Multiple sequence alignment - TraesCS5B01G081100

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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 TraesCS5B01G081100 chr5B 100.000 4346 0 0 1 4346 101411610 101407265 0.000000e+00 8026.0
1 TraesCS5B01G081100 chr5D 94.641 2594 104 11 1 2567 94061201 94058616 0.000000e+00 3988.0
2 TraesCS5B01G081100 chr5D 97.429 778 20 0 2631 3408 94051939 94051162 0.000000e+00 1327.0
3 TraesCS5B01G081100 chr5D 88.142 253 10 7 3400 3645 94048363 94048124 2.560000e-72 283.0
4 TraesCS5B01G081100 chr5D 82.466 365 16 15 3713 4066 94048032 94047705 4.280000e-70 276.0
5 TraesCS5B01G081100 chr5D 97.468 79 2 0 2566 2644 94058583 94058505 7.580000e-28 135.0
6 TraesCS5B01G081100 chr5D 97.872 47 1 0 3646 3692 94048077 94048031 1.000000e-11 82.4
7 TraesCS5B01G081100 chr5A 94.347 1875 98 3 699 2567 87985197 87983325 0.000000e+00 2868.0
8 TraesCS5B01G081100 chr5A 96.596 1087 28 3 2566 3645 87983292 87982208 0.000000e+00 1794.0
9 TraesCS5B01G081100 chr5A 93.361 723 21 11 1 708 87986314 87985604 0.000000e+00 1044.0
10 TraesCS5B01G081100 chr5A 88.383 439 29 8 3646 4066 87982161 87981727 3.880000e-140 508.0
11 TraesCS5B01G081100 chr7A 90.444 293 19 5 4063 4346 71590095 71589803 1.140000e-100 377.0
12 TraesCS5B01G081100 chr7A 89.273 289 23 4 4066 4346 637920318 637920030 5.350000e-94 355.0
13 TraesCS5B01G081100 chr2B 90.278 288 24 4 4063 4346 776758199 776758486 1.480000e-99 374.0
14 TraesCS5B01G081100 chr2B 90.071 282 20 4 4073 4346 708702615 708702896 4.130000e-95 359.0
15 TraesCS5B01G081100 chr6D 89.691 291 21 5 4063 4346 75988128 75988416 3.190000e-96 363.0
16 TraesCS5B01G081100 chr7D 89.619 289 22 4 4066 4346 31071990 31071702 1.150000e-95 361.0
17 TraesCS5B01G081100 chr7D 86.646 322 33 6 4034 4346 195269723 195269403 8.950000e-92 348.0
18 TraesCS5B01G081100 chr4D 89.619 289 22 4 4066 4346 426704607 426704319 1.150000e-95 361.0
19 TraesCS5B01G081100 chr2A 89.310 290 23 4 4065 4346 25342828 25342539 1.490000e-94 357.0


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 TraesCS5B01G081100 chr5B 101407265 101411610 4345 True 8026.0 8026 100.00000 1 4346 1 chr5B.!!$R1 4345
1 TraesCS5B01G081100 chr5D 94058505 94061201 2696 True 2061.5 3988 96.05450 1 2644 2 chr5D.!!$R2 2643
2 TraesCS5B01G081100 chr5D 94047705 94051939 4234 True 492.1 1327 91.47725 2631 4066 4 chr5D.!!$R1 1435
3 TraesCS5B01G081100 chr5A 87981727 87986314 4587 True 1553.5 2868 93.17175 1 4066 4 chr5A.!!$R1 4065

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
172 191 0.770499 TCTTCCAGTGTTGATGGCCA 59.230 50.000 8.56 8.56 37.76 5.36 F
1113 1556 2.096069 CACTTCAACAACTCCTGCATCG 60.096 50.000 0.00 0.00 0.00 3.84 F
2104 2553 2.035704 TGTGCCAAACCTGCTACAAATG 59.964 45.455 0.00 0.00 0.00 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1174 1617 0.037303 CTCCTCAGAAAGGCTGGCAA 59.963 55.000 3.38 0.0 45.78 4.52 R
2106 2555 1.142465 GGTGATGGAGATGGAGCATGT 59.858 52.381 0.00 0.0 0.00 3.21 R
3784 7136 0.035458 CGGAGCCAGGTTCAACTTCT 59.965 55.000 5.55 0.0 0.00 2.85 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
54 58 3.838271 GCTGCGATCTCGGGTGGA 61.838 66.667 1.34 0.00 40.23 4.02
55 59 2.105128 CTGCGATCTCGGGTGGAC 59.895 66.667 1.34 0.00 40.23 4.02
56 60 2.362503 TGCGATCTCGGGTGGACT 60.363 61.111 1.34 0.00 40.23 3.85
103 117 6.639632 TTCTTCTTGAAAGTTTCCCATCAG 57.360 37.500 13.01 3.44 0.00 2.90
112 126 2.267642 TCCCATCAGGAAACGGCG 59.732 61.111 4.80 4.80 43.78 6.46
169 188 5.772825 TTCTTTTCTTCCAGTGTTGATGG 57.227 39.130 0.00 0.00 39.33 3.51
172 191 0.770499 TCTTCCAGTGTTGATGGCCA 59.230 50.000 8.56 8.56 37.76 5.36
195 214 6.268617 CCATCTGTATATCATCGGGATATGGT 59.731 42.308 16.10 0.00 46.34 3.55
244 266 4.827284 TGATTCTTTGGAGGAACCTGTTTC 59.173 41.667 0.00 0.00 39.86 2.78
263 285 6.296026 TGTTTCATCTTTAACCTGTGCTACT 58.704 36.000 0.00 0.00 0.00 2.57
264 286 6.204688 TGTTTCATCTTTAACCTGTGCTACTG 59.795 38.462 0.00 0.00 0.00 2.74
265 287 5.738619 TCATCTTTAACCTGTGCTACTGA 57.261 39.130 0.00 0.00 0.00 3.41
266 288 6.109156 TCATCTTTAACCTGTGCTACTGAA 57.891 37.500 0.00 0.00 0.00 3.02
267 289 6.711277 TCATCTTTAACCTGTGCTACTGAAT 58.289 36.000 0.00 0.00 0.00 2.57
288 310 7.592938 TGAATTAATGCTGTACTCTTTTGTGG 58.407 34.615 0.00 0.00 0.00 4.17
432 454 7.408543 TCTACATGTCCCTGTAGTACTAACTT 58.591 38.462 0.00 0.00 45.74 2.66
433 455 6.282199 ACATGTCCCTGTAGTACTAACTTG 57.718 41.667 3.61 9.51 37.15 3.16
526 548 6.495872 AGATTGGGAATGGGTAATCATTGATG 59.504 38.462 0.00 0.00 37.47 3.07
531 553 7.004086 GGGAATGGGTAATCATTGATGAGTTA 58.996 38.462 0.00 0.00 40.64 2.24
809 1252 2.305927 GTTGAACTGGAGGGAGAATGGA 59.694 50.000 0.00 0.00 0.00 3.41
971 1414 8.186821 AGAAATATTGCACTGCTTAATTCACTC 58.813 33.333 1.98 0.00 0.00 3.51
1077 1520 2.464796 TCTAAATGGCCGAGGAGGTA 57.535 50.000 0.00 0.00 43.70 3.08
1112 1555 3.141398 TCACTTCAACAACTCCTGCATC 58.859 45.455 0.00 0.00 0.00 3.91
1113 1556 2.096069 CACTTCAACAACTCCTGCATCG 60.096 50.000 0.00 0.00 0.00 3.84
1135 1578 4.249661 GGCTGAGTCGAAGAAAGAAGATT 58.750 43.478 0.00 0.00 39.69 2.40
1139 1582 5.238583 TGAGTCGAAGAAAGAAGATTTCCC 58.761 41.667 0.00 0.00 39.69 3.97
1141 1584 3.371285 GTCGAAGAAAGAAGATTTCCCGG 59.629 47.826 0.00 0.00 39.69 5.73
1157 1600 4.637387 TCCCGGTAAATACCACTGAAAA 57.363 40.909 10.10 0.00 46.80 2.29
1158 1601 5.182169 TCCCGGTAAATACCACTGAAAAT 57.818 39.130 10.10 0.00 46.80 1.82
1160 1603 6.114767 TCCCGGTAAATACCACTGAAAATAC 58.885 40.000 10.10 0.00 46.80 1.89
1174 1617 5.536161 ACTGAAAATACAGATGGCAACAGTT 59.464 36.000 0.00 0.00 45.21 3.16
1207 1650 2.304180 CTGAGGAGGAAAGAGAAGCCAA 59.696 50.000 0.00 0.00 0.00 4.52
1209 1652 3.054802 TGAGGAGGAAAGAGAAGCCAATC 60.055 47.826 0.00 0.00 0.00 2.67
1389 1838 4.498682 CCACAAGGAGACAAAGCAAGAAAG 60.499 45.833 0.00 0.00 36.89 2.62
1439 1888 4.853050 AGATGGCGCTGCTCCTGC 62.853 66.667 7.64 0.00 40.20 4.85
1500 1949 2.299297 AGTACCTGGTCGTCTTGAAAGG 59.701 50.000 0.63 0.00 38.25 3.11
1511 1960 2.485814 GTCTTGAAAGGTCTCCATGTGC 59.514 50.000 0.00 0.00 0.00 4.57
1705 2154 4.690122 TGAGTCTGACGATCATAGTACGA 58.310 43.478 1.52 0.00 0.00 3.43
1713 2162 6.379386 TGACGATCATAGTACGAATCATTCC 58.621 40.000 0.00 0.00 0.00 3.01
1736 2185 4.449068 CGCAAATGACTCTGTAAGTTCAGT 59.551 41.667 0.00 0.00 38.74 3.41
1765 2214 2.038952 ACTAAGCAGACTGTGATGGCAA 59.961 45.455 3.99 0.00 0.00 4.52
1812 2261 3.131396 CGTGACTAAACCACAGAGCTTT 58.869 45.455 0.00 0.00 34.36 3.51
1873 2322 4.034048 CGACTATAACCAGAAACACCATGC 59.966 45.833 0.00 0.00 0.00 4.06
1899 2348 3.553511 AGCAGAAGAGCGAAATAACATCG 59.446 43.478 0.00 0.00 42.99 3.84
2007 2456 5.117406 AGTTCAACAAGGAGAGGAAACTT 57.883 39.130 0.00 0.00 44.43 2.66
2037 2486 4.687901 TGTCACATCAACTCTTCCAAGA 57.312 40.909 0.00 0.00 0.00 3.02
2055 2504 4.913924 CCAAGAGTGAAGAAAATCAAAGCG 59.086 41.667 0.00 0.00 0.00 4.68
2104 2553 2.035704 TGTGCCAAACCTGCTACAAATG 59.964 45.455 0.00 0.00 0.00 2.32
2106 2555 2.961741 TGCCAAACCTGCTACAAATGAA 59.038 40.909 0.00 0.00 0.00 2.57
2163 2612 7.740805 AGGAGACTGAAAGAAAGATTACACTT 58.259 34.615 0.00 0.00 41.13 3.16
2250 2699 2.095668 ACTGAAGCTGTCTCGTTCTACG 60.096 50.000 0.00 0.00 44.19 3.51
2344 2793 7.546250 TTTTCTGGGTGCAAGGATAAAATAA 57.454 32.000 0.00 0.00 0.00 1.40
2366 2815 2.385315 GAAGACAGCTTCGCCAAAAAC 58.615 47.619 0.00 0.00 40.96 2.43
2592 3083 5.121298 GTCTTGTATTTTGGAACGGAGGTAC 59.879 44.000 0.00 0.00 0.00 3.34
2677 3168 1.888512 GCTTGGAGTTCATGGCAAGAA 59.111 47.619 0.22 0.22 0.00 2.52
2744 3235 4.261741 GCAAGAACTGAAATTGCAGGAAGA 60.262 41.667 18.01 0.00 46.64 2.87
2954 3445 4.021981 ACCAAGAACAATGAAGCTAAAGCC 60.022 41.667 0.00 0.00 43.38 4.35
3200 3691 1.425066 TCCTGACCTGAAGTTTGCCAT 59.575 47.619 0.00 0.00 0.00 4.40
3394 3885 9.449719 GTTTACCTAATTCCAAGAGAGATTTGA 57.550 33.333 0.00 0.00 0.00 2.69
3403 3894 6.985117 TCCAAGAGAGATTTGACAAAATTGG 58.015 36.000 4.41 11.70 36.10 3.16
3474 6772 3.529216 AATCGTCCTGGGGGTTAAAAA 57.471 42.857 0.00 0.00 0.00 1.94
3522 6820 3.960102 ACTTGTGGTGGTGAAAATGATGT 59.040 39.130 0.00 0.00 0.00 3.06
3600 6898 1.048601 GGACGCCCATATTCTCCTGA 58.951 55.000 0.00 0.00 0.00 3.86
3615 6913 0.893270 CCTGAATTCACCGGTGGCAA 60.893 55.000 33.40 21.90 0.00 4.52
3617 6915 0.179004 TGAATTCACCGGTGGCAAGT 60.179 50.000 33.40 20.77 0.00 3.16
3681 7032 1.021390 CAGAAGAAGCCGGCGACAAT 61.021 55.000 23.20 11.90 0.00 2.71
3693 7044 2.359900 GGCGACAATGAACTGAGGATT 58.640 47.619 0.00 0.00 0.00 3.01
3695 7046 3.557595 GGCGACAATGAACTGAGGATTAG 59.442 47.826 0.00 0.00 0.00 1.73
3743 7095 2.442236 GAGGGCAGAAATCCATCCAA 57.558 50.000 0.00 0.00 0.00 3.53
3757 7109 2.827322 CCATCCAAACAGAATCAGGCAA 59.173 45.455 0.00 0.00 0.00 4.52
3763 7115 2.409948 ACAGAATCAGGCAAGCCTAC 57.590 50.000 14.18 6.04 46.28 3.18
3782 7134 1.831736 ACCCTCACTAGATTCCCAACG 59.168 52.381 0.00 0.00 0.00 4.10
3783 7135 2.108168 CCCTCACTAGATTCCCAACGA 58.892 52.381 0.00 0.00 0.00 3.85
3784 7136 2.500098 CCCTCACTAGATTCCCAACGAA 59.500 50.000 0.00 0.00 34.14 3.85
3807 7159 1.600636 TTGAACCTGGCTCCGCTTG 60.601 57.895 0.00 0.00 0.00 4.01
3828 7185 1.939838 GCCGAAGAGAAGCCGAAAGAA 60.940 52.381 0.00 0.00 0.00 2.52
3830 7187 2.157863 CCGAAGAGAAGCCGAAAGAAAC 59.842 50.000 0.00 0.00 0.00 2.78
3831 7188 2.159960 CGAAGAGAAGCCGAAAGAAACG 60.160 50.000 0.00 0.00 0.00 3.60
3834 7191 3.665190 AGAGAAGCCGAAAGAAACGAAT 58.335 40.909 0.00 0.00 0.00 3.34
3845 7202 2.980568 AGAAACGAATATGAACCGCCA 58.019 42.857 0.00 0.00 0.00 5.69
3860 7217 2.981302 CCATCGTCCACTCTGCCA 59.019 61.111 0.00 0.00 0.00 4.92
3905 7263 6.695278 ACCAAGATGAAACATACACAAAAACG 59.305 34.615 0.00 0.00 0.00 3.60
3939 7308 2.193536 GTTCCACACGCCCTTTGCT 61.194 57.895 0.00 0.00 38.05 3.91
3944 7313 1.973281 ACACGCCCTTTGCTGATGG 60.973 57.895 0.00 0.00 38.05 3.51
3978 7347 2.874701 CCGGAATGAGGACATGATGTTC 59.125 50.000 0.00 0.00 36.79 3.18
3986 7355 1.560923 GACATGATGTTCGAGTCCCG 58.439 55.000 0.00 0.00 40.25 5.14
4001 7370 5.768662 TCGAGTCCCGATCTATATTTCACTT 59.231 40.000 0.00 0.00 43.23 3.16
4071 7440 6.443934 TTTTTCGACAAAGAGAATGTTGGA 57.556 33.333 0.00 0.00 33.75 3.53
4072 7441 6.443934 TTTTCGACAAAGAGAATGTTGGAA 57.556 33.333 0.00 0.00 33.75 3.53
4073 7442 6.443934 TTTCGACAAAGAGAATGTTGGAAA 57.556 33.333 0.00 0.00 34.26 3.13
4074 7443 6.633500 TTCGACAAAGAGAATGTTGGAAAT 57.367 33.333 0.00 0.00 33.75 2.17
4075 7444 7.737972 TTCGACAAAGAGAATGTTGGAAATA 57.262 32.000 0.00 0.00 33.75 1.40
4076 7445 7.921786 TCGACAAAGAGAATGTTGGAAATAT 57.078 32.000 0.00 0.00 33.75 1.28
4077 7446 8.335532 TCGACAAAGAGAATGTTGGAAATATT 57.664 30.769 0.00 0.00 40.52 1.28
4078 7447 9.443323 TCGACAAAGAGAATGTTGGAAATATTA 57.557 29.630 0.00 0.00 37.79 0.98
4079 7448 9.708222 CGACAAAGAGAATGTTGGAAATATTAG 57.292 33.333 0.00 0.00 37.79 1.73
4081 7450 9.753674 ACAAAGAGAATGTTGGAAATATTAGGA 57.246 29.630 0.00 0.00 37.79 2.94
4083 7452 9.981460 AAAGAGAATGTTGGAAATATTAGGACT 57.019 29.630 0.00 0.00 37.79 3.85
4084 7453 9.981460 AAGAGAATGTTGGAAATATTAGGACTT 57.019 29.630 0.00 0.00 37.79 3.01
4085 7454 9.981460 AGAGAATGTTGGAAATATTAGGACTTT 57.019 29.630 0.00 0.00 37.79 2.66
4089 7458 9.855021 AATGTTGGAAATATTAGGACTTTTTCG 57.145 29.630 0.00 0.00 35.79 3.46
4090 7459 8.624367 TGTTGGAAATATTAGGACTTTTTCGA 57.376 30.769 0.00 0.00 0.00 3.71
4091 7460 9.238368 TGTTGGAAATATTAGGACTTTTTCGAT 57.762 29.630 0.00 0.00 0.00 3.59
4102 7471 9.813446 TTAGGACTTTTTCGATTAGACTAATCC 57.187 33.333 23.51 11.91 41.10 3.01
4103 7472 7.848128 AGGACTTTTTCGATTAGACTAATCCA 58.152 34.615 23.51 12.71 41.10 3.41
4104 7473 7.764901 AGGACTTTTTCGATTAGACTAATCCAC 59.235 37.037 23.51 6.10 41.10 4.02
4105 7474 7.254017 GGACTTTTTCGATTAGACTAATCCACG 60.254 40.741 23.51 15.72 41.10 4.94
4106 7475 7.318141 ACTTTTTCGATTAGACTAATCCACGA 58.682 34.615 23.51 17.36 41.10 4.35
4107 7476 7.488471 ACTTTTTCGATTAGACTAATCCACGAG 59.512 37.037 23.51 17.71 41.10 4.18
4108 7477 6.446781 TTTCGATTAGACTAATCCACGAGT 57.553 37.500 23.51 0.00 41.10 4.18
4109 7478 7.558161 TTTCGATTAGACTAATCCACGAGTA 57.442 36.000 23.51 11.24 41.10 2.59
4110 7479 7.558161 TTCGATTAGACTAATCCACGAGTAA 57.442 36.000 23.51 6.60 41.10 2.24
4111 7480 7.558161 TCGATTAGACTAATCCACGAGTAAA 57.442 36.000 23.51 1.04 41.10 2.01
4112 7481 7.412853 TCGATTAGACTAATCCACGAGTAAAC 58.587 38.462 23.51 2.06 41.10 2.01
4113 7482 7.066163 TCGATTAGACTAATCCACGAGTAAACA 59.934 37.037 23.51 0.00 41.10 2.83
4114 7483 7.376336 CGATTAGACTAATCCACGAGTAAACAG 59.624 40.741 23.51 6.58 41.10 3.16
4115 7484 5.979288 AGACTAATCCACGAGTAAACAGT 57.021 39.130 0.00 0.00 0.00 3.55
4116 7485 8.565896 TTAGACTAATCCACGAGTAAACAGTA 57.434 34.615 0.00 0.00 0.00 2.74
4117 7486 7.458409 AGACTAATCCACGAGTAAACAGTAA 57.542 36.000 0.00 0.00 0.00 2.24
4118 7487 7.536855 AGACTAATCCACGAGTAAACAGTAAG 58.463 38.462 0.00 0.00 0.00 2.34
4119 7488 6.098017 ACTAATCCACGAGTAAACAGTAAGC 58.902 40.000 0.00 0.00 0.00 3.09
4120 7489 4.530710 ATCCACGAGTAAACAGTAAGCA 57.469 40.909 0.00 0.00 0.00 3.91
4121 7490 4.530710 TCCACGAGTAAACAGTAAGCAT 57.469 40.909 0.00 0.00 0.00 3.79
4122 7491 4.242475 TCCACGAGTAAACAGTAAGCATG 58.758 43.478 0.00 0.00 0.00 4.06
4123 7492 3.370978 CCACGAGTAAACAGTAAGCATGG 59.629 47.826 0.00 0.00 0.00 3.66
4124 7493 3.000727 ACGAGTAAACAGTAAGCATGGC 58.999 45.455 0.00 0.00 0.00 4.40
4125 7494 3.000041 CGAGTAAACAGTAAGCATGGCA 59.000 45.455 0.00 0.00 0.00 4.92
4126 7495 3.435327 CGAGTAAACAGTAAGCATGGCAA 59.565 43.478 0.00 0.00 0.00 4.52
4127 7496 4.436050 CGAGTAAACAGTAAGCATGGCAAG 60.436 45.833 0.00 0.00 0.00 4.01
4128 7497 3.758554 AGTAAACAGTAAGCATGGCAAGG 59.241 43.478 0.00 0.00 0.00 3.61
4129 7498 0.890683 AACAGTAAGCATGGCAAGGC 59.109 50.000 6.41 6.41 0.00 4.35
4130 7499 0.251297 ACAGTAAGCATGGCAAGGCA 60.251 50.000 15.52 0.00 34.88 4.75
4131 7500 1.108776 CAGTAAGCATGGCAAGGCAT 58.891 50.000 15.52 2.97 34.88 4.40
4132 7501 1.108776 AGTAAGCATGGCAAGGCATG 58.891 50.000 26.53 26.53 34.88 4.06
4154 7523 3.257393 CATCTCATGCCGATACCTAAGC 58.743 50.000 0.00 0.00 0.00 3.09
4155 7524 2.316108 TCTCATGCCGATACCTAAGCA 58.684 47.619 0.00 0.00 40.00 3.91
4156 7525 2.899900 TCTCATGCCGATACCTAAGCAT 59.100 45.455 0.00 0.00 46.50 3.79
4157 7526 4.086457 TCTCATGCCGATACCTAAGCATA 58.914 43.478 0.00 0.00 43.85 3.14
4158 7527 4.082190 TCTCATGCCGATACCTAAGCATAC 60.082 45.833 0.00 0.00 43.85 2.39
4159 7528 3.832490 TCATGCCGATACCTAAGCATACT 59.168 43.478 0.00 0.00 43.85 2.12
4160 7529 5.014202 TCATGCCGATACCTAAGCATACTA 58.986 41.667 0.00 0.00 43.85 1.82
4161 7530 5.125578 TCATGCCGATACCTAAGCATACTAG 59.874 44.000 0.00 0.00 43.85 2.57
4162 7531 3.192844 TGCCGATACCTAAGCATACTAGC 59.807 47.826 0.00 0.00 0.00 3.42
4163 7532 3.192844 GCCGATACCTAAGCATACTAGCA 59.807 47.826 0.00 0.00 36.85 3.49
4164 7533 4.734917 CCGATACCTAAGCATACTAGCAC 58.265 47.826 0.00 0.00 36.85 4.40
4165 7534 4.404324 CGATACCTAAGCATACTAGCACG 58.596 47.826 0.00 0.00 36.85 5.34
4166 7535 4.083431 CGATACCTAAGCATACTAGCACGT 60.083 45.833 0.00 0.00 36.85 4.49
4167 7536 5.121298 CGATACCTAAGCATACTAGCACGTA 59.879 44.000 0.00 0.00 36.85 3.57
4168 7537 4.564940 ACCTAAGCATACTAGCACGTAC 57.435 45.455 0.00 0.00 36.85 3.67
4169 7538 3.949754 ACCTAAGCATACTAGCACGTACA 59.050 43.478 0.00 0.00 36.85 2.90
4170 7539 4.036498 ACCTAAGCATACTAGCACGTACAG 59.964 45.833 0.00 0.00 36.85 2.74
4171 7540 4.275196 CCTAAGCATACTAGCACGTACAGA 59.725 45.833 0.00 0.00 36.85 3.41
4172 7541 4.713824 AAGCATACTAGCACGTACAGAA 57.286 40.909 0.00 0.00 36.85 3.02
4173 7542 4.030134 AGCATACTAGCACGTACAGAAC 57.970 45.455 0.00 0.00 36.85 3.01
4174 7543 3.442625 AGCATACTAGCACGTACAGAACA 59.557 43.478 0.00 0.00 36.85 3.18
4175 7544 4.098044 AGCATACTAGCACGTACAGAACAT 59.902 41.667 0.00 0.00 36.85 2.71
4176 7545 5.298527 AGCATACTAGCACGTACAGAACATA 59.701 40.000 0.00 0.00 36.85 2.29
4177 7546 5.625721 GCATACTAGCACGTACAGAACATAG 59.374 44.000 0.00 0.00 0.00 2.23
4178 7547 6.512903 GCATACTAGCACGTACAGAACATAGA 60.513 42.308 0.00 0.00 0.00 1.98
4179 7548 5.892160 ACTAGCACGTACAGAACATAGAA 57.108 39.130 0.00 0.00 0.00 2.10
4180 7549 5.638783 ACTAGCACGTACAGAACATAGAAC 58.361 41.667 0.00 0.00 0.00 3.01
4181 7550 3.846360 AGCACGTACAGAACATAGAACC 58.154 45.455 0.00 0.00 0.00 3.62
4182 7551 2.597305 GCACGTACAGAACATAGAACCG 59.403 50.000 0.00 0.00 0.00 4.44
4183 7552 3.671433 GCACGTACAGAACATAGAACCGA 60.671 47.826 0.00 0.00 0.00 4.69
4184 7553 4.478699 CACGTACAGAACATAGAACCGAA 58.521 43.478 0.00 0.00 0.00 4.30
4185 7554 4.322804 CACGTACAGAACATAGAACCGAAC 59.677 45.833 0.00 0.00 0.00 3.95
4186 7555 3.855950 CGTACAGAACATAGAACCGAACC 59.144 47.826 0.00 0.00 0.00 3.62
4187 7556 4.616604 CGTACAGAACATAGAACCGAACCA 60.617 45.833 0.00 0.00 0.00 3.67
4188 7557 4.553330 ACAGAACATAGAACCGAACCAT 57.447 40.909 0.00 0.00 0.00 3.55
4189 7558 4.504858 ACAGAACATAGAACCGAACCATC 58.495 43.478 0.00 0.00 0.00 3.51
4190 7559 4.223032 ACAGAACATAGAACCGAACCATCT 59.777 41.667 0.00 0.00 0.00 2.90
4191 7560 5.421056 ACAGAACATAGAACCGAACCATCTA 59.579 40.000 0.00 0.00 0.00 1.98
4192 7561 6.098409 ACAGAACATAGAACCGAACCATCTAT 59.902 38.462 0.00 0.00 36.96 1.98
4196 7565 3.460857 AGAACCGAACCATCTATGAGC 57.539 47.619 0.00 0.00 0.00 4.26
4197 7566 2.766263 AGAACCGAACCATCTATGAGCA 59.234 45.455 0.00 0.00 0.00 4.26
4198 7567 2.898729 ACCGAACCATCTATGAGCAG 57.101 50.000 0.00 0.00 0.00 4.24
4199 7568 2.111384 ACCGAACCATCTATGAGCAGT 58.889 47.619 0.00 0.00 0.00 4.40
4200 7569 3.296854 ACCGAACCATCTATGAGCAGTA 58.703 45.455 0.00 0.00 0.00 2.74
4201 7570 3.068307 ACCGAACCATCTATGAGCAGTAC 59.932 47.826 0.00 0.00 0.00 2.73
4202 7571 3.068165 CCGAACCATCTATGAGCAGTACA 59.932 47.826 0.00 0.00 0.00 2.90
4203 7572 4.262207 CCGAACCATCTATGAGCAGTACAT 60.262 45.833 0.00 0.00 0.00 2.29
4204 7573 5.048013 CCGAACCATCTATGAGCAGTACATA 60.048 44.000 0.00 0.00 0.00 2.29
4205 7574 6.350528 CCGAACCATCTATGAGCAGTACATAT 60.351 42.308 0.00 0.00 31.26 1.78
4206 7575 7.148069 CCGAACCATCTATGAGCAGTACATATA 60.148 40.741 0.00 0.00 31.26 0.86
4207 7576 7.698550 CGAACCATCTATGAGCAGTACATATAC 59.301 40.741 0.00 0.00 31.26 1.47
4208 7577 7.089770 ACCATCTATGAGCAGTACATATACG 57.910 40.000 0.00 0.00 36.33 3.06
4209 7578 6.095580 ACCATCTATGAGCAGTACATATACGG 59.904 42.308 0.00 0.00 36.33 4.02
4210 7579 6.318900 CCATCTATGAGCAGTACATATACGGA 59.681 42.308 0.00 0.00 36.33 4.69
4211 7580 7.013750 CCATCTATGAGCAGTACATATACGGAT 59.986 40.741 0.00 0.00 36.33 4.18
4212 7581 9.057089 CATCTATGAGCAGTACATATACGGATA 57.943 37.037 0.00 0.00 36.33 2.59
4213 7582 9.628500 ATCTATGAGCAGTACATATACGGATAA 57.372 33.333 0.00 0.00 36.33 1.75
4214 7583 9.628500 TCTATGAGCAGTACATATACGGATAAT 57.372 33.333 0.00 0.00 36.33 1.28
4217 7586 8.570068 TGAGCAGTACATATACGGATAATACA 57.430 34.615 12.59 0.00 36.33 2.29
4218 7587 9.016438 TGAGCAGTACATATACGGATAATACAA 57.984 33.333 12.59 0.00 36.33 2.41
4219 7588 9.850628 GAGCAGTACATATACGGATAATACAAA 57.149 33.333 12.59 0.00 36.33 2.83
4232 7601 9.970395 ACGGATAATACAAATACGAGTAAATGA 57.030 29.630 0.00 0.00 0.00 2.57
4238 7607 8.833231 ATACAAATACGAGTAAATGAGGGATG 57.167 34.615 0.00 0.00 0.00 3.51
4239 7608 6.884832 ACAAATACGAGTAAATGAGGGATGA 58.115 36.000 0.00 0.00 0.00 2.92
4240 7609 7.335627 ACAAATACGAGTAAATGAGGGATGAA 58.664 34.615 0.00 0.00 0.00 2.57
4241 7610 7.280205 ACAAATACGAGTAAATGAGGGATGAAC 59.720 37.037 0.00 0.00 0.00 3.18
4242 7611 4.819105 ACGAGTAAATGAGGGATGAACA 57.181 40.909 0.00 0.00 0.00 3.18
4243 7612 4.759782 ACGAGTAAATGAGGGATGAACAG 58.240 43.478 0.00 0.00 0.00 3.16
4244 7613 4.466370 ACGAGTAAATGAGGGATGAACAGA 59.534 41.667 0.00 0.00 0.00 3.41
4245 7614 5.129485 ACGAGTAAATGAGGGATGAACAGAT 59.871 40.000 0.00 0.00 0.00 2.90
4246 7615 5.694006 CGAGTAAATGAGGGATGAACAGATC 59.306 44.000 0.00 0.00 0.00 2.75
4247 7616 6.566079 AGTAAATGAGGGATGAACAGATCA 57.434 37.500 0.00 0.00 43.67 2.92
4257 7626 2.039418 TGAACAGATCATACCCTCCGG 58.961 52.381 0.00 0.00 31.50 5.14
4258 7627 2.625883 TGAACAGATCATACCCTCCGGT 60.626 50.000 0.00 0.00 38.58 5.28
4259 7628 2.176247 ACAGATCATACCCTCCGGTT 57.824 50.000 0.00 0.00 40.58 4.44
4260 7629 1.762957 ACAGATCATACCCTCCGGTTG 59.237 52.381 0.00 0.00 40.58 3.77
4261 7630 1.070758 CAGATCATACCCTCCGGTTGG 59.929 57.143 0.00 5.83 40.58 3.77
4262 7631 0.250338 GATCATACCCTCCGGTTGGC 60.250 60.000 0.00 0.00 40.58 4.52
4263 7632 0.694444 ATCATACCCTCCGGTTGGCT 60.694 55.000 0.00 0.00 40.58 4.75
4264 7633 0.031917 TCATACCCTCCGGTTGGCTA 60.032 55.000 0.00 0.00 40.58 3.93
4265 7634 0.393077 CATACCCTCCGGTTGGCTAG 59.607 60.000 0.00 0.00 40.58 3.42
4266 7635 0.763223 ATACCCTCCGGTTGGCTAGG 60.763 60.000 0.00 0.00 40.58 3.02
4267 7636 4.176752 CCCTCCGGTTGGCTAGGC 62.177 72.222 9.85 9.85 34.14 3.93
4299 7668 3.123620 CAGCAGCAGCCCTTCGTC 61.124 66.667 0.00 0.00 43.56 4.20
4300 7669 4.400961 AGCAGCAGCCCTTCGTCC 62.401 66.667 0.00 0.00 43.56 4.79
4302 7671 3.710722 CAGCAGCCCTTCGTCCCT 61.711 66.667 0.00 0.00 0.00 4.20
4303 7672 3.710722 AGCAGCCCTTCGTCCCTG 61.711 66.667 0.00 0.00 0.00 4.45
4304 7673 4.785453 GCAGCCCTTCGTCCCTGG 62.785 72.222 0.00 0.00 0.00 4.45
4305 7674 4.101448 CAGCCCTTCGTCCCTGGG 62.101 72.222 6.33 6.33 43.62 4.45
4308 7677 3.330720 CCCTTCGTCCCTGGGCTT 61.331 66.667 8.22 0.00 33.88 4.35
4309 7678 2.269241 CCTTCGTCCCTGGGCTTC 59.731 66.667 8.22 0.00 0.00 3.86
4310 7679 2.294078 CCTTCGTCCCTGGGCTTCT 61.294 63.158 8.22 0.00 0.00 2.85
4311 7680 1.679898 CTTCGTCCCTGGGCTTCTT 59.320 57.895 8.22 0.00 0.00 2.52
4312 7681 0.391793 CTTCGTCCCTGGGCTTCTTC 60.392 60.000 8.22 0.00 0.00 2.87
4313 7682 0.836400 TTCGTCCCTGGGCTTCTTCT 60.836 55.000 8.22 0.00 0.00 2.85
4314 7683 0.836400 TCGTCCCTGGGCTTCTTCTT 60.836 55.000 8.22 0.00 0.00 2.52
4315 7684 0.674895 CGTCCCTGGGCTTCTTCTTG 60.675 60.000 8.22 0.00 0.00 3.02
4316 7685 0.322906 GTCCCTGGGCTTCTTCTTGG 60.323 60.000 8.22 0.00 0.00 3.61
4317 7686 1.680314 CCCTGGGCTTCTTCTTGGC 60.680 63.158 0.00 0.00 0.00 4.52
4318 7687 2.042831 CCTGGGCTTCTTCTTGGCG 61.043 63.158 0.00 0.00 0.00 5.69
4319 7688 2.034066 TGGGCTTCTTCTTGGCGG 59.966 61.111 0.00 0.00 0.00 6.13
4320 7689 3.443925 GGGCTTCTTCTTGGCGGC 61.444 66.667 0.00 0.00 0.00 6.53
4321 7690 3.804193 GGCTTCTTCTTGGCGGCG 61.804 66.667 0.51 0.51 0.00 6.46
4322 7691 3.804193 GCTTCTTCTTGGCGGCGG 61.804 66.667 9.78 0.00 0.00 6.13
4323 7692 3.804193 CTTCTTCTTGGCGGCGGC 61.804 66.667 27.76 27.76 38.90 6.53
4342 7711 3.490759 GCGTCAGCCATGGTGTCG 61.491 66.667 14.67 18.54 42.92 4.35
4343 7712 2.261361 CGTCAGCCATGGTGTCGA 59.739 61.111 20.41 8.62 42.76 4.20
4344 7713 1.153568 CGTCAGCCATGGTGTCGAT 60.154 57.895 20.41 0.00 42.76 3.59
4345 7714 1.423721 CGTCAGCCATGGTGTCGATG 61.424 60.000 20.41 11.64 42.76 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 53 0.970937 TGGATCGTCCAGAGTCCACC 60.971 60.000 3.02 0.00 42.67 4.61
77 85 6.607198 TGATGGGAAACTTTCAAGAAGAAACT 59.393 34.615 3.93 0.00 41.17 2.66
169 188 4.679373 ATCCCGATGATATACAGATGGC 57.321 45.455 0.00 0.00 0.00 4.40
172 191 7.786943 AGAACCATATCCCGATGATATACAGAT 59.213 37.037 6.98 0.00 43.40 2.90
195 214 5.333035 CGAACTGAGACGCAATTAAACAGAA 60.333 40.000 0.00 0.00 0.00 3.02
244 266 6.992063 ATTCAGTAGCACAGGTTAAAGATG 57.008 37.500 0.00 0.00 0.00 2.90
263 285 7.230510 ACCACAAAAGAGTACAGCATTAATTCA 59.769 33.333 0.00 0.00 0.00 2.57
264 286 7.538678 CACCACAAAAGAGTACAGCATTAATTC 59.461 37.037 0.00 0.00 0.00 2.17
265 287 7.014230 ACACCACAAAAGAGTACAGCATTAATT 59.986 33.333 0.00 0.00 0.00 1.40
266 288 6.490040 ACACCACAAAAGAGTACAGCATTAAT 59.510 34.615 0.00 0.00 0.00 1.40
267 289 5.825679 ACACCACAAAAGAGTACAGCATTAA 59.174 36.000 0.00 0.00 0.00 1.40
288 310 2.662156 GCTAGCGTAGTTGACTTGACAC 59.338 50.000 0.00 0.00 0.00 3.67
531 553 9.107177 CTGCAATCAGTTTCTTTAGAGACATAT 57.893 33.333 3.63 0.00 35.61 1.78
715 1158 9.476202 AAAGTCTTAACATAAAAGCATTTCCAC 57.524 29.630 0.00 0.00 37.28 4.02
809 1252 6.446110 TCCAAGAATATGCATAGATGGATCCT 59.554 38.462 20.17 0.00 39.62 3.24
855 1298 3.607741 CACTTGGTCAAGATCTGCATCT 58.392 45.455 16.55 0.00 41.59 2.90
1077 1520 5.769662 TGTTGAAGTGATAGCCTGTTTGATT 59.230 36.000 0.00 0.00 0.00 2.57
1112 1555 1.989165 CTTCTTTCTTCGACTCAGCCG 59.011 52.381 0.00 0.00 0.00 5.52
1113 1556 3.305398 TCTTCTTTCTTCGACTCAGCC 57.695 47.619 0.00 0.00 0.00 4.85
1139 1582 7.837202 TCTGTATTTTCAGTGGTATTTACCG 57.163 36.000 2.46 0.00 40.24 4.02
1141 1584 8.129211 GCCATCTGTATTTTCAGTGGTATTTAC 58.871 37.037 12.76 0.00 38.09 2.01
1174 1617 0.037303 CTCCTCAGAAAGGCTGGCAA 59.963 55.000 3.38 0.00 45.78 4.52
1179 1622 2.571202 CTCTTTCCTCCTCAGAAAGGCT 59.429 50.000 12.02 0.00 46.65 4.58
1180 1623 2.569404 TCTCTTTCCTCCTCAGAAAGGC 59.431 50.000 12.02 0.00 46.65 4.35
1184 1627 2.569404 GGCTTCTCTTTCCTCCTCAGAA 59.431 50.000 0.00 0.00 0.00 3.02
1185 1628 2.183679 GGCTTCTCTTTCCTCCTCAGA 58.816 52.381 0.00 0.00 0.00 3.27
1207 1650 2.481441 TGCTCTCTGGTAATGTGGGAT 58.519 47.619 0.00 0.00 0.00 3.85
1209 1652 2.486191 GGATGCTCTCTGGTAATGTGGG 60.486 54.545 0.00 0.00 0.00 4.61
1324 1767 0.953960 GTTCCATTCCTGGCGTTCGT 60.954 55.000 0.00 0.00 42.80 3.85
1389 1838 2.999507 TCTTCAGCGTCTGACTCTTC 57.000 50.000 6.21 0.00 40.46 2.87
1439 1888 4.943705 TCTGCTTGGTAAATTCAGGCTTAG 59.056 41.667 0.00 0.00 37.96 2.18
1500 1949 2.175878 ACAACTCTGCACATGGAGAC 57.824 50.000 7.62 0.00 37.60 3.36
1713 2162 4.449068 ACTGAACTTACAGAGTCATTTGCG 59.551 41.667 0.00 0.00 37.72 4.85
1736 2185 4.039124 TCACAGTCTGCTTAGTCATGTTCA 59.961 41.667 0.00 0.00 0.00 3.18
1765 2214 5.471456 CCTTATCTTGTTTGTGCTTCTCTGT 59.529 40.000 0.00 0.00 0.00 3.41
1873 2322 4.083324 TGTTATTTCGCTCTTCTGCTTTGG 60.083 41.667 0.00 0.00 0.00 3.28
1899 2348 0.107508 TACCTGCAGCCTTCTCATGC 60.108 55.000 8.66 0.00 40.40 4.06
2007 2456 6.114187 AGAGTTGATGTGACAATGGAGTTA 57.886 37.500 0.00 0.00 32.36 2.24
2037 2486 2.622942 TGGCGCTTTGATTTTCTTCACT 59.377 40.909 7.64 0.00 0.00 3.41
2055 2504 2.176273 CACGCTAGCTGGTGATGGC 61.176 63.158 18.32 0.00 36.25 4.40
2104 2553 2.877168 GTGATGGAGATGGAGCATGTTC 59.123 50.000 0.04 0.04 0.00 3.18
2106 2555 1.142465 GGTGATGGAGATGGAGCATGT 59.858 52.381 0.00 0.00 0.00 3.21
2250 2699 1.620819 TCTTTCCTGACTGCTCTCACC 59.379 52.381 0.00 0.00 0.00 4.02
2366 2815 3.929417 TGTTAACGTCTGGTTTTCGTG 57.071 42.857 0.26 0.00 40.09 4.35
2443 2892 9.860650 ATTTGTGACCTAAGGTGCAATTATATA 57.139 29.630 0.00 0.00 35.25 0.86
2592 3083 7.445096 TCCATACATTGCCATGTTAGATGTTAG 59.555 37.037 8.93 0.00 41.16 2.34
2677 3168 6.862469 AATGGGAATGATGTCTTGTCATTT 57.138 33.333 3.22 0.00 44.10 2.32
2744 3235 2.365582 GGCGTGGATGTTATCTTTGGT 58.634 47.619 0.00 0.00 0.00 3.67
2954 3445 4.696899 TGAATCTTTTGATGCAGCAGAG 57.303 40.909 4.20 7.91 39.49 3.35
3200 3691 5.011533 CCCCCACATTTACTTGAATTTCACA 59.988 40.000 0.00 0.00 0.00 3.58
3394 3885 6.767423 AGCTCAAATGTAAAAGCCAATTTTGT 59.233 30.769 0.00 0.00 41.26 2.83
3403 3894 2.665052 GCAGCAGCTCAAATGTAAAAGC 59.335 45.455 0.00 0.00 37.91 3.51
3474 6772 9.985730 TTTAATCTTGAGAAAACAAATGCAGAT 57.014 25.926 0.00 0.00 0.00 2.90
3593 6891 0.613260 CCACCGGTGAATTCAGGAGA 59.387 55.000 36.07 0.00 0.00 3.71
3600 6898 2.279935 TTACTTGCCACCGGTGAATT 57.720 45.000 36.07 18.61 0.00 2.17
3615 6913 3.626930 AGAGGAGACATCGAGCTTTACT 58.373 45.455 0.00 0.00 0.00 2.24
3617 6915 4.017126 TCAAGAGGAGACATCGAGCTTTA 58.983 43.478 0.00 0.00 0.00 1.85
3681 7032 3.031013 TGGCGATCTAATCCTCAGTTCA 58.969 45.455 0.00 0.00 0.00 3.18
3693 7044 1.076559 TTCTCCGGGTGGCGATCTA 60.077 57.895 0.00 0.00 34.14 1.98
3695 7046 1.956629 TTCTTCTCCGGGTGGCGATC 61.957 60.000 0.00 0.00 34.14 3.69
3743 7095 2.619074 GGTAGGCTTGCCTGATTCTGTT 60.619 50.000 23.03 0.00 0.00 3.16
3757 7109 2.426561 GGGAATCTAGTGAGGGTAGGCT 60.427 54.545 0.00 0.00 0.00 4.58
3763 7115 2.108168 TCGTTGGGAATCTAGTGAGGG 58.892 52.381 0.00 0.00 0.00 4.30
3782 7134 2.155279 GGAGCCAGGTTCAACTTCTTC 58.845 52.381 5.55 0.00 0.00 2.87
3783 7135 1.543429 CGGAGCCAGGTTCAACTTCTT 60.543 52.381 5.55 0.00 0.00 2.52
3784 7136 0.035458 CGGAGCCAGGTTCAACTTCT 59.965 55.000 5.55 0.00 0.00 2.85
3807 7159 1.362406 CTTTCGGCTTCTCTTCGGCC 61.362 60.000 0.00 0.00 42.18 6.13
3814 7166 5.291128 TCATATTCGTTTCTTTCGGCTTCTC 59.709 40.000 0.00 0.00 0.00 2.87
3828 7185 1.864711 CGATGGCGGTTCATATTCGTT 59.135 47.619 0.00 0.00 0.00 3.85
3830 7187 1.455786 GACGATGGCGGTTCATATTCG 59.544 52.381 0.00 0.00 43.17 3.34
3831 7188 1.798813 GGACGATGGCGGTTCATATTC 59.201 52.381 0.00 0.00 43.17 1.75
3834 7191 0.179094 GTGGACGATGGCGGTTCATA 60.179 55.000 0.00 0.00 43.17 2.15
3845 7202 0.036010 CCTTTGGCAGAGTGGACGAT 60.036 55.000 4.18 0.00 0.00 3.73
3860 7217 1.372623 GTCTTCGACGGCGTCCTTT 60.373 57.895 31.86 0.00 38.98 3.11
3883 7240 6.212955 CCCGTTTTTGTGTATGTTTCATCTT 58.787 36.000 0.00 0.00 0.00 2.40
3905 7263 1.424302 GGAACTTAGATTAGGGGCCCC 59.576 57.143 35.90 35.90 0.00 5.80
3939 7308 2.027325 GCGATGCTGATTGCCATCA 58.973 52.632 0.00 0.00 42.00 3.07
3944 7313 1.789078 ATTCCGGCGATGCTGATTGC 61.789 55.000 9.30 0.00 37.02 3.56
3978 7347 5.630661 AGTGAAATATAGATCGGGACTCG 57.369 43.478 0.00 0.00 40.90 4.18
4001 7370 9.656323 ATTATCTCTGTAATCCTGGTACTTGTA 57.344 33.333 0.00 0.00 0.00 2.41
4076 7445 9.813446 GGATTAGTCTAATCGAAAAAGTCCTAA 57.187 33.333 21.16 0.35 44.24 2.69
4077 7446 8.974238 TGGATTAGTCTAATCGAAAAAGTCCTA 58.026 33.333 21.16 0.00 44.24 2.94
4078 7447 7.764901 GTGGATTAGTCTAATCGAAAAAGTCCT 59.235 37.037 21.16 0.00 44.24 3.85
4079 7448 7.254017 CGTGGATTAGTCTAATCGAAAAAGTCC 60.254 40.741 21.16 10.15 44.24 3.85
4080 7449 7.487189 TCGTGGATTAGTCTAATCGAAAAAGTC 59.513 37.037 21.16 9.33 44.24 3.01
4081 7450 7.318141 TCGTGGATTAGTCTAATCGAAAAAGT 58.682 34.615 21.16 0.00 44.24 2.66
4082 7451 7.488471 ACTCGTGGATTAGTCTAATCGAAAAAG 59.512 37.037 21.16 17.18 44.24 2.27
4083 7452 7.318141 ACTCGTGGATTAGTCTAATCGAAAAA 58.682 34.615 21.16 9.32 44.24 1.94
4084 7453 6.860080 ACTCGTGGATTAGTCTAATCGAAAA 58.140 36.000 21.16 11.18 44.24 2.29
4085 7454 6.446781 ACTCGTGGATTAGTCTAATCGAAA 57.553 37.500 21.16 11.45 44.24 3.46
4086 7455 7.558161 TTACTCGTGGATTAGTCTAATCGAA 57.442 36.000 21.16 12.41 44.24 3.71
4087 7456 7.066163 TGTTTACTCGTGGATTAGTCTAATCGA 59.934 37.037 21.16 16.80 44.24 3.59
4088 7457 7.191551 TGTTTACTCGTGGATTAGTCTAATCG 58.808 38.462 21.16 13.64 44.24 3.34
4089 7458 8.189460 ACTGTTTACTCGTGGATTAGTCTAATC 58.811 37.037 20.24 20.24 42.94 1.75
4090 7459 8.064336 ACTGTTTACTCGTGGATTAGTCTAAT 57.936 34.615 4.71 4.71 0.00 1.73
4091 7460 7.458409 ACTGTTTACTCGTGGATTAGTCTAA 57.542 36.000 0.00 0.00 0.00 2.10
4092 7461 8.565896 TTACTGTTTACTCGTGGATTAGTCTA 57.434 34.615 0.00 0.00 0.00 2.59
4093 7462 5.979288 ACTGTTTACTCGTGGATTAGTCT 57.021 39.130 0.00 0.00 0.00 3.24
4094 7463 6.253083 GCTTACTGTTTACTCGTGGATTAGTC 59.747 42.308 0.00 0.00 0.00 2.59
4095 7464 6.098017 GCTTACTGTTTACTCGTGGATTAGT 58.902 40.000 0.00 0.00 0.00 2.24
4096 7465 6.097356 TGCTTACTGTTTACTCGTGGATTAG 58.903 40.000 0.00 0.00 0.00 1.73
4097 7466 6.028146 TGCTTACTGTTTACTCGTGGATTA 57.972 37.500 0.00 0.00 0.00 1.75
4098 7467 4.890088 TGCTTACTGTTTACTCGTGGATT 58.110 39.130 0.00 0.00 0.00 3.01
4099 7468 4.530710 TGCTTACTGTTTACTCGTGGAT 57.469 40.909 0.00 0.00 0.00 3.41
4100 7469 4.242475 CATGCTTACTGTTTACTCGTGGA 58.758 43.478 0.00 0.00 0.00 4.02
4101 7470 3.370978 CCATGCTTACTGTTTACTCGTGG 59.629 47.826 0.00 0.00 0.00 4.94
4102 7471 3.181520 GCCATGCTTACTGTTTACTCGTG 60.182 47.826 0.00 0.00 0.00 4.35
4103 7472 3.000727 GCCATGCTTACTGTTTACTCGT 58.999 45.455 0.00 0.00 0.00 4.18
4104 7473 3.000041 TGCCATGCTTACTGTTTACTCG 59.000 45.455 0.00 0.00 0.00 4.18
4105 7474 4.142600 CCTTGCCATGCTTACTGTTTACTC 60.143 45.833 0.00 0.00 0.00 2.59
4106 7475 3.758554 CCTTGCCATGCTTACTGTTTACT 59.241 43.478 0.00 0.00 0.00 2.24
4107 7476 3.673323 GCCTTGCCATGCTTACTGTTTAC 60.673 47.826 0.00 0.00 0.00 2.01
4108 7477 2.491693 GCCTTGCCATGCTTACTGTTTA 59.508 45.455 0.00 0.00 0.00 2.01
4109 7478 1.273327 GCCTTGCCATGCTTACTGTTT 59.727 47.619 0.00 0.00 0.00 2.83
4110 7479 0.890683 GCCTTGCCATGCTTACTGTT 59.109 50.000 0.00 0.00 0.00 3.16
4111 7480 0.251297 TGCCTTGCCATGCTTACTGT 60.251 50.000 0.00 0.00 0.00 3.55
4112 7481 1.108776 ATGCCTTGCCATGCTTACTG 58.891 50.000 0.00 0.00 0.00 2.74
4113 7482 1.108776 CATGCCTTGCCATGCTTACT 58.891 50.000 0.00 0.00 36.52 2.24
4114 7483 3.654178 CATGCCTTGCCATGCTTAC 57.346 52.632 0.00 0.00 36.52 2.34
4133 7502 3.257393 GCTTAGGTATCGGCATGAGATG 58.743 50.000 12.56 0.00 0.00 2.90
4134 7503 2.899900 TGCTTAGGTATCGGCATGAGAT 59.100 45.455 0.00 2.92 0.00 2.75
4135 7504 2.316108 TGCTTAGGTATCGGCATGAGA 58.684 47.619 0.00 0.00 0.00 3.27
4136 7505 2.820059 TGCTTAGGTATCGGCATGAG 57.180 50.000 0.00 0.00 0.00 2.90
4137 7506 3.832490 AGTATGCTTAGGTATCGGCATGA 59.168 43.478 12.17 0.00 43.84 3.07
4138 7507 4.193826 AGTATGCTTAGGTATCGGCATG 57.806 45.455 12.17 0.00 43.84 4.06
4139 7508 4.142138 GCTAGTATGCTTAGGTATCGGCAT 60.142 45.833 8.62 8.62 45.57 4.40
4140 7509 3.192844 GCTAGTATGCTTAGGTATCGGCA 59.807 47.826 0.00 0.00 39.06 5.69
4141 7510 3.192844 TGCTAGTATGCTTAGGTATCGGC 59.807 47.826 0.00 0.00 0.00 5.54
4142 7511 4.672024 CGTGCTAGTATGCTTAGGTATCGG 60.672 50.000 0.00 0.00 0.00 4.18
4143 7512 4.083431 ACGTGCTAGTATGCTTAGGTATCG 60.083 45.833 0.00 0.00 0.00 2.92
4144 7513 5.373981 ACGTGCTAGTATGCTTAGGTATC 57.626 43.478 0.00 0.00 0.00 2.24
4145 7514 5.766670 TGTACGTGCTAGTATGCTTAGGTAT 59.233 40.000 4.97 0.00 0.00 2.73
4146 7515 5.125356 TGTACGTGCTAGTATGCTTAGGTA 58.875 41.667 4.97 0.00 0.00 3.08
4147 7516 3.949754 TGTACGTGCTAGTATGCTTAGGT 59.050 43.478 4.97 0.00 0.00 3.08
4148 7517 4.275196 TCTGTACGTGCTAGTATGCTTAGG 59.725 45.833 4.97 0.00 0.00 2.69
4149 7518 5.419760 TCTGTACGTGCTAGTATGCTTAG 57.580 43.478 4.97 0.00 0.00 2.18
4150 7519 5.124297 TGTTCTGTACGTGCTAGTATGCTTA 59.876 40.000 4.97 0.00 0.00 3.09
4151 7520 4.082408 TGTTCTGTACGTGCTAGTATGCTT 60.082 41.667 4.97 0.00 0.00 3.91
4152 7521 3.442625 TGTTCTGTACGTGCTAGTATGCT 59.557 43.478 4.97 0.00 0.00 3.79
4153 7522 3.766151 TGTTCTGTACGTGCTAGTATGC 58.234 45.455 4.97 0.00 0.00 3.14
4154 7523 6.956047 TCTATGTTCTGTACGTGCTAGTATG 58.044 40.000 4.97 0.00 0.00 2.39
4155 7524 7.416022 GTTCTATGTTCTGTACGTGCTAGTAT 58.584 38.462 4.97 0.00 0.00 2.12
4156 7525 6.183360 GGTTCTATGTTCTGTACGTGCTAGTA 60.183 42.308 4.97 0.00 0.00 1.82
4157 7526 5.392811 GGTTCTATGTTCTGTACGTGCTAGT 60.393 44.000 4.97 0.00 0.00 2.57
4158 7527 5.035443 GGTTCTATGTTCTGTACGTGCTAG 58.965 45.833 4.97 1.14 0.00 3.42
4159 7528 4.437794 CGGTTCTATGTTCTGTACGTGCTA 60.438 45.833 4.97 0.00 0.00 3.49
4160 7529 3.672511 CGGTTCTATGTTCTGTACGTGCT 60.673 47.826 4.97 0.00 0.00 4.40
4161 7530 2.597305 CGGTTCTATGTTCTGTACGTGC 59.403 50.000 0.00 0.00 0.00 5.34
4162 7531 4.087510 TCGGTTCTATGTTCTGTACGTG 57.912 45.455 0.00 0.00 0.00 4.49
4163 7532 4.479619 GTTCGGTTCTATGTTCTGTACGT 58.520 43.478 0.00 0.00 0.00 3.57
4164 7533 3.855950 GGTTCGGTTCTATGTTCTGTACG 59.144 47.826 0.00 0.00 0.00 3.67
4165 7534 4.813027 TGGTTCGGTTCTATGTTCTGTAC 58.187 43.478 0.00 0.00 0.00 2.90
4166 7535 5.421056 AGATGGTTCGGTTCTATGTTCTGTA 59.579 40.000 0.00 0.00 0.00 2.74
4167 7536 4.223032 AGATGGTTCGGTTCTATGTTCTGT 59.777 41.667 0.00 0.00 0.00 3.41
4168 7537 4.759782 AGATGGTTCGGTTCTATGTTCTG 58.240 43.478 0.00 0.00 0.00 3.02
4169 7538 6.323996 TCATAGATGGTTCGGTTCTATGTTCT 59.676 38.462 15.15 0.00 44.88 3.01
4170 7539 6.513180 TCATAGATGGTTCGGTTCTATGTTC 58.487 40.000 15.15 0.00 44.88 3.18
4171 7540 6.479972 TCATAGATGGTTCGGTTCTATGTT 57.520 37.500 15.15 0.00 44.88 2.71
4172 7541 5.509840 GCTCATAGATGGTTCGGTTCTATGT 60.510 44.000 15.15 0.28 44.88 2.29
4173 7542 4.926238 GCTCATAGATGGTTCGGTTCTATG 59.074 45.833 11.23 11.23 45.50 2.23
4174 7543 4.588951 TGCTCATAGATGGTTCGGTTCTAT 59.411 41.667 0.00 0.00 33.92 1.98
4175 7544 3.958147 TGCTCATAGATGGTTCGGTTCTA 59.042 43.478 0.00 0.00 0.00 2.10
4176 7545 2.766263 TGCTCATAGATGGTTCGGTTCT 59.234 45.455 0.00 0.00 0.00 3.01
4177 7546 3.126831 CTGCTCATAGATGGTTCGGTTC 58.873 50.000 0.00 0.00 0.00 3.62
4178 7547 2.501723 ACTGCTCATAGATGGTTCGGTT 59.498 45.455 0.00 0.00 0.00 4.44
4179 7548 2.111384 ACTGCTCATAGATGGTTCGGT 58.889 47.619 0.00 0.00 0.00 4.69
4180 7549 2.898729 ACTGCTCATAGATGGTTCGG 57.101 50.000 0.00 0.00 0.00 4.30
4181 7550 4.307443 TGTACTGCTCATAGATGGTTCG 57.693 45.455 0.00 0.00 0.00 3.95
4182 7551 7.698550 CGTATATGTACTGCTCATAGATGGTTC 59.301 40.741 0.00 0.00 32.43 3.62
4183 7552 7.363007 CCGTATATGTACTGCTCATAGATGGTT 60.363 40.741 12.96 0.00 39.40 3.67
4184 7553 6.095580 CCGTATATGTACTGCTCATAGATGGT 59.904 42.308 12.96 0.00 39.40 3.55
4185 7554 6.318900 TCCGTATATGTACTGCTCATAGATGG 59.681 42.308 14.11 14.11 42.60 3.51
4186 7555 7.321745 TCCGTATATGTACTGCTCATAGATG 57.678 40.000 0.00 0.00 32.43 2.90
4187 7556 9.628500 TTATCCGTATATGTACTGCTCATAGAT 57.372 33.333 0.00 0.00 32.43 1.98
4188 7557 9.628500 ATTATCCGTATATGTACTGCTCATAGA 57.372 33.333 0.00 0.00 32.43 1.98
4191 7560 9.185680 TGTATTATCCGTATATGTACTGCTCAT 57.814 33.333 0.00 0.00 0.00 2.90
4192 7561 8.570068 TGTATTATCCGTATATGTACTGCTCA 57.430 34.615 0.00 0.00 0.00 4.26
4193 7562 9.850628 TTTGTATTATCCGTATATGTACTGCTC 57.149 33.333 0.00 0.00 0.00 4.26
4206 7575 9.970395 TCATTTACTCGTATTTGTATTATCCGT 57.030 29.630 0.00 0.00 0.00 4.69
4212 7581 9.273016 CATCCCTCATTTACTCGTATTTGTATT 57.727 33.333 0.00 0.00 0.00 1.89
4213 7582 8.647796 TCATCCCTCATTTACTCGTATTTGTAT 58.352 33.333 0.00 0.00 0.00 2.29
4214 7583 8.014070 TCATCCCTCATTTACTCGTATTTGTA 57.986 34.615 0.00 0.00 0.00 2.41
4215 7584 6.884832 TCATCCCTCATTTACTCGTATTTGT 58.115 36.000 0.00 0.00 0.00 2.83
4216 7585 7.279981 TGTTCATCCCTCATTTACTCGTATTTG 59.720 37.037 0.00 0.00 0.00 2.32
4217 7586 7.335627 TGTTCATCCCTCATTTACTCGTATTT 58.664 34.615 0.00 0.00 0.00 1.40
4218 7587 6.884832 TGTTCATCCCTCATTTACTCGTATT 58.115 36.000 0.00 0.00 0.00 1.89
4219 7588 6.323996 TCTGTTCATCCCTCATTTACTCGTAT 59.676 38.462 0.00 0.00 0.00 3.06
4220 7589 5.655090 TCTGTTCATCCCTCATTTACTCGTA 59.345 40.000 0.00 0.00 0.00 3.43
4221 7590 4.466370 TCTGTTCATCCCTCATTTACTCGT 59.534 41.667 0.00 0.00 0.00 4.18
4222 7591 5.011090 TCTGTTCATCCCTCATTTACTCG 57.989 43.478 0.00 0.00 0.00 4.18
4223 7592 6.586344 TGATCTGTTCATCCCTCATTTACTC 58.414 40.000 0.00 0.00 0.00 2.59
4224 7593 6.566079 TGATCTGTTCATCCCTCATTTACT 57.434 37.500 0.00 0.00 0.00 2.24
4225 7594 7.389053 GGTATGATCTGTTCATCCCTCATTTAC 59.611 40.741 4.57 0.00 44.13 2.01
4226 7595 7.453393 GGTATGATCTGTTCATCCCTCATTTA 58.547 38.462 4.57 0.00 44.13 1.40
4227 7596 6.302269 GGTATGATCTGTTCATCCCTCATTT 58.698 40.000 4.57 0.00 44.13 2.32
4228 7597 5.222007 GGGTATGATCTGTTCATCCCTCATT 60.222 44.000 18.83 0.00 44.13 2.57
4229 7598 4.288105 GGGTATGATCTGTTCATCCCTCAT 59.712 45.833 18.83 0.00 44.13 2.90
4230 7599 3.648067 GGGTATGATCTGTTCATCCCTCA 59.352 47.826 18.83 0.00 44.13 3.86
4231 7600 4.278975 GGGTATGATCTGTTCATCCCTC 57.721 50.000 18.83 6.02 44.13 4.30
4232 7601 3.946824 AGGGTATGATCTGTTCATCCCT 58.053 45.455 21.00 21.00 46.65 4.20
4233 7602 3.008485 GGAGGGTATGATCTGTTCATCCC 59.992 52.174 18.64 18.64 44.13 3.85
4234 7603 3.306364 CGGAGGGTATGATCTGTTCATCC 60.306 52.174 4.57 6.58 44.13 3.51
4235 7604 3.919216 CGGAGGGTATGATCTGTTCATC 58.081 50.000 4.57 0.00 44.13 2.92
4282 7651 3.123620 GACGAAGGGCTGCTGCTG 61.124 66.667 15.64 0.77 39.59 4.41
4283 7652 4.400961 GGACGAAGGGCTGCTGCT 62.401 66.667 15.64 0.00 39.59 4.24
4285 7654 3.710722 AGGGACGAAGGGCTGCTG 61.711 66.667 0.00 0.00 0.00 4.41
4286 7655 3.710722 CAGGGACGAAGGGCTGCT 61.711 66.667 0.00 0.00 0.00 4.24
4287 7656 4.785453 CCAGGGACGAAGGGCTGC 62.785 72.222 0.00 0.00 0.00 5.25
4288 7657 4.101448 CCCAGGGACGAAGGGCTG 62.101 72.222 0.00 0.00 35.44 4.85
4291 7660 3.330720 AAGCCCAGGGACGAAGGG 61.331 66.667 10.89 0.00 45.68 3.95
4292 7661 1.842381 AAGAAGCCCAGGGACGAAGG 61.842 60.000 10.89 0.00 0.00 3.46
4293 7662 0.391793 GAAGAAGCCCAGGGACGAAG 60.392 60.000 10.89 0.00 0.00 3.79
4294 7663 0.836400 AGAAGAAGCCCAGGGACGAA 60.836 55.000 10.89 0.00 0.00 3.85
4295 7664 0.836400 AAGAAGAAGCCCAGGGACGA 60.836 55.000 10.89 0.00 0.00 4.20
4296 7665 0.674895 CAAGAAGAAGCCCAGGGACG 60.675 60.000 10.89 0.00 0.00 4.79
4297 7666 0.322906 CCAAGAAGAAGCCCAGGGAC 60.323 60.000 10.89 0.00 0.00 4.46
4298 7667 2.078452 CCAAGAAGAAGCCCAGGGA 58.922 57.895 10.89 0.00 0.00 4.20
4299 7668 1.680314 GCCAAGAAGAAGCCCAGGG 60.680 63.158 0.00 0.00 0.00 4.45
4300 7669 2.042831 CGCCAAGAAGAAGCCCAGG 61.043 63.158 0.00 0.00 0.00 4.45
4301 7670 2.042831 CCGCCAAGAAGAAGCCCAG 61.043 63.158 0.00 0.00 0.00 4.45
4302 7671 2.034066 CCGCCAAGAAGAAGCCCA 59.966 61.111 0.00 0.00 0.00 5.36
4303 7672 3.443925 GCCGCCAAGAAGAAGCCC 61.444 66.667 0.00 0.00 0.00 5.19
4304 7673 3.804193 CGCCGCCAAGAAGAAGCC 61.804 66.667 0.00 0.00 0.00 4.35
4305 7674 3.804193 CCGCCGCCAAGAAGAAGC 61.804 66.667 0.00 0.00 0.00 3.86
4306 7675 3.804193 GCCGCCGCCAAGAAGAAG 61.804 66.667 0.00 0.00 0.00 2.85
4325 7694 3.490759 CGACACCATGGCTGACGC 61.491 66.667 13.04 4.54 0.00 5.19
4326 7695 1.153568 ATCGACACCATGGCTGACG 60.154 57.895 22.60 22.60 0.00 4.35
4327 7696 2.387309 CATCGACACCATGGCTGAC 58.613 57.895 13.04 8.96 0.00 3.51
4328 7697 4.939399 CATCGACACCATGGCTGA 57.061 55.556 13.04 4.88 0.00 4.26


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

AutoCloner maintained by Alex Coulton.