Multiple sequence alignment - TraesCS7A01G446100

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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 TraesCS7A01G446100 chr7A 100.000 2562 0 0 1 2562 641015479 641018040 0.000000e+00 4732.0
1 TraesCS7A01G446100 chr7B 83.567 1570 108 63 691 2205 601254678 601256152 0.000000e+00 1332.0
2 TraesCS7A01G446100 chr7B 83.161 386 33 21 1 356 601252659 601253042 8.840000e-85 324.0
3 TraesCS7A01G446100 chr7B 89.200 250 22 3 2206 2451 601256213 601256461 8.900000e-80 307.0
4 TraesCS7A01G446100 chr7B 88.750 80 8 1 612 690 31131750 31131671 2.100000e-16 97.1
5 TraesCS7A01G446100 chr7B 91.304 69 5 1 394 461 601253101 601253169 2.710000e-15 93.5
6 TraesCS7A01G446100 chr7B 85.057 87 11 2 606 690 150013879 150013793 1.260000e-13 87.9
7 TraesCS7A01G446100 chr7D 83.861 1295 82 40 690 1921 554897566 554896336 0.000000e+00 1116.0
8 TraesCS7A01G446100 chr7D 90.041 482 25 6 1978 2453 554896312 554895848 1.010000e-168 603.0
9 TraesCS7A01G446100 chr7D 84.046 351 27 12 40 368 554898773 554898430 6.880000e-81 311.0
10 TraesCS7A01G446100 chr7D 94.318 88 2 2 519 605 554897662 554897577 5.750000e-27 132.0
11 TraesCS7A01G446100 chr7D 98.462 65 1 0 401 465 554898432 554898368 5.790000e-22 115.0
12 TraesCS7A01G446100 chr7D 96.875 32 1 0 2531 2562 554895792 554895761 1.000000e-03 54.7
13 TraesCS7A01G446100 chr2B 88.235 85 9 1 607 690 292977093 292977009 1.620000e-17 100.0
14 TraesCS7A01G446100 chr2B 85.263 95 13 1 608 701 631603574 631603480 2.100000e-16 97.1
15 TraesCS7A01G446100 chr2B 84.946 93 12 2 606 696 78593986 78593894 2.710000e-15 93.5
16 TraesCS7A01G446100 chr2B 87.500 80 9 1 612 690 796656285 796656206 9.760000e-15 91.6
17 TraesCS7A01G446100 chr1B 88.750 80 8 1 612 690 312230170 312230091 2.100000e-16 97.1
18 TraesCS7A01G446100 chr1B 85.057 87 11 2 606 690 401279669 401279755 1.260000e-13 87.9
19 TraesCS7A01G446100 chr5B 87.654 81 9 1 611 690 228327988 228327908 2.710000e-15 93.5


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 TraesCS7A01G446100 chr7A 641015479 641018040 2561 False 4732.000000 4732 100.000000 1 2562 1 chr7A.!!$F1 2561
1 TraesCS7A01G446100 chr7B 601252659 601256461 3802 False 514.125000 1332 86.808000 1 2451 4 chr7B.!!$F1 2450
2 TraesCS7A01G446100 chr7D 554895761 554898773 3012 True 388.616667 1116 91.267167 40 2562 6 chr7D.!!$R1 2522

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
145 188 0.028902 TGTATGATCACGAGCGACCG 59.971 55.0 0.00 0.0 0.0 4.79 F
150 193 0.110147 GATCACGAGCGACCGGATAG 60.110 60.0 9.46 0.0 0.0 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1432 2974 0.038166 GGTTCAGTTCATGGAGGGCA 59.962 55.0 0.0 0.0 0.0 5.36 R
1627 3195 0.169451 CATGCAGCAACTTCGCATCA 59.831 50.0 0.0 0.0 44.3 3.07 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
37 40 1.444917 GCTGGTAGTTTATGCCGGGC 61.445 60.000 13.32 13.32 40.30 6.13
38 41 0.180406 CTGGTAGTTTATGCCGGGCT 59.820 55.000 21.46 8.36 36.44 5.19
93 103 2.361992 CCGGCCACTTTAACCCCC 60.362 66.667 2.24 0.00 0.00 5.40
115 125 2.507769 GGCGTCCCGGTAAACTCG 60.508 66.667 0.00 0.00 0.00 4.18
116 126 2.568090 GCGTCCCGGTAAACTCGA 59.432 61.111 0.00 0.00 0.00 4.04
117 127 1.515736 GCGTCCCGGTAAACTCGAG 60.516 63.158 11.84 11.84 0.00 4.04
118 128 1.878775 CGTCCCGGTAAACTCGAGT 59.121 57.895 13.58 13.58 0.00 4.18
120 130 1.172175 GTCCCGGTAAACTCGAGTCT 58.828 55.000 20.33 7.80 0.00 3.24
122 132 2.354199 GTCCCGGTAAACTCGAGTCTAG 59.646 54.545 20.33 8.81 0.00 2.43
123 133 2.026822 TCCCGGTAAACTCGAGTCTAGT 60.027 50.000 20.33 7.36 0.00 2.57
124 134 2.751806 CCCGGTAAACTCGAGTCTAGTT 59.248 50.000 20.33 11.95 38.82 2.24
125 135 3.181502 CCCGGTAAACTCGAGTCTAGTTC 60.182 52.174 20.33 6.08 36.17 3.01
129 166 5.349817 CGGTAAACTCGAGTCTAGTTCTGTA 59.650 44.000 20.33 0.00 36.17 2.74
139 182 6.563196 CGAGTCTAGTTCTGTATGATCACGAG 60.563 46.154 0.00 0.00 0.00 4.18
140 183 5.008217 AGTCTAGTTCTGTATGATCACGAGC 59.992 44.000 0.00 0.00 0.00 5.03
142 185 2.683362 AGTTCTGTATGATCACGAGCGA 59.317 45.455 0.00 0.00 0.00 4.93
143 186 2.757686 TCTGTATGATCACGAGCGAC 57.242 50.000 0.00 0.00 0.00 5.19
144 187 1.333931 TCTGTATGATCACGAGCGACC 59.666 52.381 0.00 0.00 0.00 4.79
145 188 0.028902 TGTATGATCACGAGCGACCG 59.971 55.000 0.00 0.00 0.00 4.79
147 190 0.816421 TATGATCACGAGCGACCGGA 60.816 55.000 9.46 0.00 0.00 5.14
148 191 1.456196 ATGATCACGAGCGACCGGAT 61.456 55.000 9.46 0.00 0.00 4.18
150 193 0.110147 GATCACGAGCGACCGGATAG 60.110 60.000 9.46 0.00 0.00 2.08
151 194 2.131294 ATCACGAGCGACCGGATAGC 62.131 60.000 9.46 10.74 0.00 2.97
152 195 2.516460 ACGAGCGACCGGATAGCT 60.516 61.111 19.39 19.39 42.77 3.32
153 196 2.050895 CGAGCGACCGGATAGCTG 60.051 66.667 22.96 13.54 39.73 4.24
154 197 2.355244 GAGCGACCGGATAGCTGC 60.355 66.667 22.96 10.93 39.73 5.25
155 198 2.835431 AGCGACCGGATAGCTGCT 60.835 61.111 9.46 7.57 37.96 4.24
188 232 2.622546 GCGGTTCCAGCGAATAAAAA 57.377 45.000 0.00 0.00 42.41 1.94
360 412 0.695803 ATCATTTCCTCGCCCCCTCT 60.696 55.000 0.00 0.00 0.00 3.69
365 417 1.155323 TTCCTCGCCCCCTCTATCTA 58.845 55.000 0.00 0.00 0.00 1.98
366 418 0.699399 TCCTCGCCCCCTCTATCTAG 59.301 60.000 0.00 0.00 0.00 2.43
370 422 1.613928 GCCCCCTCTATCTAGCCCC 60.614 68.421 0.00 0.00 0.00 5.80
389 441 1.455248 CCTCCCGTCGCCAAATTTTA 58.545 50.000 0.00 0.00 0.00 1.52
390 442 1.813786 CCTCCCGTCGCCAAATTTTAA 59.186 47.619 0.00 0.00 0.00 1.52
465 539 3.195610 CCTTTCCATTTGGTTTCTAGGGC 59.804 47.826 0.00 0.00 36.34 5.19
467 541 0.455815 CCATTTGGTTTCTAGGGCGC 59.544 55.000 0.00 0.00 0.00 6.53
469 543 0.322187 ATTTGGTTTCTAGGGCGCGT 60.322 50.000 8.43 0.00 0.00 6.01
495 664 0.323908 TTTTTGGCGGATAGGGGGTG 60.324 55.000 0.00 0.00 0.00 4.61
496 665 2.847366 TTTTGGCGGATAGGGGGTGC 62.847 60.000 0.00 0.00 0.00 5.01
499 668 4.603946 GCGGATAGGGGGTGCGTC 62.604 72.222 0.00 0.00 32.72 5.19
500 669 2.838225 CGGATAGGGGGTGCGTCT 60.838 66.667 0.00 0.00 0.00 4.18
503 672 1.465200 GGATAGGGGGTGCGTCTCTC 61.465 65.000 0.00 0.00 0.00 3.20
510 695 0.892063 GGGTGCGTCTCTCTCTCTTT 59.108 55.000 0.00 0.00 0.00 2.52
605 1723 6.260870 TGCGGTATGTGTTTGTAAATTCAT 57.739 33.333 0.00 0.00 0.00 2.57
607 1725 6.072452 TGCGGTATGTGTTTGTAAATTCATGA 60.072 34.615 0.00 0.00 0.00 3.07
608 1726 6.804295 GCGGTATGTGTTTGTAAATTCATGAA 59.196 34.615 11.26 11.26 0.00 2.57
609 1727 7.327275 GCGGTATGTGTTTGTAAATTCATGAAA 59.673 33.333 13.09 0.00 0.00 2.69
610 1728 9.186323 CGGTATGTGTTTGTAAATTCATGAAAA 57.814 29.630 13.09 0.00 0.00 2.29
624 1742 8.697507 AATTCATGAAAATACTACCTCCATCC 57.302 34.615 13.09 0.00 0.00 3.51
625 1743 6.187727 TCATGAAAATACTACCTCCATCCC 57.812 41.667 0.00 0.00 0.00 3.85
626 1744 5.669904 TCATGAAAATACTACCTCCATCCCA 59.330 40.000 0.00 0.00 0.00 4.37
627 1745 6.332635 TCATGAAAATACTACCTCCATCCCAT 59.667 38.462 0.00 0.00 0.00 4.00
628 1746 7.515861 TCATGAAAATACTACCTCCATCCCATA 59.484 37.037 0.00 0.00 0.00 2.74
631 1749 8.163408 TGAAAATACTACCTCCATCCCATAATG 58.837 37.037 0.00 0.00 0.00 1.90
633 1751 8.751215 AAATACTACCTCCATCCCATAATGTA 57.249 34.615 0.00 0.00 0.00 2.29
635 1753 6.688073 ACTACCTCCATCCCATAATGTAAG 57.312 41.667 0.00 0.00 0.00 2.34
637 1755 7.025620 ACTACCTCCATCCCATAATGTAAGAT 58.974 38.462 0.00 0.00 0.00 2.40
638 1756 6.131972 ACCTCCATCCCATAATGTAAGATG 57.868 41.667 0.00 0.00 35.24 2.90
639 1757 5.612688 ACCTCCATCCCATAATGTAAGATGT 59.387 40.000 0.00 0.00 33.95 3.06
640 1758 6.103205 ACCTCCATCCCATAATGTAAGATGTT 59.897 38.462 0.00 0.00 33.95 2.71
643 1761 8.837099 TCCATCCCATAATGTAAGATGTTTTT 57.163 30.769 0.00 0.00 33.95 1.94
689 1984 7.529880 AACGTTTTACATTATAGAACGGAGG 57.470 36.000 12.50 0.00 45.11 4.30
709 2230 5.476945 GGAGGAAAAAGAAGATTAACCAGCA 59.523 40.000 0.00 0.00 0.00 4.41
735 2256 5.179555 GGGTAATTTCTCGGAATGATGTAGC 59.820 44.000 0.00 0.00 0.00 3.58
743 2264 4.485163 TCGGAATGATGTAGCATATGACG 58.515 43.478 6.97 0.00 0.00 4.35
753 2274 4.452114 TGTAGCATATGACGCATCATTTCC 59.548 41.667 6.97 0.00 43.40 3.13
777 2298 7.016170 TCCGATTAAATTCCATCAGTCTATCCA 59.984 37.037 0.00 0.00 0.00 3.41
943 2464 4.730487 GCTCCCTGCACAATCACT 57.270 55.556 0.00 0.00 42.31 3.41
952 2473 5.427157 TCCCTGCACAATCACTTACCTAATA 59.573 40.000 0.00 0.00 0.00 0.98
953 2474 6.069905 TCCCTGCACAATCACTTACCTAATAA 60.070 38.462 0.00 0.00 0.00 1.40
954 2475 6.260936 CCCTGCACAATCACTTACCTAATAAG 59.739 42.308 0.00 0.00 45.22 1.73
1080 2608 1.765904 TCACACTACACACACCACCAT 59.234 47.619 0.00 0.00 0.00 3.55
1088 2620 1.667212 CACACACCACCATCATCATCG 59.333 52.381 0.00 0.00 0.00 3.84
1092 2624 2.027285 ACACCACCATCATCATCGTCAA 60.027 45.455 0.00 0.00 0.00 3.18
1394 2936 1.448013 GCTACGGTGGCCTCTGAAC 60.448 63.158 20.38 0.52 0.00 3.18
1395 2937 1.889530 GCTACGGTGGCCTCTGAACT 61.890 60.000 20.38 0.56 0.00 3.01
1398 2940 1.053424 ACGGTGGCCTCTGAACTTTA 58.947 50.000 20.38 0.00 0.00 1.85
1399 2941 1.270678 ACGGTGGCCTCTGAACTTTAC 60.271 52.381 20.38 0.00 0.00 2.01
1401 2943 2.427506 GGTGGCCTCTGAACTTTACTG 58.572 52.381 3.32 0.00 0.00 2.74
1402 2944 1.807142 GTGGCCTCTGAACTTTACTGC 59.193 52.381 3.32 0.00 0.00 4.40
1405 2947 1.003696 GCCTCTGAACTTTACTGCCCT 59.996 52.381 0.00 0.00 0.00 5.19
1406 2948 2.704572 CCTCTGAACTTTACTGCCCTG 58.295 52.381 0.00 0.00 0.00 4.45
1407 2949 2.303022 CCTCTGAACTTTACTGCCCTGA 59.697 50.000 0.00 0.00 0.00 3.86
1408 2950 3.244561 CCTCTGAACTTTACTGCCCTGAA 60.245 47.826 0.00 0.00 0.00 3.02
1409 2951 3.740115 TCTGAACTTTACTGCCCTGAAC 58.260 45.455 0.00 0.00 0.00 3.18
1410 2952 2.814336 CTGAACTTTACTGCCCTGAACC 59.186 50.000 0.00 0.00 0.00 3.62
1411 2953 2.441750 TGAACTTTACTGCCCTGAACCT 59.558 45.455 0.00 0.00 0.00 3.50
1412 2954 2.861147 ACTTTACTGCCCTGAACCTC 57.139 50.000 0.00 0.00 0.00 3.85
1413 2955 1.351350 ACTTTACTGCCCTGAACCTCC 59.649 52.381 0.00 0.00 0.00 4.30
1414 2956 1.351017 CTTTACTGCCCTGAACCTCCA 59.649 52.381 0.00 0.00 0.00 3.86
1415 2957 1.440618 TTACTGCCCTGAACCTCCAA 58.559 50.000 0.00 0.00 0.00 3.53
1416 2958 0.690762 TACTGCCCTGAACCTCCAAC 59.309 55.000 0.00 0.00 0.00 3.77
1417 2959 1.303643 CTGCCCTGAACCTCCAACC 60.304 63.158 0.00 0.00 0.00 3.77
1418 2960 1.774217 TGCCCTGAACCTCCAACCT 60.774 57.895 0.00 0.00 0.00 3.50
1419 2961 1.002011 GCCCTGAACCTCCAACCTC 60.002 63.158 0.00 0.00 0.00 3.85
1423 2965 1.271597 CCTGAACCTCCAACCTCCAAG 60.272 57.143 0.00 0.00 0.00 3.61
1424 2966 1.421646 CTGAACCTCCAACCTCCAAGT 59.578 52.381 0.00 0.00 0.00 3.16
1428 2970 0.771127 CCTCCAACCTCCAAGTTCCA 59.229 55.000 0.00 0.00 0.00 3.53
1432 2974 1.675552 CAACCTCCAAGTTCCAACGT 58.324 50.000 0.00 0.00 0.00 3.99
1433 2975 1.333619 CAACCTCCAAGTTCCAACGTG 59.666 52.381 0.00 0.00 37.99 4.49
1455 2997 2.093235 CCCTCCATGAACTGAACCTCTC 60.093 54.545 0.00 0.00 0.00 3.20
1456 2998 2.836981 CCTCCATGAACTGAACCTCTCT 59.163 50.000 0.00 0.00 0.00 3.10
1457 2999 3.118811 CCTCCATGAACTGAACCTCTCTC 60.119 52.174 0.00 0.00 0.00 3.20
1458 3000 2.834549 TCCATGAACTGAACCTCTCTCC 59.165 50.000 0.00 0.00 0.00 3.71
1469 3011 8.233349 ACTGAACCTCTCTCCCTATATACATA 57.767 38.462 0.00 0.00 0.00 2.29
1470 3012 8.851876 ACTGAACCTCTCTCCCTATATACATAT 58.148 37.037 0.00 0.00 0.00 1.78
1472 3014 8.624670 TGAACCTCTCTCCCTATATACATATGT 58.375 37.037 13.93 13.93 0.00 2.29
1507 3049 5.908341 TGAAGAAGTGTGTATGTGTGTGTA 58.092 37.500 0.00 0.00 0.00 2.90
1512 3054 4.790878 AGTGTGTATGTGTGTGTACTACG 58.209 43.478 0.00 0.00 0.00 3.51
1513 3055 3.916172 GTGTGTATGTGTGTGTACTACGG 59.084 47.826 0.00 0.00 0.00 4.02
1516 3058 4.009002 TGTATGTGTGTGTACTACGGCTA 58.991 43.478 0.00 0.00 0.00 3.93
1522 3064 1.299541 GTGTACTACGGCTACGGCTA 58.700 55.000 0.00 0.00 46.48 3.93
1526 3068 1.099879 ACTACGGCTACGGCTACTGG 61.100 60.000 0.00 0.00 46.48 4.00
1538 3106 1.878775 CTACTGGCCAAGTTGCTGC 59.121 57.895 7.01 0.00 40.56 5.25
1539 3107 0.890542 CTACTGGCCAAGTTGCTGCA 60.891 55.000 7.01 0.00 40.56 4.41
1607 3175 0.677731 AACTGCTGCTGTGTGTGTGT 60.678 50.000 13.03 0.00 0.00 3.72
1608 3176 1.354155 CTGCTGCTGTGTGTGTGTG 59.646 57.895 0.00 0.00 0.00 3.82
1609 3177 1.371337 CTGCTGCTGTGTGTGTGTGT 61.371 55.000 0.00 0.00 0.00 3.72
1610 3178 1.063006 GCTGCTGTGTGTGTGTGTG 59.937 57.895 0.00 0.00 0.00 3.82
1612 3180 0.097499 CTGCTGTGTGTGTGTGTGTG 59.903 55.000 0.00 0.00 0.00 3.82
1613 3181 0.605050 TGCTGTGTGTGTGTGTGTGT 60.605 50.000 0.00 0.00 0.00 3.72
1614 3182 0.179192 GCTGTGTGTGTGTGTGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
1615 3183 1.155889 CTGTGTGTGTGTGTGTGTGT 58.844 50.000 0.00 0.00 0.00 3.72
1616 3184 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1617 3185 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1618 3186 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1619 3187 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1620 3188 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1621 3189 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1622 3190 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1623 3191 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1624 3192 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1625 3193 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1626 3194 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1627 3195 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1628 3196 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1629 3197 1.152510 GTGTGTGTGTGTGTGTGTGA 58.847 50.000 0.00 0.00 0.00 3.58
1630 3198 1.737236 GTGTGTGTGTGTGTGTGTGAT 59.263 47.619 0.00 0.00 0.00 3.06
1631 3199 1.736681 TGTGTGTGTGTGTGTGTGATG 59.263 47.619 0.00 0.00 0.00 3.07
1632 3200 0.731994 TGTGTGTGTGTGTGTGATGC 59.268 50.000 0.00 0.00 0.00 3.91
1633 3201 0.316114 GTGTGTGTGTGTGTGATGCG 60.316 55.000 0.00 0.00 0.00 4.73
1714 3282 6.207614 GGTTGCCTTTTTGAGAGACTAAGAAT 59.792 38.462 0.00 0.00 0.00 2.40
1715 3283 7.390718 GGTTGCCTTTTTGAGAGACTAAGAATA 59.609 37.037 0.00 0.00 0.00 1.75
1766 3365 5.186996 TCAAGCCATGTTCTCTGTTTTTC 57.813 39.130 0.00 0.00 0.00 2.29
1771 3370 4.320788 GCCATGTTCTCTGTTTTTCCTCTG 60.321 45.833 0.00 0.00 0.00 3.35
1781 3380 6.805713 TCTGTTTTTCCTCTGTGAAAATTCC 58.194 36.000 8.06 3.05 42.16 3.01
1784 3383 5.432885 TTTTCCTCTGTGAAAATTCCGTC 57.567 39.130 0.00 0.00 38.84 4.79
1808 3407 8.937884 GTCCTCTGTTTTTATTACTCCTTTCTC 58.062 37.037 0.00 0.00 0.00 2.87
1821 3420 5.245531 ACTCCTTTCTCGTTTATCATTGCA 58.754 37.500 0.00 0.00 0.00 4.08
1891 3490 2.029728 CGATGGATCGCTCTGTGTTTTC 59.970 50.000 0.00 0.00 43.84 2.29
1917 3516 5.397553 TTCCTTATATGGGAAGGGGAAAC 57.602 43.478 4.90 0.00 43.26 2.78
1921 3520 6.860480 TCCTTATATGGGAAGGGGAAACTAAT 59.140 38.462 4.90 0.00 43.26 1.73
1922 3521 7.355212 TCCTTATATGGGAAGGGGAAACTAATT 59.645 37.037 4.90 0.00 43.26 1.40
1923 3522 8.675096 CCTTATATGGGAAGGGGAAACTAATTA 58.325 37.037 0.00 0.00 39.96 1.40
1929 3528 5.362717 GGGAAGGGGAAACTAATTATGGTTG 59.637 44.000 0.00 0.00 29.77 3.77
1930 3529 5.955959 GGAAGGGGAAACTAATTATGGTTGT 59.044 40.000 0.00 0.00 29.77 3.32
1932 3531 7.616542 GGAAGGGGAAACTAATTATGGTTGTTA 59.383 37.037 0.00 0.00 29.77 2.41
1933 3532 8.589701 AAGGGGAAACTAATTATGGTTGTTAG 57.410 34.615 0.00 0.00 29.77 2.34
1968 3567 5.329493 GTTGTTGAAGAACTGTGGTTGTAC 58.671 41.667 0.00 0.00 35.58 2.90
2040 3640 1.133199 TGAATTGCAGTGGGGGACTTT 60.133 47.619 0.00 0.00 29.75 2.66
2082 3700 4.190001 CTGATCAGTTCTGGATGGTTCTG 58.810 47.826 14.95 0.00 0.00 3.02
2083 3701 2.479566 TCAGTTCTGGATGGTTCTGC 57.520 50.000 0.00 0.00 0.00 4.26
2084 3702 1.699083 TCAGTTCTGGATGGTTCTGCA 59.301 47.619 0.00 0.00 0.00 4.41
2085 3703 2.082231 CAGTTCTGGATGGTTCTGCAG 58.918 52.381 7.63 7.63 0.00 4.41
2086 3704 1.980765 AGTTCTGGATGGTTCTGCAGA 59.019 47.619 13.74 13.74 0.00 4.26
2087 3705 2.575279 AGTTCTGGATGGTTCTGCAGAT 59.425 45.455 19.04 1.31 0.00 2.90
2088 3706 3.776969 AGTTCTGGATGGTTCTGCAGATA 59.223 43.478 19.04 7.78 0.00 1.98
2089 3707 4.411540 AGTTCTGGATGGTTCTGCAGATAT 59.588 41.667 19.04 12.46 0.00 1.63
2090 3708 5.604231 AGTTCTGGATGGTTCTGCAGATATA 59.396 40.000 19.04 7.01 0.00 0.86
2091 3709 5.474578 TCTGGATGGTTCTGCAGATATAC 57.525 43.478 19.04 12.94 0.00 1.47
2092 3710 5.150715 TCTGGATGGTTCTGCAGATATACT 58.849 41.667 19.04 1.44 0.00 2.12
2093 3711 5.244851 TCTGGATGGTTCTGCAGATATACTC 59.755 44.000 19.04 10.73 0.00 2.59
2094 3712 4.284490 TGGATGGTTCTGCAGATATACTCC 59.716 45.833 19.04 18.80 0.00 3.85
2095 3713 4.530161 GGATGGTTCTGCAGATATACTCCT 59.470 45.833 19.04 2.13 0.00 3.69
2098 3716 4.833380 TGGTTCTGCAGATATACTCCTACC 59.167 45.833 19.04 18.20 0.00 3.18
2124 3742 2.417978 CCTTCAGTTTGGCAGCACA 58.582 52.632 0.00 0.00 0.00 4.57
2210 3894 5.892568 ACTAGCTAAAGACCACTCATAACG 58.107 41.667 0.00 0.00 0.00 3.18
2259 3944 6.668323 TGAAATGTTACAAAAGCTAGAGTGC 58.332 36.000 0.00 0.00 0.00 4.40
2434 4122 4.362279 TGAACAGTTTCTGCTGCAATTTC 58.638 39.130 3.02 0.00 39.96 2.17
2453 4141 0.314935 CCATGTGCTGAAACCCACAC 59.685 55.000 0.00 0.00 43.89 3.82
2454 4142 1.031235 CATGTGCTGAAACCCACACA 58.969 50.000 0.00 0.00 43.89 3.72
2455 4143 1.408340 CATGTGCTGAAACCCACACAA 59.592 47.619 0.00 0.00 45.33 3.33
2456 4144 0.814457 TGTGCTGAAACCCACACAAC 59.186 50.000 0.00 0.00 39.91 3.32
2457 4145 0.814457 GTGCTGAAACCCACACAACA 59.186 50.000 0.00 0.00 33.23 3.33
2459 4147 0.102300 GCTGAAACCCACACAACACC 59.898 55.000 0.00 0.00 0.00 4.16
2460 4148 0.744281 CTGAAACCCACACAACACCC 59.256 55.000 0.00 0.00 0.00 4.61
2463 4151 0.686112 AAACCCACACAACACCCCAG 60.686 55.000 0.00 0.00 0.00 4.45
2465 4153 1.228793 CCCACACAACACCCCAGAA 59.771 57.895 0.00 0.00 0.00 3.02
2466 4154 1.106944 CCCACACAACACCCCAGAAC 61.107 60.000 0.00 0.00 0.00 3.01
2467 4155 0.395036 CCACACAACACCCCAGAACA 60.395 55.000 0.00 0.00 0.00 3.18
2468 4156 1.468985 CACACAACACCCCAGAACAA 58.531 50.000 0.00 0.00 0.00 2.83
2469 4157 1.821753 CACACAACACCCCAGAACAAA 59.178 47.619 0.00 0.00 0.00 2.83
2470 4158 1.822371 ACACAACACCCCAGAACAAAC 59.178 47.619 0.00 0.00 0.00 2.93
2471 4159 1.099689 ACAACACCCCAGAACAAACG 58.900 50.000 0.00 0.00 0.00 3.60
2472 4160 1.340211 ACAACACCCCAGAACAAACGA 60.340 47.619 0.00 0.00 0.00 3.85
2473 4161 1.746220 CAACACCCCAGAACAAACGAA 59.254 47.619 0.00 0.00 0.00 3.85
2474 4162 2.131776 ACACCCCAGAACAAACGAAA 57.868 45.000 0.00 0.00 0.00 3.46
2475 4163 2.661718 ACACCCCAGAACAAACGAAAT 58.338 42.857 0.00 0.00 0.00 2.17
2476 4164 2.360801 ACACCCCAGAACAAACGAAATG 59.639 45.455 0.00 0.00 0.00 2.32
2477 4165 1.339929 ACCCCAGAACAAACGAAATGC 59.660 47.619 0.00 0.00 0.00 3.56
2478 4166 1.613437 CCCCAGAACAAACGAAATGCT 59.387 47.619 0.00 0.00 0.00 3.79
2479 4167 2.351738 CCCCAGAACAAACGAAATGCTC 60.352 50.000 0.00 0.00 0.00 4.26
2506 4194 0.586802 CTGATCACGTCGCCGATCTA 59.413 55.000 19.99 10.06 39.06 1.98
2509 4197 2.243407 GATCACGTCGCCGATCTAATC 58.757 52.381 14.79 0.00 36.04 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.088674 CTACCAGCGAGAATCCCCGG 62.089 65.000 0.00 0.00 0.00 5.73
15 16 1.209128 CGGCATAAACTACCAGCGAG 58.791 55.000 0.00 0.00 0.00 5.03
37 40 1.604185 GCGAGGGAATTCTGGATCGAG 60.604 57.143 19.04 0.00 32.13 4.04
38 41 0.389391 GCGAGGGAATTCTGGATCGA 59.611 55.000 19.04 0.00 32.13 3.59
115 125 6.606234 TCGTGATCATACAGAACTAGACTC 57.394 41.667 0.00 0.00 0.00 3.36
116 126 5.008217 GCTCGTGATCATACAGAACTAGACT 59.992 44.000 0.00 0.00 0.00 3.24
117 127 5.209240 GCTCGTGATCATACAGAACTAGAC 58.791 45.833 0.00 0.00 0.00 2.59
118 128 4.024809 CGCTCGTGATCATACAGAACTAGA 60.025 45.833 0.00 0.00 0.00 2.43
120 130 3.875134 TCGCTCGTGATCATACAGAACTA 59.125 43.478 0.00 0.00 0.00 2.24
122 132 2.784380 GTCGCTCGTGATCATACAGAAC 59.216 50.000 0.00 0.00 0.00 3.01
123 133 2.223502 GGTCGCTCGTGATCATACAGAA 60.224 50.000 0.00 0.00 0.00 3.02
124 134 1.333931 GGTCGCTCGTGATCATACAGA 59.666 52.381 0.00 0.00 0.00 3.41
125 135 1.759994 GGTCGCTCGTGATCATACAG 58.240 55.000 0.00 0.00 0.00 2.74
129 166 1.456196 ATCCGGTCGCTCGTGATCAT 61.456 55.000 0.00 0.00 0.00 2.45
139 182 2.659897 CAGCAGCTATCCGGTCGC 60.660 66.667 0.00 2.46 0.00 5.19
140 183 2.659897 GCAGCAGCTATCCGGTCG 60.660 66.667 0.00 0.00 37.91 4.79
171 214 4.095610 CGATGTTTTTATTCGCTGGAACC 58.904 43.478 0.00 0.00 34.37 3.62
182 225 4.441634 CCTCCTCGAGACCGATGTTTTTAT 60.442 45.833 15.71 0.00 44.62 1.40
187 231 1.038130 CCCTCCTCGAGACCGATGTT 61.038 60.000 15.71 0.00 44.62 2.71
188 232 1.454111 CCCTCCTCGAGACCGATGT 60.454 63.158 15.71 0.00 44.62 3.06
279 323 3.964875 CCCACGTGTGCTGTTGGC 61.965 66.667 15.65 0.00 42.22 4.52
360 412 1.463824 GACGGGAGGGGGCTAGATA 59.536 63.158 0.00 0.00 0.00 1.98
370 422 1.455248 TAAAATTTGGCGACGGGAGG 58.545 50.000 0.00 0.00 0.00 4.30
396 470 0.750182 GGGGCCGTTTGCTGCTAATA 60.750 55.000 0.00 0.00 40.92 0.98
397 471 2.052104 GGGGCCGTTTGCTGCTAAT 61.052 57.895 0.00 0.00 40.92 1.73
483 652 2.838225 AGACGCACCCCCTATCCG 60.838 66.667 0.00 0.00 0.00 4.18
484 653 1.457831 AGAGACGCACCCCCTATCC 60.458 63.158 0.00 0.00 0.00 2.59
486 655 0.468400 GAGAGAGACGCACCCCCTAT 60.468 60.000 0.00 0.00 0.00 2.57
488 657 2.363147 GAGAGAGACGCACCCCCT 60.363 66.667 0.00 0.00 0.00 4.79
491 660 0.892063 AAAGAGAGAGAGACGCACCC 59.108 55.000 0.00 0.00 0.00 4.61
492 661 2.734276 AAAAGAGAGAGAGACGCACC 57.266 50.000 0.00 0.00 0.00 5.01
605 1723 7.699709 TTATGGGATGGAGGTAGTATTTTCA 57.300 36.000 0.00 0.00 0.00 2.69
607 1725 8.057246 ACATTATGGGATGGAGGTAGTATTTT 57.943 34.615 0.00 0.00 0.00 1.82
608 1726 7.648177 ACATTATGGGATGGAGGTAGTATTT 57.352 36.000 0.00 0.00 0.00 1.40
609 1727 8.751215 TTACATTATGGGATGGAGGTAGTATT 57.249 34.615 0.00 0.00 0.00 1.89
610 1728 8.184249 TCTTACATTATGGGATGGAGGTAGTAT 58.816 37.037 0.00 0.00 0.00 2.12
611 1729 7.541074 TCTTACATTATGGGATGGAGGTAGTA 58.459 38.462 0.00 0.00 0.00 1.82
613 1731 6.935240 TCTTACATTATGGGATGGAGGTAG 57.065 41.667 0.00 0.00 0.00 3.18
614 1732 6.792473 ACATCTTACATTATGGGATGGAGGTA 59.208 38.462 19.96 0.00 38.33 3.08
615 1733 5.612688 ACATCTTACATTATGGGATGGAGGT 59.387 40.000 19.96 7.96 38.33 3.85
616 1734 6.131972 ACATCTTACATTATGGGATGGAGG 57.868 41.667 19.96 7.52 38.33 4.30
617 1735 8.469309 AAAACATCTTACATTATGGGATGGAG 57.531 34.615 19.96 5.43 38.33 3.86
618 1736 8.837099 AAAAACATCTTACATTATGGGATGGA 57.163 30.769 19.96 4.87 38.33 3.41
665 1960 7.322664 TCCTCCGTTCTATAATGTAAAACGTT 58.677 34.615 0.00 0.00 40.65 3.99
667 1962 7.760131 TTCCTCCGTTCTATAATGTAAAACG 57.240 36.000 0.00 0.00 41.60 3.60
673 1968 8.319146 TCTTCTTTTTCCTCCGTTCTATAATGT 58.681 33.333 0.00 0.00 0.00 2.71
674 1969 8.718102 TCTTCTTTTTCCTCCGTTCTATAATG 57.282 34.615 0.00 0.00 0.00 1.90
675 1970 9.907229 AATCTTCTTTTTCCTCCGTTCTATAAT 57.093 29.630 0.00 0.00 0.00 1.28
678 1973 9.163899 GTTAATCTTCTTTTTCCTCCGTTCTAT 57.836 33.333 0.00 0.00 0.00 1.98
679 1974 7.605309 GGTTAATCTTCTTTTTCCTCCGTTCTA 59.395 37.037 0.00 0.00 0.00 2.10
680 1975 6.430308 GGTTAATCTTCTTTTTCCTCCGTTCT 59.570 38.462 0.00 0.00 0.00 3.01
681 1976 6.206048 TGGTTAATCTTCTTTTTCCTCCGTTC 59.794 38.462 0.00 0.00 0.00 3.95
683 1978 5.627135 TGGTTAATCTTCTTTTTCCTCCGT 58.373 37.500 0.00 0.00 0.00 4.69
684 1979 5.392057 GCTGGTTAATCTTCTTTTTCCTCCG 60.392 44.000 0.00 0.00 0.00 4.63
686 1981 6.575162 TGCTGGTTAATCTTCTTTTTCCTC 57.425 37.500 0.00 0.00 0.00 3.71
687 1982 6.015095 CCTTGCTGGTTAATCTTCTTTTTCCT 60.015 38.462 0.00 0.00 0.00 3.36
689 1984 6.159293 CCCTTGCTGGTTAATCTTCTTTTTC 58.841 40.000 0.00 0.00 0.00 2.29
709 2230 5.755849 ACATCATTCCGAGAAATTACCCTT 58.244 37.500 0.00 0.00 0.00 3.95
735 2256 4.934075 ATCGGAAATGATGCGTCATATG 57.066 40.909 21.49 11.53 44.20 1.78
743 2264 7.147312 TGATGGAATTTAATCGGAAATGATGC 58.853 34.615 0.00 0.00 0.00 3.91
753 2274 8.783833 ATGGATAGACTGATGGAATTTAATCG 57.216 34.615 0.00 0.00 0.00 3.34
777 2298 8.469309 TCTCTTTTGAATTTTCTGACCAGAAT 57.531 30.769 12.62 0.00 45.78 2.40
905 2426 0.806868 CCTTGTGCTGTGTGGCTATG 59.193 55.000 0.00 0.00 0.00 2.23
952 2473 7.189512 GCTCACGCTTGATTTATCAATTACTT 58.810 34.615 5.68 0.00 44.92 2.24
953 2474 6.238484 GGCTCACGCTTGATTTATCAATTACT 60.238 38.462 5.68 0.00 44.92 2.24
954 2475 5.909610 GGCTCACGCTTGATTTATCAATTAC 59.090 40.000 5.68 0.00 44.92 1.89
955 2476 5.008613 GGGCTCACGCTTGATTTATCAATTA 59.991 40.000 5.68 0.00 44.92 1.40
956 2477 4.202050 GGGCTCACGCTTGATTTATCAATT 60.202 41.667 5.68 0.00 44.92 2.32
957 2478 3.316308 GGGCTCACGCTTGATTTATCAAT 59.684 43.478 5.68 0.00 44.92 2.57
958 2479 2.682856 GGGCTCACGCTTGATTTATCAA 59.317 45.455 5.16 5.16 43.94 2.57
988 2509 6.201806 CAGTGGTGTTATAATTGAGCTAGCTC 59.798 42.308 33.47 33.47 43.01 4.09
1213 2755 0.956633 AAGCTGTACGACTTCACCGA 59.043 50.000 0.00 0.00 0.00 4.69
1218 2760 1.719780 CCGTTGAAGCTGTACGACTTC 59.280 52.381 16.75 16.75 42.15 3.01
1394 2936 1.351017 TGGAGGTTCAGGGCAGTAAAG 59.649 52.381 0.00 0.00 0.00 1.85
1395 2937 1.440618 TGGAGGTTCAGGGCAGTAAA 58.559 50.000 0.00 0.00 0.00 2.01
1398 2940 1.456287 GTTGGAGGTTCAGGGCAGT 59.544 57.895 0.00 0.00 0.00 4.40
1399 2941 1.303643 GGTTGGAGGTTCAGGGCAG 60.304 63.158 0.00 0.00 0.00 4.85
1401 2943 1.002011 GAGGTTGGAGGTTCAGGGC 60.002 63.158 0.00 0.00 0.00 5.19
1402 2944 1.133809 TGGAGGTTGGAGGTTCAGGG 61.134 60.000 0.00 0.00 0.00 4.45
1405 2947 1.518367 ACTTGGAGGTTGGAGGTTCA 58.482 50.000 0.00 0.00 0.00 3.18
1406 2948 2.505405 GAACTTGGAGGTTGGAGGTTC 58.495 52.381 0.00 0.00 0.00 3.62
1407 2949 1.145119 GGAACTTGGAGGTTGGAGGTT 59.855 52.381 0.00 0.00 0.00 3.50
1408 2950 0.771755 GGAACTTGGAGGTTGGAGGT 59.228 55.000 0.00 0.00 0.00 3.85
1409 2951 0.771127 TGGAACTTGGAGGTTGGAGG 59.229 55.000 0.00 0.00 0.00 4.30
1410 2952 2.230660 GTTGGAACTTGGAGGTTGGAG 58.769 52.381 0.00 0.00 0.00 3.86
1411 2953 1.476110 CGTTGGAACTTGGAGGTTGGA 60.476 52.381 0.00 0.00 0.00 3.53
1412 2954 0.951558 CGTTGGAACTTGGAGGTTGG 59.048 55.000 0.00 0.00 0.00 3.77
1413 2955 1.333619 CACGTTGGAACTTGGAGGTTG 59.666 52.381 0.00 0.00 0.00 3.77
1414 2956 1.675552 CACGTTGGAACTTGGAGGTT 58.324 50.000 0.00 0.00 0.00 3.50
1415 2957 0.818040 GCACGTTGGAACTTGGAGGT 60.818 55.000 0.00 0.00 0.00 3.85
1416 2958 1.515521 GGCACGTTGGAACTTGGAGG 61.516 60.000 0.00 0.00 0.00 4.30
1417 2959 1.515521 GGGCACGTTGGAACTTGGAG 61.516 60.000 0.00 0.00 0.00 3.86
1418 2960 1.527380 GGGCACGTTGGAACTTGGA 60.527 57.895 0.00 0.00 0.00 3.53
1419 2961 1.515521 GAGGGCACGTTGGAACTTGG 61.516 60.000 0.00 0.00 0.00 3.61
1423 2965 1.303317 ATGGAGGGCACGTTGGAAC 60.303 57.895 0.00 0.00 0.00 3.62
1424 2966 1.303236 CATGGAGGGCACGTTGGAA 60.303 57.895 0.00 0.00 0.00 3.53
1428 2970 0.606401 CAGTTCATGGAGGGCACGTT 60.606 55.000 0.00 0.00 0.00 3.99
1432 2974 0.038166 GGTTCAGTTCATGGAGGGCA 59.962 55.000 0.00 0.00 0.00 5.36
1433 2975 0.329596 AGGTTCAGTTCATGGAGGGC 59.670 55.000 0.00 0.00 0.00 5.19
1507 3049 1.099879 CCAGTAGCCGTAGCCGTAGT 61.100 60.000 0.00 0.00 41.25 2.73
1522 3064 2.123769 TGCAGCAACTTGGCCAGT 60.124 55.556 5.11 3.46 37.30 4.00
1526 3068 3.067180 ACATATATGTGCAGCAACTTGGC 59.933 43.478 17.60 0.00 40.03 4.52
1607 3175 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
1608 3176 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
1609 3177 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
1610 3178 1.152510 TCACACACACACACACACAC 58.847 50.000 0.00 0.00 0.00 3.82
1612 3180 1.531677 GCATCACACACACACACACAC 60.532 52.381 0.00 0.00 0.00 3.82
1613 3181 0.731994 GCATCACACACACACACACA 59.268 50.000 0.00 0.00 0.00 3.72
1614 3182 0.316114 CGCATCACACACACACACAC 60.316 55.000 0.00 0.00 0.00 3.82
1615 3183 0.460987 TCGCATCACACACACACACA 60.461 50.000 0.00 0.00 0.00 3.72
1616 3184 0.655208 TTCGCATCACACACACACAC 59.345 50.000 0.00 0.00 0.00 3.82
1617 3185 0.936600 CTTCGCATCACACACACACA 59.063 50.000 0.00 0.00 0.00 3.72
1618 3186 0.937304 ACTTCGCATCACACACACAC 59.063 50.000 0.00 0.00 0.00 3.82
1619 3187 1.330213 CAACTTCGCATCACACACACA 59.670 47.619 0.00 0.00 0.00 3.72
1620 3188 1.921573 GCAACTTCGCATCACACACAC 60.922 52.381 0.00 0.00 0.00 3.82
1621 3189 0.307453 GCAACTTCGCATCACACACA 59.693 50.000 0.00 0.00 0.00 3.72
1622 3190 0.588252 AGCAACTTCGCATCACACAC 59.412 50.000 0.00 0.00 0.00 3.82
1623 3191 0.587768 CAGCAACTTCGCATCACACA 59.412 50.000 0.00 0.00 0.00 3.72
1624 3192 0.727122 GCAGCAACTTCGCATCACAC 60.727 55.000 0.00 0.00 0.00 3.82
1625 3193 1.165284 TGCAGCAACTTCGCATCACA 61.165 50.000 0.00 0.00 0.00 3.58
1626 3194 0.169672 ATGCAGCAACTTCGCATCAC 59.830 50.000 0.00 0.00 42.58 3.06
1627 3195 0.169451 CATGCAGCAACTTCGCATCA 59.831 50.000 0.00 0.00 44.30 3.07
1628 3196 0.524816 CCATGCAGCAACTTCGCATC 60.525 55.000 0.00 0.00 44.30 3.91
1629 3197 1.246056 ACCATGCAGCAACTTCGCAT 61.246 50.000 0.00 0.00 46.98 4.73
1630 3198 1.454572 AACCATGCAGCAACTTCGCA 61.455 50.000 0.00 0.00 40.50 5.10
1631 3199 0.521291 TAACCATGCAGCAACTTCGC 59.479 50.000 0.00 0.00 0.00 4.70
1632 3200 2.226437 AGTTAACCATGCAGCAACTTCG 59.774 45.455 0.00 0.00 0.00 3.79
1633 3201 3.568538 CAGTTAACCATGCAGCAACTTC 58.431 45.455 0.00 0.00 0.00 3.01
1766 3365 3.003480 GAGGACGGAATTTTCACAGAGG 58.997 50.000 0.00 0.00 0.00 3.69
1771 3370 4.830826 AAACAGAGGACGGAATTTTCAC 57.169 40.909 0.00 0.00 0.00 3.18
1781 3380 7.603024 AGAAAGGAGTAATAAAAACAGAGGACG 59.397 37.037 0.00 0.00 0.00 4.79
1784 3383 7.603024 ACGAGAAAGGAGTAATAAAAACAGAGG 59.397 37.037 0.00 0.00 0.00 3.69
1808 3407 9.322776 GCTCTAGAAAATATGCAATGATAAACG 57.677 33.333 0.00 0.00 0.00 3.60
1891 3490 5.964288 TCCCCTTCCCATATAAGGAAAATG 58.036 41.667 4.56 0.00 45.41 2.32
1921 3520 8.472007 ACCTTGATTTTGACTAACAACCATAA 57.528 30.769 0.00 0.00 38.29 1.90
1922 3521 8.356657 CAACCTTGATTTTGACTAACAACCATA 58.643 33.333 0.00 0.00 38.29 2.74
1923 3522 6.976934 ACCTTGATTTTGACTAACAACCAT 57.023 33.333 0.00 0.00 38.29 3.55
1924 3523 6.153680 ACAACCTTGATTTTGACTAACAACCA 59.846 34.615 0.00 0.00 38.29 3.67
1929 3528 8.188139 TCTTCAACAACCTTGATTTTGACTAAC 58.812 33.333 0.00 0.00 0.00 2.34
1930 3529 8.287439 TCTTCAACAACCTTGATTTTGACTAA 57.713 30.769 0.00 0.00 0.00 2.24
1932 3531 6.773976 TCTTCAACAACCTTGATTTTGACT 57.226 33.333 0.00 0.00 0.00 3.41
1933 3532 7.009540 CAGTTCTTCAACAACCTTGATTTTGAC 59.990 37.037 0.00 0.00 34.60 3.18
1941 3540 3.443681 ACCACAGTTCTTCAACAACCTTG 59.556 43.478 0.00 0.00 34.60 3.61
1968 3567 0.548031 TCTAAGCAGGAATGCAGGGG 59.452 55.000 2.73 0.00 37.25 4.79
2012 3612 6.041979 GTCCCCCACTGCAATTCAAAATATAT 59.958 38.462 0.00 0.00 0.00 0.86
2013 3613 5.362430 GTCCCCCACTGCAATTCAAAATATA 59.638 40.000 0.00 0.00 0.00 0.86
2027 3627 1.039856 CCACAAAAAGTCCCCCACTG 58.960 55.000 0.00 0.00 34.56 3.66
2040 3640 1.658686 GGACACGCACCAACCACAAA 61.659 55.000 0.00 0.00 0.00 2.83
2082 3700 6.183360 GGCTATGAAGGTAGGAGTATATCTGC 60.183 46.154 0.00 0.00 34.62 4.26
2083 3701 7.122715 AGGCTATGAAGGTAGGAGTATATCTG 58.877 42.308 0.00 0.00 0.00 2.90
2084 3702 7.291991 AGGCTATGAAGGTAGGAGTATATCT 57.708 40.000 0.00 0.00 0.00 1.98
2085 3703 7.616150 TGAAGGCTATGAAGGTAGGAGTATATC 59.384 40.741 0.00 0.00 0.00 1.63
2086 3704 7.479579 TGAAGGCTATGAAGGTAGGAGTATAT 58.520 38.462 0.00 0.00 0.00 0.86
2087 3705 6.860034 TGAAGGCTATGAAGGTAGGAGTATA 58.140 40.000 0.00 0.00 0.00 1.47
2088 3706 5.716979 TGAAGGCTATGAAGGTAGGAGTAT 58.283 41.667 0.00 0.00 0.00 2.12
2089 3707 5.138758 TGAAGGCTATGAAGGTAGGAGTA 57.861 43.478 0.00 0.00 0.00 2.59
2090 3708 3.964031 CTGAAGGCTATGAAGGTAGGAGT 59.036 47.826 0.00 0.00 0.00 3.85
2091 3709 3.964031 ACTGAAGGCTATGAAGGTAGGAG 59.036 47.826 0.00 0.00 0.00 3.69
2092 3710 3.995636 ACTGAAGGCTATGAAGGTAGGA 58.004 45.455 0.00 0.00 0.00 2.94
2093 3711 4.762289 AACTGAAGGCTATGAAGGTAGG 57.238 45.455 0.00 0.00 0.00 3.18
2094 3712 4.878397 CCAAACTGAAGGCTATGAAGGTAG 59.122 45.833 0.00 0.00 0.00 3.18
2095 3713 4.843728 CCAAACTGAAGGCTATGAAGGTA 58.156 43.478 0.00 0.00 0.00 3.08
2121 3739 5.562506 ATTGATGAGATCTGCAGTTTGTG 57.437 39.130 14.67 0.00 0.00 3.33
2122 3740 4.331992 CGATTGATGAGATCTGCAGTTTGT 59.668 41.667 14.67 0.85 0.00 2.83
2123 3741 4.785658 GCGATTGATGAGATCTGCAGTTTG 60.786 45.833 14.67 0.00 0.00 2.93
2124 3742 3.311871 GCGATTGATGAGATCTGCAGTTT 59.688 43.478 14.67 2.24 0.00 2.66
2192 3816 9.146984 TGAAATTACGTTATGAGTGGTCTTTAG 57.853 33.333 0.00 0.00 0.00 1.85
2241 3926 4.625742 TGATCGCACTCTAGCTTTTGTAAC 59.374 41.667 0.00 0.00 0.00 2.50
2248 3933 1.550524 TGGTTGATCGCACTCTAGCTT 59.449 47.619 0.00 0.00 0.00 3.74
2259 3944 4.598406 TCGTTCATTTCATGGTTGATCG 57.402 40.909 13.20 13.20 35.16 3.69
2434 4122 0.314935 GTGTGGGTTTCAGCACATGG 59.685 55.000 0.00 0.00 31.97 3.66
2453 4141 1.384525 TCGTTTGTTCTGGGGTGTTG 58.615 50.000 0.00 0.00 0.00 3.33
2454 4142 2.131776 TTCGTTTGTTCTGGGGTGTT 57.868 45.000 0.00 0.00 0.00 3.32
2455 4143 2.131776 TTTCGTTTGTTCTGGGGTGT 57.868 45.000 0.00 0.00 0.00 4.16
2456 4144 2.862140 GCATTTCGTTTGTTCTGGGGTG 60.862 50.000 0.00 0.00 0.00 4.61
2457 4145 1.339929 GCATTTCGTTTGTTCTGGGGT 59.660 47.619 0.00 0.00 0.00 4.95
2459 4147 2.665519 CGAGCATTTCGTTTGTTCTGGG 60.666 50.000 0.00 0.00 44.27 4.45
2460 4148 2.574322 CGAGCATTTCGTTTGTTCTGG 58.426 47.619 0.00 0.00 44.27 3.86
2512 4200 4.501714 GCCATGCACCACGCCATG 62.502 66.667 0.00 0.00 41.33 3.66
2533 4221 3.195698 GACGATCACAAGGGCGGC 61.196 66.667 0.00 0.00 0.00 6.53


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

AutoCloner maintained by Alex Coulton.