Multiple sequence alignment - TraesCS2B01G278200

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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 TraesCS2B01G278200 chr2B 100.000 2959 0 0 1 2959 384111511 384108553 0.000000e+00 5465.0
1 TraesCS2B01G278200 chr2B 98.695 613 7 1 2347 2959 518588998 518588387 0.000000e+00 1086.0
2 TraesCS2B01G278200 chr2D 91.884 1688 58 27 659 2283 316269400 316267729 0.000000e+00 2285.0
3 TraesCS2B01G278200 chr2D 91.875 160 6 3 495 654 316269632 316269480 1.790000e-52 217.0
4 TraesCS2B01G278200 chr2D 95.349 129 6 0 349 477 316269746 316269618 3.870000e-49 206.0
5 TraesCS2B01G278200 chr2D 87.432 183 8 9 161 343 316270074 316269907 2.330000e-46 196.0
6 TraesCS2B01G278200 chr2D 91.096 146 7 6 3 148 316270188 316270049 3.010000e-45 193.0
7 TraesCS2B01G278200 chr2A 89.858 1617 78 32 718 2283 418983146 418984727 0.000000e+00 1999.0
8 TraesCS2B01G278200 chr2A 88.715 319 32 4 160 477 418976753 418977068 1.290000e-103 387.0
9 TraesCS2B01G278200 chr2A 88.571 315 21 11 159 473 418975759 418976058 4.660000e-98 368.0
10 TraesCS2B01G278200 chr2A 90.604 149 10 4 2 150 418975642 418975786 8.370000e-46 195.0
11 TraesCS2B01G278200 chr2A 87.013 154 11 7 1 150 418976631 418976779 6.560000e-37 165.0
12 TraesCS2B01G278200 chr5B 99.347 613 3 1 2347 2959 446988412 446987801 0.000000e+00 1109.0
13 TraesCS2B01G278200 chr4B 99.347 613 3 1 2347 2959 646599973 646600584 0.000000e+00 1109.0
14 TraesCS2B01G278200 chr7A 99.184 613 4 1 2347 2959 284734756 284734145 0.000000e+00 1103.0
15 TraesCS2B01G278200 chr7B 99.021 613 5 1 2347 2959 6983627 6984238 0.000000e+00 1098.0
16 TraesCS2B01G278200 chr4A 98.695 613 7 1 2347 2959 108066034 108065423 0.000000e+00 1086.0
17 TraesCS2B01G278200 chr1B 98.695 613 6 2 2347 2959 427539167 427538557 0.000000e+00 1086.0
18 TraesCS2B01G278200 chr6B 98.537 615 7 1 2347 2959 77664626 77664012 0.000000e+00 1085.0
19 TraesCS2B01G278200 chr6B 90.115 435 41 2 1527 1960 644382954 644383387 5.540000e-157 564.0
20 TraesCS2B01G278200 chr6B 92.000 175 14 0 1237 1411 644382216 644382390 2.280000e-61 246.0
21 TraesCS2B01G278200 chr6A 98.532 613 8 1 2347 2959 46058440 46059051 0.000000e+00 1081.0
22 TraesCS2B01G278200 chr6A 90.805 435 38 2 1527 1960 573020463 573020896 5.500000e-162 580.0
23 TraesCS2B01G278200 chr6A 92.000 175 12 1 1240 1412 573019589 573019763 8.190000e-61 244.0
24 TraesCS2B01G278200 chr6D 88.840 457 48 3 1506 1960 428418129 428418584 2.580000e-155 558.0
25 TraesCS2B01G278200 chr6D 92.571 175 13 0 1238 1412 428417323 428417497 4.900000e-63 252.0
26 TraesCS2B01G278200 chr1A 89.552 201 18 2 156 356 137729953 137730150 4.900000e-63 252.0
27 TraesCS2B01G278200 chr1A 87.838 148 13 5 1 148 137729838 137729980 5.070000e-38 169.0
28 TraesCS2B01G278200 chr1A 90.411 73 4 2 495 567 137733662 137733731 3.140000e-15 93.5
29 TraesCS2B01G278200 chr3B 87.500 48 6 0 352 399 807575883 807575930 4.120000e-04 56.5


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 TraesCS2B01G278200 chr2B 384108553 384111511 2958 True 5465.00 5465 100.00000 1 2959 1 chr2B.!!$R1 2958
1 TraesCS2B01G278200 chr2B 518588387 518588998 611 True 1086.00 1086 98.69500 2347 2959 1 chr2B.!!$R2 612
2 TraesCS2B01G278200 chr2D 316267729 316270188 2459 True 619.40 2285 91.52720 3 2283 5 chr2D.!!$R1 2280
3 TraesCS2B01G278200 chr2A 418983146 418984727 1581 False 1999.00 1999 89.85800 718 2283 1 chr2A.!!$F1 1565
4 TraesCS2B01G278200 chr2A 418975642 418977068 1426 False 278.75 387 88.72575 1 477 4 chr2A.!!$F2 476
5 TraesCS2B01G278200 chr5B 446987801 446988412 611 True 1109.00 1109 99.34700 2347 2959 1 chr5B.!!$R1 612
6 TraesCS2B01G278200 chr4B 646599973 646600584 611 False 1109.00 1109 99.34700 2347 2959 1 chr4B.!!$F1 612
7 TraesCS2B01G278200 chr7A 284734145 284734756 611 True 1103.00 1103 99.18400 2347 2959 1 chr7A.!!$R1 612
8 TraesCS2B01G278200 chr7B 6983627 6984238 611 False 1098.00 1098 99.02100 2347 2959 1 chr7B.!!$F1 612
9 TraesCS2B01G278200 chr4A 108065423 108066034 611 True 1086.00 1086 98.69500 2347 2959 1 chr4A.!!$R1 612
10 TraesCS2B01G278200 chr1B 427538557 427539167 610 True 1086.00 1086 98.69500 2347 2959 1 chr1B.!!$R1 612
11 TraesCS2B01G278200 chr6B 77664012 77664626 614 True 1085.00 1085 98.53700 2347 2959 1 chr6B.!!$R1 612
12 TraesCS2B01G278200 chr6B 644382216 644383387 1171 False 405.00 564 91.05750 1237 1960 2 chr6B.!!$F1 723
13 TraesCS2B01G278200 chr6A 46058440 46059051 611 False 1081.00 1081 98.53200 2347 2959 1 chr6A.!!$F1 612
14 TraesCS2B01G278200 chr6A 573019589 573020896 1307 False 412.00 580 91.40250 1240 1960 2 chr6A.!!$F2 720
15 TraesCS2B01G278200 chr6D 428417323 428418584 1261 False 405.00 558 90.70550 1238 1960 2 chr6D.!!$F1 722

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
529 1691 0.031994 GCTGATGCAAACCAAACCGT 59.968 50.0 0.0 0.0 39.41 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2288 4244 0.107361 CTACCCGTGTTCCCATTCCC 60.107 60.0 0.0 0.0 0.0 3.97 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
57 58 2.342279 CCCGACTCGAACAAGCCA 59.658 61.111 0.00 0.00 0.00 4.75
58 59 1.301401 CCCGACTCGAACAAGCCAA 60.301 57.895 0.00 0.00 0.00 4.52
72 73 2.590114 GCCAAGTACCTCACGGGGT 61.590 63.158 0.00 0.00 42.86 4.95
112 113 2.510012 CGCGAATGAGGCAGCTCA 60.510 61.111 0.00 0.00 37.79 4.26
117 118 2.244117 GAATGAGGCAGCTCACCGGA 62.244 60.000 9.46 0.00 36.05 5.14
129 130 1.484653 CTCACCGGAGAGAGAGAGAGA 59.515 57.143 22.99 0.00 44.26 3.10
130 131 1.484653 TCACCGGAGAGAGAGAGAGAG 59.515 57.143 9.46 0.00 0.00 3.20
131 132 1.484653 CACCGGAGAGAGAGAGAGAGA 59.515 57.143 9.46 0.00 0.00 3.10
132 133 1.762957 ACCGGAGAGAGAGAGAGAGAG 59.237 57.143 9.46 0.00 0.00 3.20
133 134 2.039418 CCGGAGAGAGAGAGAGAGAGA 58.961 57.143 0.00 0.00 0.00 3.10
134 135 2.036475 CCGGAGAGAGAGAGAGAGAGAG 59.964 59.091 0.00 0.00 0.00 3.20
135 136 2.959030 CGGAGAGAGAGAGAGAGAGAGA 59.041 54.545 0.00 0.00 0.00 3.10
136 137 3.005261 CGGAGAGAGAGAGAGAGAGAGAG 59.995 56.522 0.00 0.00 0.00 3.20
137 138 4.219115 GGAGAGAGAGAGAGAGAGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
138 139 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
139 140 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
140 141 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
141 142 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
142 143 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
143 144 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
144 145 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
145 146 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
146 147 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
147 148 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
148 149 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
149 150 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
150 151 5.523588 AGAGAGAGAGAGAGAGAGAGAGAA 58.476 45.833 0.00 0.00 0.00 2.87
151 152 5.960811 AGAGAGAGAGAGAGAGAGAGAGAAA 59.039 44.000 0.00 0.00 0.00 2.52
152 153 6.098124 AGAGAGAGAGAGAGAGAGAGAGAAAG 59.902 46.154 0.00 0.00 0.00 2.62
153 154 5.960811 AGAGAGAGAGAGAGAGAGAGAAAGA 59.039 44.000 0.00 0.00 0.00 2.52
154 155 6.098124 AGAGAGAGAGAGAGAGAGAGAAAGAG 59.902 46.154 0.00 0.00 0.00 2.85
155 156 5.960811 AGAGAGAGAGAGAGAGAGAAAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
156 157 6.098124 AGAGAGAGAGAGAGAGAGAAAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
157 158 5.960811 AGAGAGAGAGAGAGAGAAAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
158 159 6.098124 AGAGAGAGAGAGAGAGAAAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
159 160 5.960811 AGAGAGAGAGAGAGAAAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
160 161 6.098124 AGAGAGAGAGAGAGAAAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
161 162 5.960811 AGAGAGAGAGAGAAAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
162 163 6.098124 AGAGAGAGAGAGAAAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
163 164 5.960811 AGAGAGAGAGAAAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
164 165 6.098124 AGAGAGAGAGAAAGAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
165 166 5.960811 AGAGAGAGAAAGAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
166 167 6.098124 AGAGAGAGAAAGAGAGAGAGAGAGAG 59.902 46.154 0.00 0.00 0.00 3.20
167 168 5.960811 AGAGAGAAAGAGAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
168 169 6.441924 AGAGAGAAAGAGAGAGAGAGAGAGAA 59.558 42.308 0.00 0.00 0.00 2.87
169 170 6.648192 AGAGAAAGAGAGAGAGAGAGAGAAG 58.352 44.000 0.00 0.00 0.00 2.85
170 171 6.441924 AGAGAAAGAGAGAGAGAGAGAGAAGA 59.558 42.308 0.00 0.00 0.00 2.87
194 195 6.894682 AGAGAAAGAAGAAGAAGACCAAGTT 58.105 36.000 0.00 0.00 0.00 2.66
236 237 4.572985 TTTTGCCAACTCAGTCTGATTG 57.427 40.909 2.22 9.82 0.00 2.67
263 264 3.694566 GCCCGACCAATTAGAAAAGTCAT 59.305 43.478 0.00 0.00 0.00 3.06
268 269 7.041780 CCCGACCAATTAGAAAAGTCATCATAG 60.042 40.741 0.00 0.00 0.00 2.23
269 270 7.710907 CCGACCAATTAGAAAAGTCATCATAGA 59.289 37.037 0.00 0.00 0.00 1.98
270 271 8.759641 CGACCAATTAGAAAAGTCATCATAGAG 58.240 37.037 0.00 0.00 0.00 2.43
271 272 9.823647 GACCAATTAGAAAAGTCATCATAGAGA 57.176 33.333 0.00 0.00 0.00 3.10
286 287 7.864882 TCATCATAGAGATTAGCTTTGTCTTCG 59.135 37.037 0.00 0.00 33.72 3.79
316 317 1.069296 TGCTACTGTCAAACATTGCGC 60.069 47.619 0.00 0.00 0.00 6.09
317 318 1.069296 GCTACTGTCAAACATTGCGCA 60.069 47.619 5.66 5.66 0.00 6.09
343 499 5.332205 GGCACATTTTGTCACAATTTGTACG 60.332 40.000 0.86 0.00 0.00 3.67
344 500 5.332205 GCACATTTTGTCACAATTTGTACGG 60.332 40.000 0.86 0.00 0.00 4.02
347 503 3.972950 TTGTCACAATTTGTACGGTGG 57.027 42.857 0.86 0.00 32.29 4.61
411 567 7.036996 TGCATTTCACTCAAGTAATTGACAA 57.963 32.000 0.56 0.00 0.00 3.18
430 586 5.995282 TGACAAGTATACACTTCACTTTGGG 59.005 40.000 5.50 0.00 43.30 4.12
477 1639 1.120530 AGTTCCCCGCGAGATATGTT 58.879 50.000 8.23 0.00 0.00 2.71
478 1640 1.485066 AGTTCCCCGCGAGATATGTTT 59.515 47.619 8.23 0.00 0.00 2.83
479 1641 2.093128 AGTTCCCCGCGAGATATGTTTT 60.093 45.455 8.23 0.00 0.00 2.43
480 1642 2.681344 GTTCCCCGCGAGATATGTTTTT 59.319 45.455 8.23 0.00 0.00 1.94
522 1684 4.151335 CGAGATATGTAGCTGATGCAAACC 59.849 45.833 0.00 0.00 42.74 3.27
527 1689 2.295909 TGTAGCTGATGCAAACCAAACC 59.704 45.455 0.00 0.00 42.74 3.27
528 1690 0.314935 AGCTGATGCAAACCAAACCG 59.685 50.000 0.00 0.00 42.74 4.44
529 1691 0.031994 GCTGATGCAAACCAAACCGT 59.968 50.000 0.00 0.00 39.41 4.83
570 1732 9.070149 GGTGATTTCTGTACGTTTTAGTAGTAG 57.930 37.037 0.00 0.00 0.00 2.57
571 1733 9.617975 GTGATTTCTGTACGTTTTAGTAGTAGT 57.382 33.333 0.00 0.00 0.00 2.73
646 1808 4.037021 CGGTTATTATGTCGAGCGTACAA 58.963 43.478 0.00 0.00 0.00 2.41
648 1810 5.174398 CGGTTATTATGTCGAGCGTACAAAT 59.826 40.000 0.00 0.00 0.00 2.32
654 1816 2.734606 TGTCGAGCGTACAAATTTGGAG 59.265 45.455 21.74 12.97 0.00 3.86
656 1818 3.922240 GTCGAGCGTACAAATTTGGAGTA 59.078 43.478 21.74 3.19 0.00 2.59
657 1819 3.922240 TCGAGCGTACAAATTTGGAGTAC 59.078 43.478 21.74 13.64 35.85 2.73
709 1946 8.528643 TCGGTCATAATAATAAGATGTACCCTG 58.471 37.037 0.00 0.00 0.00 4.45
721 1958 2.626785 TGTACCCTGAACCAAGATGGA 58.373 47.619 2.85 0.00 40.96 3.41
758 1997 1.010419 CAATTGGTTCGGCTGCTTGC 61.010 55.000 0.00 0.00 41.94 4.01
836 2081 5.106594 CCCAAAAGTGCAAGCAATTAAATCC 60.107 40.000 8.23 0.00 32.85 3.01
856 2101 1.611673 CCTCCTTGGAATGCACGTTCT 60.612 52.381 0.00 0.00 38.35 3.01
865 2110 2.851263 ATGCACGTTCTGGAAACCTA 57.149 45.000 0.00 0.00 0.00 3.08
885 2130 0.727398 GCATTTGCCGTGGAGTAGAC 59.273 55.000 0.00 0.00 34.31 2.59
922 2167 3.692101 CCTATAAATCCGCAACACCAACA 59.308 43.478 0.00 0.00 0.00 3.33
931 2181 1.972872 CAACACCAACAGAGGCTTCT 58.027 50.000 0.00 0.00 0.00 2.85
960 2210 3.382865 TCTCATCTCCGAAGAACCATCAG 59.617 47.826 0.00 0.00 34.49 2.90
998 2248 0.971386 CCAGCAAAGCCATCCAAAGT 59.029 50.000 0.00 0.00 0.00 2.66
1077 2327 1.078143 GCAGGAGAGCGGGAAACAT 60.078 57.895 0.00 0.00 0.00 2.71
1142 2392 1.002624 TGGCCGGTTCAGTTCATCC 60.003 57.895 1.90 0.00 0.00 3.51
1195 2445 1.227823 TACGCACTGCTTGGTTGCT 60.228 52.632 0.00 0.00 0.00 3.91
1196 2446 1.506309 TACGCACTGCTTGGTTGCTG 61.506 55.000 0.00 0.00 37.79 4.41
1197 2447 2.545596 CGCACTGCTTGGTTGCTGA 61.546 57.895 0.00 0.00 36.10 4.26
1198 2448 1.735360 GCACTGCTTGGTTGCTGAA 59.265 52.632 0.00 0.00 36.10 3.02
1199 2449 0.316204 GCACTGCTTGGTTGCTGAAT 59.684 50.000 0.00 0.00 36.10 2.57
1200 2450 1.933500 GCACTGCTTGGTTGCTGAATG 60.934 52.381 0.00 0.00 36.10 2.67
1201 2451 1.338973 CACTGCTTGGTTGCTGAATGT 59.661 47.619 0.00 0.00 36.10 2.71
1215 2465 3.181483 GCTGAATGTTGATGGATGGTTCC 60.181 47.826 0.00 0.00 42.94 3.62
1434 2690 1.474677 CCTTCTTCTCCATCGCATGCT 60.475 52.381 17.13 0.00 0.00 3.79
1504 3442 2.423185 TGCACCACACAAGAAAAGTGAG 59.577 45.455 0.00 0.00 40.16 3.51
1518 3458 9.442047 CAAGAAAAGTGAGGAGAAATACTATGT 57.558 33.333 0.00 0.00 0.00 2.29
1519 3459 9.442047 AAGAAAAGTGAGGAGAAATACTATGTG 57.558 33.333 0.00 0.00 0.00 3.21
1520 3460 8.598041 AGAAAAGTGAGGAGAAATACTATGTGT 58.402 33.333 0.00 0.00 0.00 3.72
1554 3495 2.125391 GCGACATCCTGAGCAGCA 60.125 61.111 0.00 0.00 0.00 4.41
1978 3919 3.652869 TGATCATTATCTCCTCCAACCCC 59.347 47.826 0.00 0.00 32.93 4.95
1980 3921 3.048600 TCATTATCTCCTCCAACCCCAG 58.951 50.000 0.00 0.00 0.00 4.45
2013 3954 3.161866 GTGTTCCTTAATTTGCCTCCCA 58.838 45.455 0.00 0.00 0.00 4.37
2036 3988 8.840321 CCCAATTCGTAGATATTCATTTCTTGT 58.160 33.333 0.00 0.00 35.04 3.16
2070 4022 2.898729 ACTGAGGGTGCATATTCGAG 57.101 50.000 0.00 0.00 0.00 4.04
2076 4028 1.532868 GGGTGCATATTCGAGCATGTC 59.467 52.381 0.05 0.00 43.44 3.06
2080 4032 2.102925 TGCATATTCGAGCATGTCCTCA 59.897 45.455 9.31 0.00 35.51 3.86
2081 4033 3.244318 TGCATATTCGAGCATGTCCTCAT 60.244 43.478 9.31 0.00 35.51 2.90
2082 4034 3.750130 GCATATTCGAGCATGTCCTCATT 59.250 43.478 9.31 0.00 31.15 2.57
2083 4035 4.931601 GCATATTCGAGCATGTCCTCATTA 59.068 41.667 9.31 0.00 31.15 1.90
2084 4036 5.409520 GCATATTCGAGCATGTCCTCATTAA 59.590 40.000 9.31 0.00 31.15 1.40
2163 4116 2.264109 AGTTACGACGAGCACTGATG 57.736 50.000 0.00 0.00 0.00 3.07
2283 4239 1.535462 CAATTTCACCTGTCACCCGTC 59.465 52.381 0.00 0.00 0.00 4.79
2284 4240 0.036306 ATTTCACCTGTCACCCGTCC 59.964 55.000 0.00 0.00 0.00 4.79
2285 4241 1.338890 TTTCACCTGTCACCCGTCCA 61.339 55.000 0.00 0.00 0.00 4.02
2286 4242 1.754380 TTCACCTGTCACCCGTCCAG 61.754 60.000 0.00 0.00 0.00 3.86
2287 4243 2.122989 ACCTGTCACCCGTCCAGT 60.123 61.111 0.00 0.00 0.00 4.00
2288 4244 2.343758 CCTGTCACCCGTCCAGTG 59.656 66.667 0.00 0.00 36.54 3.66
2289 4245 2.343758 CTGTCACCCGTCCAGTGG 59.656 66.667 1.40 1.40 35.87 4.00
2300 4256 2.875704 TCCAGTGGGAATGGGAACA 58.124 52.632 9.92 0.00 41.32 3.18
2301 4257 0.404040 TCCAGTGGGAATGGGAACAC 59.596 55.000 9.92 0.00 40.64 3.32
2302 4258 0.960364 CCAGTGGGAATGGGAACACG 60.960 60.000 0.00 0.00 39.36 4.49
2310 4266 4.382320 TGGGAACACGGGTAGCGC 62.382 66.667 0.00 0.00 33.40 5.92
2311 4267 4.382320 GGGAACACGGGTAGCGCA 62.382 66.667 11.47 0.00 0.00 6.09
2312 4268 2.357760 GGAACACGGGTAGCGCAA 60.358 61.111 11.47 0.00 0.00 4.85
2313 4269 2.674084 GGAACACGGGTAGCGCAAC 61.674 63.158 11.47 0.00 0.00 4.17
2314 4270 1.957186 GAACACGGGTAGCGCAACA 60.957 57.895 11.47 0.00 0.00 3.33
2315 4271 2.166584 GAACACGGGTAGCGCAACAC 62.167 60.000 11.47 3.94 0.00 3.32
2316 4272 2.663520 CACGGGTAGCGCAACACA 60.664 61.111 11.47 0.00 0.00 3.72
2317 4273 2.109387 ACGGGTAGCGCAACACAA 59.891 55.556 11.47 0.00 0.00 3.33
2318 4274 1.524165 ACGGGTAGCGCAACACAAA 60.524 52.632 11.47 0.00 0.00 2.83
2319 4275 1.096386 ACGGGTAGCGCAACACAAAA 61.096 50.000 11.47 0.00 0.00 2.44
2320 4276 0.659123 CGGGTAGCGCAACACAAAAC 60.659 55.000 11.47 0.00 0.00 2.43
2321 4277 0.382515 GGGTAGCGCAACACAAAACA 59.617 50.000 11.47 0.00 0.00 2.83
2322 4278 1.472990 GGTAGCGCAACACAAAACAC 58.527 50.000 11.47 0.00 0.00 3.32
2323 4279 1.472990 GTAGCGCAACACAAAACACC 58.527 50.000 11.47 0.00 0.00 4.16
2324 4280 1.064952 GTAGCGCAACACAAAACACCT 59.935 47.619 11.47 0.00 0.00 4.00
2325 4281 0.179140 AGCGCAACACAAAACACCTG 60.179 50.000 11.47 0.00 0.00 4.00
2326 4282 0.179150 GCGCAACACAAAACACCTGA 60.179 50.000 0.30 0.00 0.00 3.86
2327 4283 1.734047 GCGCAACACAAAACACCTGAA 60.734 47.619 0.30 0.00 0.00 3.02
2328 4284 1.917303 CGCAACACAAAACACCTGAAC 59.083 47.619 0.00 0.00 0.00 3.18
2329 4285 2.415357 CGCAACACAAAACACCTGAACT 60.415 45.455 0.00 0.00 0.00 3.01
2330 4286 3.179048 GCAACACAAAACACCTGAACTC 58.821 45.455 0.00 0.00 0.00 3.01
2331 4287 3.769536 CAACACAAAACACCTGAACTCC 58.230 45.455 0.00 0.00 0.00 3.85
2332 4288 3.080300 ACACAAAACACCTGAACTCCA 57.920 42.857 0.00 0.00 0.00 3.86
2333 4289 3.016736 ACACAAAACACCTGAACTCCAG 58.983 45.455 0.00 0.00 42.55 3.86
2334 4290 3.016736 CACAAAACACCTGAACTCCAGT 58.983 45.455 0.00 0.00 41.33 4.00
2335 4291 3.016736 ACAAAACACCTGAACTCCAGTG 58.983 45.455 0.00 0.00 41.33 3.66
2336 4292 2.348411 AAACACCTGAACTCCAGTGG 57.652 50.000 1.40 1.40 41.33 4.00
2337 4293 0.474184 AACACCTGAACTCCAGTGGG 59.526 55.000 9.92 2.47 41.33 4.61
2338 4294 0.399949 ACACCTGAACTCCAGTGGGA 60.400 55.000 9.92 0.00 41.33 4.37
2339 4295 0.764890 CACCTGAACTCCAGTGGGAA 59.235 55.000 9.92 0.00 44.38 3.97
2340 4296 1.352352 CACCTGAACTCCAGTGGGAAT 59.648 52.381 9.92 0.00 44.38 3.01
2341 4297 1.352352 ACCTGAACTCCAGTGGGAATG 59.648 52.381 9.92 0.13 44.38 2.67
2342 4298 1.340405 CCTGAACTCCAGTGGGAATGG 60.340 57.143 9.92 1.06 44.38 3.16
2343 4299 0.698238 TGAACTCCAGTGGGAATGGG 59.302 55.000 9.92 0.00 44.38 4.00
2344 4300 0.991920 GAACTCCAGTGGGAATGGGA 59.008 55.000 9.92 0.00 44.38 4.37
2345 4301 1.354368 GAACTCCAGTGGGAATGGGAA 59.646 52.381 9.92 0.00 44.38 3.97
2604 4561 3.640029 ACCACTCTCTGTCGAACCTTTTA 59.360 43.478 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
112 113 1.762957 CTCTCTCTCTCTCTCTCCGGT 59.237 57.143 0.00 0.00 0.00 5.28
117 118 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
129 130 5.960811 TCTTTCTCTCTCTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
130 131 6.097554 TCTCTTTCTCTCTCTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
131 132 5.960811 TCTCTTTCTCTCTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
132 133 6.097554 TCTCTCTTTCTCTCTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
133 134 5.960811 TCTCTCTTTCTCTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
134 135 6.097554 TCTCTCTCTTTCTCTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
135 136 5.960811 TCTCTCTCTTTCTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
136 137 6.097554 TCTCTCTCTCTTTCTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
137 138 5.960811 TCTCTCTCTCTTTCTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
138 139 6.097554 TCTCTCTCTCTCTTTCTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
139 140 5.960811 TCTCTCTCTCTCTTTCTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
140 141 6.097554 TCTCTCTCTCTCTCTTTCTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
141 142 5.960811 TCTCTCTCTCTCTCTTTCTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
142 143 6.097554 TCTCTCTCTCTCTCTCTTTCTCTCTC 59.902 46.154 0.00 0.00 0.00 3.20
143 144 5.960811 TCTCTCTCTCTCTCTCTTTCTCTCT 59.039 44.000 0.00 0.00 0.00 3.10
144 145 6.227298 TCTCTCTCTCTCTCTCTTTCTCTC 57.773 45.833 0.00 0.00 0.00 3.20
145 146 6.441924 TCTTCTCTCTCTCTCTCTCTTTCTCT 59.558 42.308 0.00 0.00 0.00 3.10
146 147 6.644347 TCTTCTCTCTCTCTCTCTCTTTCTC 58.356 44.000 0.00 0.00 0.00 2.87
147 148 6.441924 TCTCTTCTCTCTCTCTCTCTCTTTCT 59.558 42.308 0.00 0.00 0.00 2.52
148 149 6.644347 TCTCTTCTCTCTCTCTCTCTCTTTC 58.356 44.000 0.00 0.00 0.00 2.62
149 150 6.441924 TCTCTCTTCTCTCTCTCTCTCTCTTT 59.558 42.308 0.00 0.00 0.00 2.52
150 151 5.960811 TCTCTCTTCTCTCTCTCTCTCTCTT 59.039 44.000 0.00 0.00 0.00 2.85
151 152 5.523588 TCTCTCTTCTCTCTCTCTCTCTCT 58.476 45.833 0.00 0.00 0.00 3.10
152 153 5.860941 TCTCTCTTCTCTCTCTCTCTCTC 57.139 47.826 0.00 0.00 0.00 3.20
153 154 6.441924 TCTTTCTCTCTTCTCTCTCTCTCTCT 59.558 42.308 0.00 0.00 0.00 3.10
154 155 6.644347 TCTTTCTCTCTTCTCTCTCTCTCTC 58.356 44.000 0.00 0.00 0.00 3.20
155 156 6.627087 TCTTTCTCTCTTCTCTCTCTCTCT 57.373 41.667 0.00 0.00 0.00 3.10
156 157 7.106239 TCTTCTTTCTCTCTTCTCTCTCTCTC 58.894 42.308 0.00 0.00 0.00 3.20
157 158 7.020827 TCTTCTTTCTCTCTTCTCTCTCTCT 57.979 40.000 0.00 0.00 0.00 3.10
158 159 7.607991 TCTTCTTCTTTCTCTCTTCTCTCTCTC 59.392 40.741 0.00 0.00 0.00 3.20
159 160 7.461749 TCTTCTTCTTTCTCTCTTCTCTCTCT 58.538 38.462 0.00 0.00 0.00 3.10
160 161 7.687941 TCTTCTTCTTTCTCTCTTCTCTCTC 57.312 40.000 0.00 0.00 0.00 3.20
161 162 7.944554 TCTTCTTCTTCTTTCTCTCTTCTCTCT 59.055 37.037 0.00 0.00 0.00 3.10
162 163 8.023706 GTCTTCTTCTTCTTTCTCTCTTCTCTC 58.976 40.741 0.00 0.00 0.00 3.20
163 164 7.039714 GGTCTTCTTCTTCTTTCTCTCTTCTCT 60.040 40.741 0.00 0.00 0.00 3.10
164 165 7.090808 GGTCTTCTTCTTCTTTCTCTCTTCTC 58.909 42.308 0.00 0.00 0.00 2.87
165 166 6.553100 TGGTCTTCTTCTTCTTTCTCTCTTCT 59.447 38.462 0.00 0.00 0.00 2.85
166 167 6.754193 TGGTCTTCTTCTTCTTTCTCTCTTC 58.246 40.000 0.00 0.00 0.00 2.87
167 168 6.739331 TGGTCTTCTTCTTCTTTCTCTCTT 57.261 37.500 0.00 0.00 0.00 2.85
168 169 6.326323 ACTTGGTCTTCTTCTTCTTTCTCTCT 59.674 38.462 0.00 0.00 0.00 3.10
169 170 6.521162 ACTTGGTCTTCTTCTTCTTTCTCTC 58.479 40.000 0.00 0.00 0.00 3.20
170 171 6.493189 ACTTGGTCTTCTTCTTCTTTCTCT 57.507 37.500 0.00 0.00 0.00 3.10
236 237 0.544697 TCTAATTGGTCGGGCCCTTC 59.455 55.000 22.43 12.49 36.04 3.46
263 264 7.067615 ACTCGAAGACAAAGCTAATCTCTATGA 59.932 37.037 0.00 0.00 0.00 2.15
268 269 5.164954 ACACTCGAAGACAAAGCTAATCTC 58.835 41.667 0.00 0.00 0.00 2.75
269 270 5.140747 ACACTCGAAGACAAAGCTAATCT 57.859 39.130 0.00 0.00 0.00 2.40
270 271 7.527084 AATACACTCGAAGACAAAGCTAATC 57.473 36.000 0.00 0.00 0.00 1.75
271 272 7.907214 AAATACACTCGAAGACAAAGCTAAT 57.093 32.000 0.00 0.00 0.00 1.73
272 273 7.572759 CAAAATACACTCGAAGACAAAGCTAA 58.427 34.615 0.00 0.00 0.00 3.09
273 274 6.347402 GCAAAATACACTCGAAGACAAAGCTA 60.347 38.462 0.00 0.00 0.00 3.32
274 275 5.560953 GCAAAATACACTCGAAGACAAAGCT 60.561 40.000 0.00 0.00 0.00 3.74
275 276 4.613031 GCAAAATACACTCGAAGACAAAGC 59.387 41.667 0.00 0.00 0.00 3.51
276 277 5.990408 AGCAAAATACACTCGAAGACAAAG 58.010 37.500 0.00 0.00 0.00 2.77
277 278 6.704493 AGTAGCAAAATACACTCGAAGACAAA 59.296 34.615 0.00 0.00 0.00 2.83
278 279 6.145534 CAGTAGCAAAATACACTCGAAGACAA 59.854 38.462 0.00 0.00 0.00 3.18
279 280 5.633601 CAGTAGCAAAATACACTCGAAGACA 59.366 40.000 0.00 0.00 0.00 3.41
286 287 6.954944 TGTTTGACAGTAGCAAAATACACTC 58.045 36.000 0.00 0.00 37.03 3.51
316 317 5.007823 ACAAATTGTGACAAAATGTGCCATG 59.992 36.000 15.53 0.00 0.00 3.66
317 318 5.124645 ACAAATTGTGACAAAATGTGCCAT 58.875 33.333 15.53 0.00 0.00 4.40
343 499 5.356751 TCATGATATGCACAAAACTACCACC 59.643 40.000 0.00 0.00 0.00 4.61
344 500 6.128035 TGTCATGATATGCACAAAACTACCAC 60.128 38.462 0.00 0.00 0.00 4.16
347 503 7.076842 AGTGTCATGATATGCACAAAACTAC 57.923 36.000 14.50 0.00 38.71 2.73
411 567 4.634012 TGCCCAAAGTGAAGTGTATACT 57.366 40.909 4.17 0.00 39.32 2.12
430 586 5.276820 GGCAGTTACAGTCAATTTGTTTTGC 60.277 40.000 0.00 0.00 32.26 3.68
481 1643 0.179108 CGCGGGGTTTGGTTCAAAAA 60.179 50.000 0.00 0.00 35.03 1.94
482 1644 1.035932 TCGCGGGGTTTGGTTCAAAA 61.036 50.000 6.13 0.00 35.03 2.44
483 1645 1.448922 CTCGCGGGGTTTGGTTCAAA 61.449 55.000 6.13 0.00 0.00 2.69
484 1646 1.894756 CTCGCGGGGTTTGGTTCAA 60.895 57.895 6.13 0.00 0.00 2.69
485 1647 2.119484 ATCTCGCGGGGTTTGGTTCA 62.119 55.000 5.94 0.00 0.00 3.18
486 1648 0.108041 TATCTCGCGGGGTTTGGTTC 60.108 55.000 5.94 0.00 0.00 3.62
487 1649 0.544697 ATATCTCGCGGGGTTTGGTT 59.455 50.000 5.94 0.00 0.00 3.67
488 1650 0.179056 CATATCTCGCGGGGTTTGGT 60.179 55.000 5.94 0.00 0.00 3.67
489 1651 0.179056 ACATATCTCGCGGGGTTTGG 60.179 55.000 14.33 0.00 0.00 3.28
490 1652 2.404215 CTACATATCTCGCGGGGTTTG 58.596 52.381 5.94 7.26 0.00 2.93
491 1653 1.270147 GCTACATATCTCGCGGGGTTT 60.270 52.381 5.94 0.00 0.00 3.27
492 1654 0.317479 GCTACATATCTCGCGGGGTT 59.683 55.000 5.94 0.00 0.00 4.11
493 1655 0.539901 AGCTACATATCTCGCGGGGT 60.540 55.000 5.94 0.00 0.00 4.95
494 1656 0.109086 CAGCTACATATCTCGCGGGG 60.109 60.000 5.94 0.00 0.00 5.73
495 1657 0.881796 TCAGCTACATATCTCGCGGG 59.118 55.000 6.13 1.01 0.00 6.13
496 1658 2.524034 CATCAGCTACATATCTCGCGG 58.476 52.381 6.13 0.00 0.00 6.46
497 1659 1.916651 GCATCAGCTACATATCTCGCG 59.083 52.381 0.00 0.00 37.91 5.87
522 1684 7.334921 TCACCAAGGAATAAATACTACGGTTTG 59.665 37.037 0.00 0.00 0.00 2.93
527 1689 9.326413 AGAAATCACCAAGGAATAAATACTACG 57.674 33.333 0.00 0.00 0.00 3.51
586 1748 7.238486 ACATGGCAATTCAGGTGTATAAAAA 57.762 32.000 0.00 0.00 30.01 1.94
639 1801 7.355332 TCTTAAGTACTCCAAATTTGTACGC 57.645 36.000 16.73 3.68 40.77 4.42
646 1808 7.947890 TGGGTCATTTCTTAAGTACTCCAAATT 59.052 33.333 1.63 0.00 0.00 1.82
648 1810 6.843752 TGGGTCATTTCTTAAGTACTCCAAA 58.156 36.000 1.63 0.00 0.00 3.28
654 1816 8.483307 TTCGTATTGGGTCATTTCTTAAGTAC 57.517 34.615 1.63 0.00 0.00 2.73
656 1818 7.989416 TTTCGTATTGGGTCATTTCTTAAGT 57.011 32.000 1.63 0.00 0.00 2.24
657 1819 8.458843 ACATTTCGTATTGGGTCATTTCTTAAG 58.541 33.333 0.00 0.00 0.00 1.85
696 1933 5.104527 CCATCTTGGTTCAGGGTACATCTTA 60.105 44.000 0.00 0.00 31.35 2.10
697 1934 4.324563 CCATCTTGGTTCAGGGTACATCTT 60.325 45.833 0.00 0.00 31.35 2.40
698 1935 3.200825 CCATCTTGGTTCAGGGTACATCT 59.799 47.826 0.00 0.00 31.35 2.90
709 1946 1.747206 CGGGTCCATCCATCTTGGTTC 60.747 57.143 0.00 0.00 39.03 3.62
714 1951 1.285280 TTCACGGGTCCATCCATCTT 58.715 50.000 0.00 0.00 38.11 2.40
721 1958 0.327924 TGCAGAATTCACGGGTCCAT 59.672 50.000 8.44 0.00 0.00 3.41
773 2018 1.220749 GGAAGCATGGCTGTCGGTA 59.779 57.895 0.00 0.00 39.62 4.02
777 2022 1.134159 AGAGATGGAAGCATGGCTGTC 60.134 52.381 0.00 0.00 39.62 3.51
836 2081 0.804989 GAACGTGCATTCCAAGGAGG 59.195 55.000 0.00 0.00 39.47 4.30
856 2101 1.173043 CGGCAAATGCTAGGTTTCCA 58.827 50.000 5.25 0.00 41.70 3.53
865 2110 0.613260 TCTACTCCACGGCAAATGCT 59.387 50.000 5.25 0.00 41.70 3.79
885 2130 0.464373 ATAGGCTGCGTTGATGTGGG 60.464 55.000 0.00 0.00 0.00 4.61
922 2167 5.895807 AGATGAGATGAGATAGAAGCCTCT 58.104 41.667 0.00 0.00 35.52 3.69
931 2181 5.475220 GGTTCTTCGGAGATGAGATGAGATA 59.525 44.000 0.00 0.00 41.68 1.98
960 2210 2.950309 TGGTTGTAGAGCTATCTCGGAC 59.050 50.000 0.00 0.00 44.02 4.79
998 2248 0.321919 GGAGCACTGCAACCTCATGA 60.322 55.000 3.30 0.00 0.00 3.07
1077 2327 0.535335 AGAAGAAATCGTAGCCCGCA 59.465 50.000 0.00 0.00 36.19 5.69
1181 2431 1.338973 ACATTCAGCAACCAAGCAGTG 59.661 47.619 0.00 0.00 36.85 3.66
1182 2432 1.696063 ACATTCAGCAACCAAGCAGT 58.304 45.000 0.00 0.00 36.85 4.40
1434 2690 1.198178 GCACGCCAGGAAACGAATAAA 59.802 47.619 0.00 0.00 0.00 1.40
1461 2727 1.402852 CTCGTGCGAGATGGAACAAGA 60.403 52.381 15.65 0.00 44.53 3.02
1462 2728 0.994995 CTCGTGCGAGATGGAACAAG 59.005 55.000 15.65 0.00 44.53 3.16
1504 3442 5.121768 ACGCAACAACACATAGTATTTCTCC 59.878 40.000 0.00 0.00 0.00 3.71
1518 3458 1.713937 CTCACCTGCACGCAACAACA 61.714 55.000 0.00 0.00 0.00 3.33
1519 3459 1.009675 CTCACCTGCACGCAACAAC 60.010 57.895 0.00 0.00 0.00 3.32
1520 3460 2.833533 GCTCACCTGCACGCAACAA 61.834 57.895 0.00 0.00 0.00 2.83
1643 3584 1.412710 TGCTCGTTGAAGAGGTTCTGT 59.587 47.619 0.00 0.00 38.63 3.41
1935 3876 2.573609 AAAGCCGGGAACTCGATCCG 62.574 60.000 2.18 8.90 40.62 4.18
1978 3919 2.238144 AGGAACACATGATGACTCCCTG 59.762 50.000 0.00 0.00 35.57 4.45
1980 3921 3.356529 AAGGAACACATGATGACTCCC 57.643 47.619 0.00 0.00 35.57 4.30
2013 3954 8.276325 GCGACAAGAAATGAATATCTACGAATT 58.724 33.333 0.00 0.00 0.00 2.17
2036 3988 2.621338 CTCAGTTTATTCTGCCAGCGA 58.379 47.619 0.00 0.00 35.63 4.93
2070 4022 8.992835 AAGAAAGAAAATTAATGAGGACATGC 57.007 30.769 0.00 0.00 36.79 4.06
2076 4028 9.777297 TGGGAAAAAGAAAGAAAATTAATGAGG 57.223 29.630 0.00 0.00 0.00 3.86
2193 4146 5.171476 CGGATGGCAAATACTACTATGAGG 58.829 45.833 0.00 0.00 0.00 3.86
2283 4239 0.960364 CGTGTTCCCATTCCCACTGG 60.960 60.000 0.00 0.00 0.00 4.00
2284 4240 0.960364 CCGTGTTCCCATTCCCACTG 60.960 60.000 0.00 0.00 0.00 3.66
2285 4241 1.378762 CCGTGTTCCCATTCCCACT 59.621 57.895 0.00 0.00 0.00 4.00
2286 4242 1.677633 CCCGTGTTCCCATTCCCAC 60.678 63.158 0.00 0.00 0.00 4.61
2287 4243 0.841158 TACCCGTGTTCCCATTCCCA 60.841 55.000 0.00 0.00 0.00 4.37
2288 4244 0.107361 CTACCCGTGTTCCCATTCCC 60.107 60.000 0.00 0.00 0.00 3.97
2289 4245 0.746923 GCTACCCGTGTTCCCATTCC 60.747 60.000 0.00 0.00 0.00 3.01
2290 4246 1.087771 CGCTACCCGTGTTCCCATTC 61.088 60.000 0.00 0.00 0.00 2.67
2291 4247 1.078708 CGCTACCCGTGTTCCCATT 60.079 57.895 0.00 0.00 0.00 3.16
2292 4248 2.582436 CGCTACCCGTGTTCCCAT 59.418 61.111 0.00 0.00 0.00 4.00
2293 4249 4.382320 GCGCTACCCGTGTTCCCA 62.382 66.667 0.00 0.00 39.71 4.37
2294 4250 3.887335 TTGCGCTACCCGTGTTCCC 62.887 63.158 9.73 0.00 39.71 3.97
2295 4251 2.357760 TTGCGCTACCCGTGTTCC 60.358 61.111 9.73 0.00 39.71 3.62
2296 4252 1.957186 TGTTGCGCTACCCGTGTTC 60.957 57.895 19.09 0.00 39.71 3.18
2297 4253 2.109387 TGTTGCGCTACCCGTGTT 59.891 55.556 19.09 0.00 39.71 3.32
2298 4254 2.663852 GTGTTGCGCTACCCGTGT 60.664 61.111 19.09 0.00 39.71 4.49
2299 4255 1.777030 TTTGTGTTGCGCTACCCGTG 61.777 55.000 19.09 0.00 39.71 4.94
2300 4256 1.096386 TTTTGTGTTGCGCTACCCGT 61.096 50.000 19.09 0.00 39.71 5.28
2301 4257 0.659123 GTTTTGTGTTGCGCTACCCG 60.659 55.000 19.09 0.00 40.75 5.28
2302 4258 0.382515 TGTTTTGTGTTGCGCTACCC 59.617 50.000 19.09 8.58 0.00 3.69
2303 4259 1.472990 GTGTTTTGTGTTGCGCTACC 58.527 50.000 19.09 10.90 0.00 3.18
2304 4260 1.064952 AGGTGTTTTGTGTTGCGCTAC 59.935 47.619 15.28 15.28 0.00 3.58
2305 4261 1.064803 CAGGTGTTTTGTGTTGCGCTA 59.935 47.619 9.73 0.00 0.00 4.26
2306 4262 0.179140 CAGGTGTTTTGTGTTGCGCT 60.179 50.000 9.73 0.00 0.00 5.92
2307 4263 0.179150 TCAGGTGTTTTGTGTTGCGC 60.179 50.000 0.00 0.00 0.00 6.09
2308 4264 1.917303 GTTCAGGTGTTTTGTGTTGCG 59.083 47.619 0.00 0.00 0.00 4.85
2309 4265 3.179048 GAGTTCAGGTGTTTTGTGTTGC 58.821 45.455 0.00 0.00 0.00 4.17
2310 4266 3.192422 TGGAGTTCAGGTGTTTTGTGTTG 59.808 43.478 0.00 0.00 0.00 3.33
2311 4267 3.426615 TGGAGTTCAGGTGTTTTGTGTT 58.573 40.909 0.00 0.00 0.00 3.32
2312 4268 3.016736 CTGGAGTTCAGGTGTTTTGTGT 58.983 45.455 0.00 0.00 39.76 3.72
2313 4269 3.698029 CTGGAGTTCAGGTGTTTTGTG 57.302 47.619 0.00 0.00 39.76 3.33
2324 4280 0.698238 CCCATTCCCACTGGAGTTCA 59.302 55.000 0.00 0.00 43.07 3.18
2325 4281 0.991920 TCCCATTCCCACTGGAGTTC 59.008 55.000 0.00 0.00 43.07 3.01
2326 4282 1.455822 TTCCCATTCCCACTGGAGTT 58.544 50.000 0.00 0.00 43.07 3.01
2327 4283 1.285962 CATTCCCATTCCCACTGGAGT 59.714 52.381 0.00 0.00 43.07 3.85
2328 4284 1.565759 TCATTCCCATTCCCACTGGAG 59.434 52.381 0.00 0.00 43.07 3.86
2329 4285 1.679981 TCATTCCCATTCCCACTGGA 58.320 50.000 0.00 0.00 39.54 3.86
2330 4286 2.497273 GTTTCATTCCCATTCCCACTGG 59.503 50.000 0.00 0.00 0.00 4.00
2331 4287 3.434309 AGTTTCATTCCCATTCCCACTG 58.566 45.455 0.00 0.00 0.00 3.66
2332 4288 3.833559 AGTTTCATTCCCATTCCCACT 57.166 42.857 0.00 0.00 0.00 4.00
2333 4289 4.890158 AAAGTTTCATTCCCATTCCCAC 57.110 40.909 0.00 0.00 0.00 4.61
2334 4290 6.013812 CCTTAAAAGTTTCATTCCCATTCCCA 60.014 38.462 0.00 0.00 0.00 4.37
2335 4291 6.212589 TCCTTAAAAGTTTCATTCCCATTCCC 59.787 38.462 0.00 0.00 0.00 3.97
2336 4292 7.239763 TCCTTAAAAGTTTCATTCCCATTCC 57.760 36.000 0.00 0.00 0.00 3.01
2337 4293 9.371136 GAATCCTTAAAAGTTTCATTCCCATTC 57.629 33.333 0.00 0.00 0.00 2.67
2338 4294 8.321353 GGAATCCTTAAAAGTTTCATTCCCATT 58.679 33.333 0.00 0.00 34.23 3.16
2339 4295 7.679881 AGGAATCCTTAAAAGTTTCATTCCCAT 59.320 33.333 0.00 2.29 39.01 4.00
2340 4296 7.016296 AGGAATCCTTAAAAGTTTCATTCCCA 58.984 34.615 0.00 0.00 39.01 4.37
2341 4297 7.482169 AGGAATCCTTAAAAGTTTCATTCCC 57.518 36.000 0.00 0.00 39.01 3.97
2342 4298 8.807118 AGAAGGAATCCTTAAAAGTTTCATTCC 58.193 33.333 15.48 13.67 44.82 3.01
2343 4299 9.847706 GAGAAGGAATCCTTAAAAGTTTCATTC 57.152 33.333 15.48 15.18 44.82 2.67
2344 4300 8.807118 GGAGAAGGAATCCTTAAAAGTTTCATT 58.193 33.333 15.48 0.00 44.82 2.57
2345 4301 7.397476 GGGAGAAGGAATCCTTAAAAGTTTCAT 59.603 37.037 15.48 0.00 44.82 2.57
2604 4561 5.723672 TCTTGGTCGAGAGTTCATTAAGT 57.276 39.130 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.