GGAGAAAAACCTCACCAAAACTCTT 59.873 40.000 0.00 0.00 34.94 2.85
871 3286 2.614013 TTCTTCCCCTGCCCTCCC 60.614 66.667 0.00 0.00 0.00 4.30
888 3303 2.750350 CTCCCAAGTCCCAACGCT 59.250 61.111 0.00 0.00 0.00 5.07
901 3316 1.493772 CAACGCTACAACTCCGAACA 58.506 50.000 0.00 0.00 0.00 3.18
910 3325 0.256464 AACTCCGAACAAACACCCCA 59.744 50.000 0.00 0.00 0.00 4.96
938 3353 3.650942 TCCAACCAACACATAACCTCTCT 59.349 43.478 0.00 0.00 0.00 3.10
939 3354 4.003648 CCAACCAACACATAACCTCTCTC 58.996 47.826 0.00 0.00 0.00 3.20
940 3355 4.263068 CCAACCAACACATAACCTCTCTCT 60.263 45.833 0.00 0.00 0.00 3.10
941 3356 4.810191 ACCAACACATAACCTCTCTCTC 57.190 45.455 0.00 0.00 0.00 3.20
942 3357 4.421131 ACCAACACATAACCTCTCTCTCT 58.579 43.478 0.00 0.00 0.00 3.10
943 3358 4.464597 ACCAACACATAACCTCTCTCTCTC 59.535 45.833 0.00 0.00 0.00 3.20
944 3359 4.709397 CCAACACATAACCTCTCTCTCTCT 59.291 45.833 0.00 0.00 0.00 3.10
945 3360 5.163561 CCAACACATAACCTCTCTCTCTCTC 60.164 48.000 0.00 0.00 0.00 3.20
946 3361 5.450818 ACACATAACCTCTCTCTCTCTCT 57.549 43.478 0.00 0.00 0.00 3.10
947 3362 5.437060 ACACATAACCTCTCTCTCTCTCTC 58.563 45.833 0.00 0.00 0.00 3.20
948 3363 5.191722 ACACATAACCTCTCTCTCTCTCTCT 59.808 44.000 0.00 0.00 0.00 3.10
949 3364 5.760253 CACATAACCTCTCTCTCTCTCTCTC 59.240 48.000 0.00 0.00 0.00 3.20
950 3365 5.667626 ACATAACCTCTCTCTCTCTCTCTCT 59.332 44.000 0.00 0.00 0.00 3.10
951 3366 4.762289 AACCTCTCTCTCTCTCTCTCTC 57.238 50.000 0.00 0.00 0.00 3.20
952 3367 4.000928 ACCTCTCTCTCTCTCTCTCTCT 57.999 50.000 0.00 0.00 0.00 3.10
953 3368 3.964031 ACCTCTCTCTCTCTCTCTCTCTC 59.036 52.174 0.00 0.00 0.00 3.20
954 3369 4.222336 CCTCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
955 3370 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
956 3371 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
957 3372 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
998 3414 1.671054 GGAAGCAGCAAGGTACGCA 60.671 57.895 0.00 0.00 0.00 5.24
1033 3449 2.584608 GGCCGCACACCTATCTGT 59.415 61.111 0.00 0.00 0.00 3.41
1047 3463 3.875727 CCTATCTGTTGTTGCCATCTCTG 59.124 47.826 0.00 0.00 0.00 3.35
1049 3465 1.072806 TCTGTTGTTGCCATCTCTGCT 59.927 47.619 0.00 0.00 0.00 4.24
1050 3466 1.467734 CTGTTGTTGCCATCTCTGCTC 59.532 52.381 0.00 0.00 0.00 4.26
1051 3467 0.807496 GTTGTTGCCATCTCTGCTCC 59.193 55.000 0.00 0.00 0.00 4.70
1056 3472 1.047596 TGCCATCTCTGCTCCTCCTC 61.048 60.000 0.00 0.00 0.00 3.71
1074 3490 1.747367 CCTGCTCCTCGTCGTCTCT 60.747 63.158 0.00 0.00 0.00 3.10
1083 3499 4.117661 GTCGTCTCTTCCCGCGCT 62.118 66.667 5.56 0.00 0.00 5.92
1152 3568 4.080687 GCGGAGAGGTACTTATACATCCT 58.919 47.826 0.00 0.00 41.99 3.24
1181 3609 3.076621 TGTGGACATGAGAGATGTTTGC 58.923 45.455 0.00 0.00 31.52 3.68
1503 3937 9.087424 GATTTTATCAGTAATTGGGCAGTTTTC 57.913 33.333 0.00 0.00 0.00 2.29
1543 3978 5.805994 GGGTACTCGATTGTATATAAGCTGC 59.194 44.000 0.00 0.00 0.00 5.25
1565 4000 6.291377 TGCTAGAGAAATCTTGTTGAGTTGT 58.709 36.000 0.00 0.00 32.71 3.32
1600 4035 0.391228 TCAAGTCAGTGCGTTGGCTA 59.609 50.000 0.00 0.00 40.82 3.93
1645 4080 4.223923 AGAATCTTGTAGGTCACCCTTGAG 59.776 45.833 0.00 0.00 42.66 3.02
1752 4189 1.484653 TGACCCATATGCGTGTAAGCT 59.515 47.619 0.00 0.00 38.13 3.74
1753 4190 2.135933 GACCCATATGCGTGTAAGCTC 58.864 52.381 0.00 0.00 38.13 4.09
1754 4191 1.139989 CCCATATGCGTGTAAGCTCG 58.860 55.000 0.00 0.00 38.13 5.03
1755 4192 1.269569 CCCATATGCGTGTAAGCTCGA 60.270 52.381 0.00 0.00 38.13 4.04
1853 4482 5.069251 AGTTCAGACCACGGGATTAGATTAG 59.931 44.000 0.00 0.00 0.00 1.73
1854 4483 4.800023 TCAGACCACGGGATTAGATTAGA 58.200 43.478 0.00 0.00 0.00 2.10
1855 4484 5.394738 TCAGACCACGGGATTAGATTAGAT 58.605 41.667 0.00 0.00 0.00 1.98
1858 4487 7.674348 TCAGACCACGGGATTAGATTAGATTAT 59.326 37.037 0.00 0.00 0.00 1.28
1860 4489 7.674348 AGACCACGGGATTAGATTAGATTATGA 59.326 37.037 0.00 0.00 0.00 2.15
1867 4496 7.992033 GGGATTAGATTAGATTATGATGCAGCT 59.008 37.037 2.53 0.00 0.00 4.24
1890 4519 6.127814 GCTGGAGAAAGAAATCATGTTGATCA 60.128 38.462 0.00 0.00 35.76 2.92
1946 4579 2.524640 TGGGTGTAGCGTGTCCCA 60.525 61.111 8.30 8.30 46.34 4.37
1950 4583 1.594833 GTGTAGCGTGTCCCATGGA 59.405 57.895 15.22 0.00 0.00 3.41
1991 4624 3.138798 GCAGATGGGCAGCACCAG 61.139 66.667 8.40 0.00 45.20 4.00
2011 4647 1.367471 CGAGTGCAGGTCTTCCACA 59.633 57.895 0.00 0.00 35.89 4.17
2012 4648 0.668706 CGAGTGCAGGTCTTCCACAG 60.669 60.000 0.00 0.00 35.89 3.66
2013 4649 0.394565 GAGTGCAGGTCTTCCACAGT 59.605 55.000 0.00 0.00 35.89 3.55
2015 4651 1.202698 AGTGCAGGTCTTCCACAGTTC 60.203 52.381 0.00 0.00 35.89 3.01
2016 4652 0.108585 TGCAGGTCTTCCACAGTTCC 59.891 55.000 0.00 0.00 35.89 3.62
2017 4653 0.108585 GCAGGTCTTCCACAGTTCCA 59.891 55.000 0.00 0.00 35.89 3.53
2023 4659 1.694150 TCTTCCACAGTTCCACTCCAG 59.306 52.381 0.00 0.00 0.00 3.86
2199 5364 2.223363 CGTGTCATGACTCGTCAGCTAT 60.223 50.000 31.79 0.00 43.61 2.97
2200 5365 3.002348 CGTGTCATGACTCGTCAGCTATA 59.998 47.826 31.79 6.14 43.61 1.31
2297 5482 8.961092 CAACTCACAAACATGACTTCAAAATAG 58.039 33.333 0.00 0.00 0.00 1.73
2298 5483 8.450578 ACTCACAAACATGACTTCAAAATAGA 57.549 30.769 0.00 0.00 0.00 1.98
2299 5484 8.562892 ACTCACAAACATGACTTCAAAATAGAG 58.437 33.333 0.00 0.00 0.00 2.43
2300 5485 7.874940 TCACAAACATGACTTCAAAATAGAGG 58.125 34.615 0.00 0.00 0.00 3.69
2301 5486 7.040478 TCACAAACATGACTTCAAAATAGAGGG 60.040 37.037 0.00 0.00 0.00 4.30
2302 5487 7.004086 ACAAACATGACTTCAAAATAGAGGGA 58.996 34.615 0.00 0.00 0.00 4.20
2303 5488 7.671398 ACAAACATGACTTCAAAATAGAGGGAT 59.329 33.333 0.00 0.00 0.00 3.85
2304 5489 7.872113 AACATGACTTCAAAATAGAGGGATC 57.128 36.000 0.00 0.00 0.00 3.36
2305 5490 6.360618 ACATGACTTCAAAATAGAGGGATCC 58.639 40.000 1.92 1.92 0.00 3.36
2306 5491 6.069440 ACATGACTTCAAAATAGAGGGATCCA 60.069 38.462 15.23 0.00 0.00 3.41
2307 5492 5.745227 TGACTTCAAAATAGAGGGATCCAC 58.255 41.667 15.23 7.09 0.00 4.02
2308 5493 5.488919 TGACTTCAAAATAGAGGGATCCACT 59.511 40.000 15.23 14.35 0.00 4.00
2309 5494 5.995446 ACTTCAAAATAGAGGGATCCACTC 58.005 41.667 15.23 16.84 35.20 3.51
2322 5507 4.884164 GGGATCCACTCCACATCTAAAAAG 59.116 45.833 15.23 0.00 46.98 2.27
2324 5509 5.946377 GGATCCACTCCACATCTAAAAAGTT 59.054 40.000 6.95 0.00 44.26 2.66
2325 5510 6.434340 GGATCCACTCCACATCTAAAAAGTTT 59.566 38.462 6.95 0.00 44.26 2.66
2326 5511 7.610305 GGATCCACTCCACATCTAAAAAGTTTA 59.390 37.037 6.95 0.00 44.26 2.01
2327 5512 8.934023 ATCCACTCCACATCTAAAAAGTTTAA 57.066 30.769 0.00 0.00 0.00 1.52
2328 5513 8.934023 TCCACTCCACATCTAAAAAGTTTAAT 57.066 30.769 0.00 0.00 0.00 1.40
2373 5566 2.208431 CTAGCTGCAGTATGACAAGCC 58.792 52.381 16.64 0.00 39.69 4.35
2399 5592 3.931578 AGTTGTGACTCTTGTCCTATGC 58.068 45.455 0.00 0.00 42.28 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 6.183360 GGAGAAGGACCTTTGACCTAGATTAG 60.183 46.154 8.49 0.00 35.49 1.73
12 13 5.661759 GGAGAAGGACCTTTGACCTAGATTA 59.338 44.000 8.49 0.00 35.49 1.75
13 14 4.471747 GGAGAAGGACCTTTGACCTAGATT 59.528 45.833 8.49 0.00 35.49 2.40
14 15 4.034410 GGAGAAGGACCTTTGACCTAGAT 58.966 47.826 8.49 0.00 35.49 1.98
15 16 3.442076 GGAGAAGGACCTTTGACCTAGA 58.558 50.000 8.49 0.00 35.49 2.43
16 17 2.166664 CGGAGAAGGACCTTTGACCTAG 59.833 54.545 8.49 0.00 35.49 3.02
17 18 2.176889 CGGAGAAGGACCTTTGACCTA 58.823 52.381 8.49 0.00 35.49 3.08
18 19 0.977395 CGGAGAAGGACCTTTGACCT 59.023 55.000 8.49 0.00 38.34 3.85
19 20 0.036294 CCGGAGAAGGACCTTTGACC 60.036 60.000 8.49 10.99 0.00 4.02
20 21 0.685660 ACCGGAGAAGGACCTTTGAC 59.314 55.000 9.46 3.20 34.73 3.18
21 22 1.430992 AACCGGAGAAGGACCTTTGA 58.569 50.000 9.46 0.00 34.73 2.69
22 23 3.270877 CATAACCGGAGAAGGACCTTTG 58.729 50.000 9.46 0.00 34.73 2.77
23 24 2.238898 CCATAACCGGAGAAGGACCTTT 59.761 50.000 9.46 0.00 34.73 3.11
24 25 1.838077 CCATAACCGGAGAAGGACCTT 59.162 52.381 9.46 6.40 34.73 3.50
25 26 1.007963 TCCATAACCGGAGAAGGACCT 59.992 52.381 9.46 0.00 34.73 3.85
26 27 1.492764 TCCATAACCGGAGAAGGACC 58.507 55.000 9.46 0.00 34.73 4.46
43 44 0.392193 CACACTGGCATGGAGTCTCC 60.392 60.000 12.40 12.40 36.96 3.71
44 45 0.322975 ACACACTGGCATGGAGTCTC 59.677 55.000 0.00 0.00 0.00 3.36
45 46 0.035881 CACACACTGGCATGGAGTCT 59.964 55.000 0.00 0.00 0.00 3.24
46 47 0.035317 TCACACACTGGCATGGAGTC 59.965 55.000 0.00 0.00 0.00 3.36
47 48 0.035881 CTCACACACTGGCATGGAGT 59.964 55.000 0.00 0.00 0.00 3.85
48 49 0.675837 CCTCACACACTGGCATGGAG 60.676 60.000 0.00 0.00 0.00 3.86
49 50 1.126948 TCCTCACACACTGGCATGGA 61.127 55.000 0.00 0.00 0.00 3.41
50 51 0.957395 GTCCTCACACACTGGCATGG 60.957 60.000 0.00 0.00 0.00 3.66
51 52 1.293963 CGTCCTCACACACTGGCATG 61.294 60.000 0.00 0.00 0.00 4.06
52 53 1.004560 CGTCCTCACACACTGGCAT 60.005 57.895 0.00 0.00 0.00 4.40
53 54 1.966901 AACGTCCTCACACACTGGCA 61.967 55.000 0.00 0.00 0.00 4.92
54 55 0.814010 AAACGTCCTCACACACTGGC 60.814 55.000 0.00 0.00 0.00 4.85
55 56 1.663695 AAAACGTCCTCACACACTGG 58.336 50.000 0.00 0.00 0.00 4.00
98 99 9.219603 CGATCCTTATGAATAAATAAAGCAGGA 57.780 33.333 0.00 0.00 0.00 3.86
99 100 9.003658 ACGATCCTTATGAATAAATAAAGCAGG 57.996 33.333 0.00 0.00 0.00 4.85
102 103 9.974750 GCTACGATCCTTATGAATAAATAAAGC 57.025 33.333 0.00 0.00 0.00 3.51
107 108 9.155975 GTGATGCTACGATCCTTATGAATAAAT 57.844 33.333 0.00 0.00 0.00 1.40
108 109 8.367911 AGTGATGCTACGATCCTTATGAATAAA 58.632 33.333 0.00 0.00 0.00 1.40
109 110 7.896811 AGTGATGCTACGATCCTTATGAATAA 58.103 34.615 0.00 0.00 0.00 1.40
110 111 7.468141 AGTGATGCTACGATCCTTATGAATA 57.532 36.000 0.00 0.00 0.00 1.75
111 112 6.352016 AGTGATGCTACGATCCTTATGAAT 57.648 37.500 0.00 0.00 0.00 2.57
112 113 5.791336 AGTGATGCTACGATCCTTATGAA 57.209 39.130 0.00 0.00 0.00 2.57
113 114 5.791336 AAGTGATGCTACGATCCTTATGA 57.209 39.130 0.00 0.00 0.00 2.15
114 115 5.864474 GGTAAGTGATGCTACGATCCTTATG 59.136 44.000 0.00 0.00 0.00 1.90
115 116 5.538813 TGGTAAGTGATGCTACGATCCTTAT 59.461 40.000 0.00 0.00 0.00 1.73
116 117 4.891168 TGGTAAGTGATGCTACGATCCTTA 59.109 41.667 0.00 0.00 0.00 2.69
117 118 3.704566 TGGTAAGTGATGCTACGATCCTT 59.295 43.478 0.00 0.00 0.00 3.36
118 119 3.296854 TGGTAAGTGATGCTACGATCCT 58.703 45.455 0.00 0.00 0.00 3.24
119 120 3.728076 TGGTAAGTGATGCTACGATCC 57.272 47.619 0.00 0.00 0.00 3.36
120 121 7.145985 TCTTATTGGTAAGTGATGCTACGATC 58.854 38.462 0.00 0.00 38.72 3.69
121 122 7.050970 TCTTATTGGTAAGTGATGCTACGAT 57.949 36.000 0.00 0.00 38.72 3.73
122 123 6.459670 TCTTATTGGTAAGTGATGCTACGA 57.540 37.500 0.00 0.00 38.72 3.43
123 124 5.692204 CCTCTTATTGGTAAGTGATGCTACG 59.308 44.000 0.00 0.00 38.72 3.51
124 125 6.817184 TCCTCTTATTGGTAAGTGATGCTAC 58.183 40.000 0.00 0.00 38.72 3.58
125 126 7.432148 TTCCTCTTATTGGTAAGTGATGCTA 57.568 36.000 0.00 0.00 38.72 3.49
126 127 5.957771 TCCTCTTATTGGTAAGTGATGCT 57.042 39.130 0.00 0.00 38.72 3.79
127 128 8.560374 GTTATTCCTCTTATTGGTAAGTGATGC 58.440 37.037 0.00 0.00 38.72 3.91
128 129 9.057089 GGTTATTCCTCTTATTGGTAAGTGATG 57.943 37.037 0.00 0.00 38.72 3.07
129 130 8.778059 TGGTTATTCCTCTTATTGGTAAGTGAT 58.222 33.333 0.00 0.00 38.72 3.06
130 131 8.044908 GTGGTTATTCCTCTTATTGGTAAGTGA 58.955 37.037 0.00 0.00 38.72 3.41
131 132 7.827236 TGTGGTTATTCCTCTTATTGGTAAGTG 59.173 37.037 0.00 0.00 38.72 3.16
132 133 7.924541 TGTGGTTATTCCTCTTATTGGTAAGT 58.075 34.615 0.00 0.00 38.72 2.24
133 134 8.980481 ATGTGGTTATTCCTCTTATTGGTAAG 57.020 34.615 0.00 0.00 38.93 2.34
134 135 7.996644 GGATGTGGTTATTCCTCTTATTGGTAA 59.003 37.037 0.00 0.00 37.07 2.85
135 136 7.349859 AGGATGTGGTTATTCCTCTTATTGGTA 59.650 37.037 0.00 0.00 34.80 3.25
136 137 6.160459 AGGATGTGGTTATTCCTCTTATTGGT 59.840 38.462 0.00 0.00 34.80 3.67
137 138 6.488006 CAGGATGTGGTTATTCCTCTTATTGG 59.512 42.308 0.00 0.00 37.80 3.16
138 139 6.488006 CCAGGATGTGGTTATTCCTCTTATTG 59.512 42.308 0.00 0.00 42.17 1.90
139 140 6.410853 CCCAGGATGTGGTTATTCCTCTTATT 60.411 42.308 0.00 0.00 46.37 1.40
140 141 5.073691 CCCAGGATGTGGTTATTCCTCTTAT 59.926 44.000 0.00 0.00 46.37 1.73
141 142 4.412199 CCCAGGATGTGGTTATTCCTCTTA 59.588 45.833 0.00 0.00 46.37 2.10
142 143 3.203040 CCCAGGATGTGGTTATTCCTCTT 59.797 47.826 0.00 0.00 46.37 2.85
143 144 2.780010 CCCAGGATGTGGTTATTCCTCT 59.220 50.000 0.00 0.00 46.37 3.69
144 145 2.749800 GCCCAGGATGTGGTTATTCCTC 60.750 54.545 0.00 0.00 46.37 3.71
145 146 1.215423 GCCCAGGATGTGGTTATTCCT 59.785 52.381 0.00 0.00 46.37 3.36
146 147 1.692411 GCCCAGGATGTGGTTATTCC 58.308 55.000 0.00 0.00 46.37 3.01
147 148 1.308998 CGCCCAGGATGTGGTTATTC 58.691 55.000 0.00 0.00 46.37 1.75
148 149 0.106719 CCGCCCAGGATGTGGTTATT 60.107 55.000 0.00 0.00 46.37 1.40
149 150 1.279025 ACCGCCCAGGATGTGGTTAT 61.279 55.000 0.00 0.00 46.37 1.89
150 151 1.921346 ACCGCCCAGGATGTGGTTA 60.921 57.895 0.00 0.00 46.37 2.85
151 152 3.256960 ACCGCCCAGGATGTGGTT 61.257 61.111 0.00 0.00 46.37 3.67
152 153 4.033776 CACCGCCCAGGATGTGGT 62.034 66.667 0.00 0.00 46.37 4.16
154 155 2.436646 GACACCGCCCAGGATGTG 60.437 66.667 0.00 4.91 45.00 3.21
155 156 3.717294 GGACACCGCCCAGGATGT 61.717 66.667 0.00 0.00 45.00 3.06
156 157 2.947938 GATGGACACCGCCCAGGATG 62.948 65.000 0.00 0.00 45.00 3.51
157 158 2.692368 ATGGACACCGCCCAGGAT 60.692 61.111 0.00 0.00 45.00 3.24
158 159 3.399181 GATGGACACCGCCCAGGA 61.399 66.667 0.00 0.00 45.00 3.86
160 161 3.687321 CTGGATGGACACCGCCCAG 62.687 68.421 11.60 11.60 38.59 4.45
161 162 3.716195 CTGGATGGACACCGCCCA 61.716 66.667 0.00 0.00 38.19 5.36
162 163 1.407656 TATCTGGATGGACACCGCCC 61.408 60.000 0.00 0.00 0.00 6.13
163 164 0.687354 ATATCTGGATGGACACCGCC 59.313 55.000 0.00 0.00 0.00 6.13
164 165 2.549754 CAAATATCTGGATGGACACCGC 59.450 50.000 0.00 0.00 0.00 5.68
165 166 3.141398 CCAAATATCTGGATGGACACCG 58.859 50.000 0.00 0.00 38.96 4.94
166 167 4.392940 CTCCAAATATCTGGATGGACACC 58.607 47.826 0.00 0.00 44.59 4.16
167 168 4.103153 TCCTCCAAATATCTGGATGGACAC 59.897 45.833 10.54 0.00 44.59 3.67
168 169 4.306391 TCCTCCAAATATCTGGATGGACA 58.694 43.478 10.54 0.00 44.59 4.02
169 170 4.594920 TCTCCTCCAAATATCTGGATGGAC 59.405 45.833 10.54 0.00 44.59 4.02
170 171 4.831314 TCTCCTCCAAATATCTGGATGGA 58.169 43.478 12.84 12.84 44.59 3.41
195 196 7.013220 TCATGAACTTACTAGGATAGCCAGAT 58.987 38.462 0.00 0.00 44.39 2.90
199 200 5.245075 AGCTCATGAACTTACTAGGATAGCC 59.755 44.000 0.00 0.00 44.39 3.93
210 211 9.507329 AAAGAAATCAAGTAGCTCATGAACTTA 57.493 29.630 10.24 2.21 32.35 2.24
253 254 3.129462 CGTCCTCACACACTGTCATCTAT 59.871 47.826 0.00 0.00 0.00 1.98
263 264 1.148310 CCATGAACGTCCTCACACAC 58.852 55.000 0.00 0.00 0.00 3.82
264 265 1.044611 TCCATGAACGTCCTCACACA 58.955 50.000 0.00 0.00 0.00 3.72
322 374 8.857098 ACTACATATACGGAAACACTATGACAT 58.143 33.333 0.00 0.00 0.00 3.06
338 390 7.265647 TCTGTCAAGAGAGCACTACATATAC 57.734 40.000 0.00 0.00 0.00 1.47
401 457 5.423015 AGCGTATCAATGATCAGTCAAACT 58.577 37.500 0.00 0.00 38.01 2.66
402 458 5.725110 AGCGTATCAATGATCAGTCAAAC 57.275 39.130 0.00 0.00 38.01 2.93
410 477 6.390721 ACCATGTACTAGCGTATCAATGATC 58.609 40.000 0.00 0.00 0.00 2.92
422 489 6.420008 CCGAACTACAATAACCATGTACTAGC 59.580 42.308 0.00 0.00 32.27 3.42
423 490 7.709947 TCCGAACTACAATAACCATGTACTAG 58.290 38.462 0.00 0.00 32.27 2.57
425 492 6.534475 TCCGAACTACAATAACCATGTACT 57.466 37.500 0.00 0.00 32.27 2.73
426 493 5.233689 GCTCCGAACTACAATAACCATGTAC 59.766 44.000 0.00 0.00 32.27 2.90
437 504 4.530710 ACATTAGTGCTCCGAACTACAA 57.469 40.909 0.00 0.00 29.93 2.41
453 520 1.897133 ACCCGTCTGTGTGCTACATTA 59.103 47.619 0.00 0.00 38.92 1.90
460 527 1.069090 TTCTCACCCGTCTGTGTGC 59.931 57.895 0.00 0.00 37.51 4.57
462 529 1.046472 TGGTTCTCACCCGTCTGTGT 61.046 55.000 0.00 0.00 43.49 3.72
467 534 2.028385 AGTGTATTGGTTCTCACCCGTC 60.028 50.000 0.00 0.00 43.49 4.79
468 535 1.975680 AGTGTATTGGTTCTCACCCGT 59.024 47.619 0.00 0.00 43.49 5.28
469 536 2.289444 ACAGTGTATTGGTTCTCACCCG 60.289 50.000 0.00 0.00 43.49 5.28
470 537 3.418684 ACAGTGTATTGGTTCTCACCC 57.581 47.619 0.00 0.00 43.49 4.61
471 538 3.058224 GCAACAGTGTATTGGTTCTCACC 60.058 47.826 0.00 0.00 44.56 4.02
472 539 3.363970 CGCAACAGTGTATTGGTTCTCAC 60.364 47.826 0.00 0.00 0.00 3.51
477 544 2.151202 CTCCGCAACAGTGTATTGGTT 58.849 47.619 0.00 0.00 0.00 3.67
496 563 2.103094 TGAACTGCAGTACTTGTGCTCT 59.897 45.455 22.01 0.00 41.78 4.09
615 742 3.564225 ACTGTAGTTTACTTGCACTTGCC 59.436 43.478 0.00 0.00 41.18 4.52
617 744 5.971202 CCAAACTGTAGTTTACTTGCACTTG 59.029 40.000 9.47 0.00 45.54 3.16
689 818 9.360093 GTGATCTTCGGAATTAGGTCTATATTG 57.640 37.037 0.00 0.00 0.00 1.90
726 859 7.317390 TGTTAAGAGTTTTGGTGAGGTTTTTC 58.683 34.615 0.00 0.00 0.00 2.29
746 881 5.382573 GTTTTCAAACGCTGCAATGTTAA 57.617 34.783 0.00 0.00 0.00 2.01
776 3181 3.186909 GGGCTGATTTATTTTGTTCGGC 58.813 45.455 0.00 0.00 39.28 5.54
871 3286 0.391263 GTAGCGTTGGGACTTGGGAG 60.391 60.000 0.00 0.00 0.00 4.30
888 3303 2.563702 GGGTGTTTGTTCGGAGTTGTA 58.436 47.619 0.00 0.00 0.00 2.41
901 3316 4.235372 TGGTTGGATTTATTGGGGTGTTT 58.765 39.130 0.00 0.00 0.00 2.83
910 3325 7.673926 AGAGGTTATGTGTTGGTTGGATTTATT 59.326 33.333 0.00 0.00 0.00 1.40
938 3353 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
939 3354 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
940 3355 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
941 3356 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
942 3357 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
943 3358 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
944 3359 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
945 3360 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
946 3361 4.871822 TGAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
947 3362 5.604758 TTGAGAGAGAGAGAGAGAGAGAG 57.395 47.826 0.00 0.00 0.00 3.20
948 3363 5.624509 CGTTTGAGAGAGAGAGAGAGAGAGA 60.625 48.000 0.00 0.00 0.00 3.10
949 3364 4.568359 CGTTTGAGAGAGAGAGAGAGAGAG 59.432 50.000 0.00 0.00 0.00 3.20
950 3365 4.221924 TCGTTTGAGAGAGAGAGAGAGAGA 59.778 45.833 0.00 0.00 0.00 3.10
951 3366 4.503910 TCGTTTGAGAGAGAGAGAGAGAG 58.496 47.826 0.00 0.00 0.00 3.20
952 3367 4.545208 TCGTTTGAGAGAGAGAGAGAGA 57.455 45.455 0.00 0.00 0.00 3.10
953 3368 4.935205 TCTTCGTTTGAGAGAGAGAGAGAG 59.065 45.833 0.00 0.00 0.00 3.20
954 3369 4.900684 TCTTCGTTTGAGAGAGAGAGAGA 58.099 43.478 0.00 0.00 0.00 3.10
955 3370 4.935205 TCTCTTCGTTTGAGAGAGAGAGAG 59.065 45.833 0.00 0.00 35.86 3.20
956 3371 4.900684 TCTCTTCGTTTGAGAGAGAGAGA 58.099 43.478 0.00 0.00 35.86 3.10
957 3372 5.391950 CCTTCTCTTCGTTTGAGAGAGAGAG 60.392 48.000 4.28 0.00 40.99 3.20
998 3414 2.124570 GAGGTGATGCCGCCATGT 60.125 61.111 0.00 0.00 45.32 3.21
1047 3463 2.042025 AGGAGCAGGAGGAGGAGC 60.042 66.667 0.00 0.00 0.00 4.70
1049 3465 2.277072 CGAGGAGCAGGAGGAGGA 59.723 66.667 0.00 0.00 0.00 3.71
1050 3466 2.043450 ACGAGGAGCAGGAGGAGG 60.043 66.667 0.00 0.00 0.00 4.30
1051 3467 2.477176 CGACGAGGAGCAGGAGGAG 61.477 68.421 0.00 0.00 0.00 3.69
1056 3472 1.309499 AAGAGACGACGAGGAGCAGG 61.309 60.000 0.00 0.00 0.00 4.85
1083 3499 2.343758 GTTGCTCCCACTCTCGCA 59.656 61.111 0.00 0.00 0.00 5.10
1152 3568 3.324556 TCTCTCATGTCCACACACATTCA 59.675 43.478 0.00 0.00 34.60 2.57
1199 3627 0.389426 AGCAGACGTTAATTCGCCGT 60.389 50.000 0.00 0.00 37.56 5.68
1503 3937 4.324267 AGTACCCCGATTCACAGAAAAAG 58.676 43.478 0.00 0.00 0.00 2.27
1543 3978 9.443283 CAAAACAACTCAACAAGATTTCTCTAG 57.557 33.333 0.00 0.00 0.00 2.43
1565 4000 3.554934 ACTTGACCAGCAGATCACAAAA 58.445 40.909 0.00 0.00 0.00 2.44
1600 4035 4.689612 TTCCTGTGTTCTTACTCAAGCT 57.310 40.909 0.00 0.00 0.00 3.74
1645 4080 8.131100 ACACAACAGTAGCATTATCATTATTGC 58.869 33.333 0.00 0.00 35.76 3.56
1754 4191 0.580578 TGTAGTACGAGCGAGCGATC 59.419 55.000 4.36 0.00 34.83 3.69
1755 4192 1.194997 GATGTAGTACGAGCGAGCGAT 59.805 52.381 4.36 0.00 34.83 4.58
1853 4482 5.061853 TCTTTCTCCAGCTGCATCATAATC 58.938 41.667 8.66 0.00 0.00 1.75
1854 4483 5.045012 TCTTTCTCCAGCTGCATCATAAT 57.955 39.130 8.66 0.00 0.00 1.28
1855 4484 4.492494 TCTTTCTCCAGCTGCATCATAA 57.508 40.909 8.66 0.00 0.00 1.90
1858 4487 2.865119 TTCTTTCTCCAGCTGCATCA 57.135 45.000 8.66 0.00 0.00 3.07
1860 4489 3.693807 TGATTTCTTTCTCCAGCTGCAT 58.306 40.909 8.66 0.00 0.00 3.96
1867 4496 6.716173 TGTGATCAACATGATTTCTTTCTCCA 59.284 34.615 0.00 0.00 37.20 3.86
1890 4519 4.692475 GCCGCTAACCGTGGGTGT 62.692 66.667 0.00 0.00 43.73 4.16
1946 4579 0.729116 CGGTCACGTACGTACTCCAT 59.271 55.000 22.34 3.74 34.81 3.41
1991 4624 2.435059 GGAAGACCTGCACTCGGC 60.435 66.667 0.00 0.00 45.13 5.54
2012 4648 2.360475 GCAGGCCTGGAGTGGAAC 60.360 66.667 33.46 10.92 0.00 3.62
2013 4649 2.156098 AAGCAGGCCTGGAGTGGAA 61.156 57.895 33.46 0.00 0.00 3.53
2015 4651 2.360852 CAAGCAGGCCTGGAGTGG 60.361 66.667 33.46 8.13 0.00 4.00
2016 4652 1.673665 GTCAAGCAGGCCTGGAGTG 60.674 63.158 33.46 9.95 0.00 3.51
2017 4653 1.422161 AAGTCAAGCAGGCCTGGAGT 61.422 55.000 33.46 21.35 0.00 3.85
2023 4659 2.328099 CGTCCAAGTCAAGCAGGCC 61.328 63.158 0.00 0.00 0.00 5.19
2065 4712 2.747686 GACACACCCACCGGTCAT 59.252 61.111 2.59 0.00 42.04 3.06
2129 5288 1.548719 TCGCTTGCTACCATGTACACT 59.451 47.619 0.00 0.00 0.00 3.55
2131 5290 2.616960 CTTCGCTTGCTACCATGTACA 58.383 47.619 0.00 0.00 0.00 2.90
2132 5291 1.327764 GCTTCGCTTGCTACCATGTAC 59.672 52.381 0.00 0.00 0.00 2.90
2133 5292 1.066502 TGCTTCGCTTGCTACCATGTA 60.067 47.619 0.00 0.00 0.00 2.29
2134 5293 0.321564 TGCTTCGCTTGCTACCATGT 60.322 50.000 0.00 0.00 0.00 3.21
2135 5294 0.804364 TTGCTTCGCTTGCTACCATG 59.196 50.000 0.00 0.00 0.00 3.66
2268 5444 5.879237 TGAAGTCATGTTTGTGAGTTGTTC 58.121 37.500 2.01 0.00 40.79 3.18
2301 5486 7.454260 AAACTTTTTAGATGTGGAGTGGATC 57.546 36.000 0.00 0.00 0.00 3.36
2302 5487 8.934023 TTAAACTTTTTAGATGTGGAGTGGAT 57.066 30.769 0.00 0.00 0.00 3.41
2303 5488 8.934023 ATTAAACTTTTTAGATGTGGAGTGGA 57.066 30.769 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.