Multiple sequence alignment - TraesCS7B01G062900

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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 TraesCS7B01G062900 chr7B 100.000 3459 0 0 1 3459 67351838 67355296 0.000000e+00 6388.0
1 TraesCS7B01G062900 chr7B 96.915 2269 55 5 829 3093 37599652 37601909 0.000000e+00 3788.0
2 TraesCS7B01G062900 chr7B 93.760 1266 68 5 1040 2305 37419993 37421247 0.000000e+00 1890.0
3 TraesCS7B01G062900 chr7B 96.274 832 14 6 1 832 37598588 37599402 0.000000e+00 1349.0
4 TraesCS7B01G062900 chr7B 97.881 236 4 1 1 235 447524528 447524763 1.160000e-109 407.0
5 TraesCS7B01G062900 chr7B 95.781 237 7 3 236 470 179333781 179333546 2.520000e-101 379.0
6 TraesCS7B01G062900 chr7B 74.332 561 109 23 1076 1614 666554834 666554287 4.530000e-49 206.0
7 TraesCS7B01G062900 chr7B 100.000 29 0 0 2879 2907 453738979 453738951 2.000000e-03 54.7
8 TraesCS7B01G062900 chr7D 93.207 1266 75 6 1040 2305 88143691 88142437 0.000000e+00 1851.0
9 TraesCS7B01G062900 chr7A 90.891 1032 70 10 1483 2493 89809868 89808840 0.000000e+00 1363.0
10 TraesCS7B01G062900 chr7A 91.946 447 36 0 1040 1486 89827289 89826843 8.150000e-176 627.0
11 TraesCS7B01G062900 chr7A 77.755 481 44 32 3035 3457 89804193 89803718 1.600000e-58 237.0
12 TraesCS7B01G062900 chr3B 97.872 235 5 0 1 235 329667242 329667008 1.160000e-109 407.0
13 TraesCS7B01G062900 chr3B 100.000 29 0 0 2879 2907 400372402 400372374 2.000000e-03 54.7
14 TraesCS7B01G062900 chrUn 96.708 243 7 1 1 242 134484594 134484352 1.500000e-108 403.0
15 TraesCS7B01G062900 chrUn 96.680 241 6 2 1 239 74297328 74297088 1.930000e-107 399.0
16 TraesCS7B01G062900 chrUn 85.393 178 24 2 1449 1625 17151974 17151798 2.120000e-42 183.0
17 TraesCS7B01G062900 chrUn 85.393 178 24 2 1449 1625 292609956 292610132 2.120000e-42 183.0
18 TraesCS7B01G062900 chr4B 97.458 236 5 1 1 235 250544108 250544343 5.380000e-108 401.0
19 TraesCS7B01G062900 chr4B 97.458 236 5 1 1 235 370857021 370856786 5.380000e-108 401.0
20 TraesCS7B01G062900 chr4B 87.037 108 12 2 2915 3021 433180637 433180743 1.690000e-23 121.0
21 TraesCS7B01G062900 chr1B 97.458 236 5 1 1 235 330529230 330528995 5.380000e-108 401.0
22 TraesCS7B01G062900 chr1B 97.059 238 6 1 1 237 164689631 164689868 1.930000e-107 399.0
23 TraesCS7B01G062900 chr1B 96.218 238 6 2 236 470 522828978 522828741 1.510000e-103 387.0
24 TraesCS7B01G062900 chr1B 95.359 237 9 2 236 470 40727441 40727677 3.260000e-100 375.0
25 TraesCS7B01G062900 chr1B 90.179 112 11 0 2916 3027 655590673 655590562 2.780000e-31 147.0
26 TraesCS7B01G062900 chr1B 86.316 95 10 3 3129 3221 449710307 449710400 2.200000e-17 100.0
27 TraesCS7B01G062900 chr2B 94.574 258 11 2 1 255 249570053 249570310 2.500000e-106 396.0
28 TraesCS7B01G062900 chr2B 86.897 145 19 0 1437 1581 11052 10908 2.760000e-36 163.0
29 TraesCS7B01G062900 chr5D 96.203 237 7 1 236 470 21459264 21459500 1.510000e-103 387.0
30 TraesCS7B01G062900 chr5D 89.623 106 11 0 2916 3021 176106952 176107057 6.020000e-28 135.0
31 TraesCS7B01G062900 chr5D 88.889 108 11 1 2916 3022 490607790 490607683 7.790000e-27 132.0
32 TraesCS7B01G062900 chr1D 95.763 236 8 1 236 469 10439940 10439705 2.520000e-101 379.0
33 TraesCS7B01G062900 chr5A 94.958 238 10 1 236 471 702641172 702640935 4.220000e-99 372.0
34 TraesCS7B01G062900 chr5A 94.937 237 9 2 236 470 617094334 617094569 5.450000e-98 368.0
35 TraesCS7B01G062900 chr2D 94.937 237 10 1 236 470 310722264 310722028 1.520000e-98 370.0
36 TraesCS7B01G062900 chr2D 85.882 170 21 3 1449 1617 26537431 26537264 9.860000e-41 178.0
37 TraesCS7B01G062900 chr2D 87.755 147 13 2 2875 3021 359662779 359662920 2.140000e-37 167.0
38 TraesCS7B01G062900 chr2A 92.453 106 8 0 2916 3021 482694579 482694684 5.980000e-33 152.0
39 TraesCS7B01G062900 chr2A 84.106 151 20 3 2875 3021 469196238 469196088 3.600000e-30 143.0
40 TraesCS7B01G062900 chr6D 82.317 164 21 8 2493 2654 321987905 321987748 6.020000e-28 135.0
41 TraesCS7B01G062900 chr6B 90.291 103 10 0 2919 3021 610814652 610814550 6.020000e-28 135.0
42 TraesCS7B01G062900 chr6B 100.000 31 0 0 2875 2905 340074820 340074850 1.340000e-04 58.4


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 TraesCS7B01G062900 chr7B 67351838 67355296 3458 False 6388.0 6388 100.0000 1 3459 1 chr7B.!!$F2 3458
1 TraesCS7B01G062900 chr7B 37598588 37601909 3321 False 2568.5 3788 96.5945 1 3093 2 chr7B.!!$F4 3092
2 TraesCS7B01G062900 chr7B 37419993 37421247 1254 False 1890.0 1890 93.7600 1040 2305 1 chr7B.!!$F1 1265
3 TraesCS7B01G062900 chr7B 666554287 666554834 547 True 206.0 206 74.3320 1076 1614 1 chr7B.!!$R3 538
4 TraesCS7B01G062900 chr7D 88142437 88143691 1254 True 1851.0 1851 93.2070 1040 2305 1 chr7D.!!$R1 1265
5 TraesCS7B01G062900 chr7A 89808840 89809868 1028 True 1363.0 1363 90.8910 1483 2493 1 chr7A.!!$R2 1010

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
127 128 0.181587 TTCCACGCCAAGGAAAGTCA 59.818 50.000 0.00 0.00 41.94 3.41 F
239 241 0.417437 TCCAGGACTCCCTCAATGGA 59.583 55.000 0.00 0.00 42.02 3.41 F
322 324 2.248248 TCACCCATGAGAGACGTCTTT 58.752 47.619 21.08 14.92 30.97 2.52 F
400 402 3.620488 CATGTATGGCTGTTACACCCTT 58.380 45.455 0.00 0.00 32.70 3.95 F
2054 2333 3.459063 CGGAGACCGGGGAAGACC 61.459 72.222 6.32 0.00 44.15 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1035 1293 0.390472 AGCGCTGCTACAAGGAAGAC 60.390 55.000 10.39 0.00 36.99 3.01 R
1062 1320 1.389445 CGCTCATTGCTATCGATCTGC 59.611 52.381 0.00 8.84 40.11 4.26 R
2054 2333 2.034879 CGGCCAGCCTGTTGTACAG 61.035 63.158 2.24 0.00 45.53 2.74 R
2221 2500 2.601666 TCTGGCCTGACGCAGAGT 60.602 61.111 8.48 0.00 40.31 3.24 R
3390 3691 0.175760 TCAGCTTGCTCATACCCGTC 59.824 55.000 0.00 0.00 0.00 4.79 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
36 37 2.635915 CCTCCGGTTTATATAGGCACCA 59.364 50.000 0.00 0.00 0.00 4.17
48 49 1.446016 AGGCACCAAAGAGGGTTAGT 58.554 50.000 0.00 0.00 43.89 2.24
127 128 0.181587 TTCCACGCCAAGGAAAGTCA 59.818 50.000 0.00 0.00 41.94 3.41
138 139 1.909302 AGGAAAGTCACATCCGGACAT 59.091 47.619 6.12 0.00 40.78 3.06
175 176 9.258826 CTTCAATCTTGTATCTTCATAGTCCAG 57.741 37.037 0.00 0.00 0.00 3.86
177 178 7.565029 TCAATCTTGTATCTTCATAGTCCAGGA 59.435 37.037 0.00 0.00 0.00 3.86
178 179 6.968263 TCTTGTATCTTCATAGTCCAGGAG 57.032 41.667 0.00 0.00 0.00 3.69
179 180 6.436027 TCTTGTATCTTCATAGTCCAGGAGT 58.564 40.000 1.29 1.29 0.00 3.85
180 181 6.547880 TCTTGTATCTTCATAGTCCAGGAGTC 59.452 42.308 0.00 0.00 0.00 3.36
181 182 5.141182 TGTATCTTCATAGTCCAGGAGTCC 58.859 45.833 0.00 0.00 0.00 3.85
182 183 2.656002 TCTTCATAGTCCAGGAGTCCG 58.344 52.381 0.00 0.00 0.00 4.79
183 184 1.683917 CTTCATAGTCCAGGAGTCCGG 59.316 57.143 12.34 12.34 0.00 5.14
184 185 0.755698 TCATAGTCCAGGAGTCCGGC 60.756 60.000 13.40 9.57 0.00 6.13
185 186 1.457831 ATAGTCCAGGAGTCCGGCC 60.458 63.158 13.40 0.00 0.00 6.13
186 187 2.238319 ATAGTCCAGGAGTCCGGCCA 62.238 60.000 2.24 3.83 0.00 5.36
187 188 2.449967 TAGTCCAGGAGTCCGGCCAA 62.450 60.000 2.24 0.00 0.00 4.52
188 189 2.528127 TCCAGGAGTCCGGCCAAA 60.528 61.111 2.24 0.00 0.00 3.28
189 190 2.045926 CCAGGAGTCCGGCCAAAG 60.046 66.667 2.24 0.00 0.00 2.77
190 191 2.045926 CAGGAGTCCGGCCAAAGG 60.046 66.667 2.24 0.00 0.00 3.11
191 192 2.529389 AGGAGTCCGGCCAAAGGT 60.529 61.111 2.24 0.00 0.00 3.50
192 193 2.046217 GGAGTCCGGCCAAAGGTC 60.046 66.667 2.24 0.00 0.00 3.85
193 194 2.747686 GAGTCCGGCCAAAGGTCA 59.252 61.111 2.24 0.00 0.00 4.02
194 195 1.299976 GAGTCCGGCCAAAGGTCAT 59.700 57.895 2.24 0.00 0.00 3.06
239 241 0.417437 TCCAGGACTCCCTCAATGGA 59.583 55.000 0.00 0.00 42.02 3.41
322 324 2.248248 TCACCCATGAGAGACGTCTTT 58.752 47.619 21.08 14.92 30.97 2.52
376 378 4.113085 TGCTTTACATTTAGGGGAGGGTA 58.887 43.478 0.00 0.00 0.00 3.69
400 402 3.620488 CATGTATGGCTGTTACACCCTT 58.380 45.455 0.00 0.00 32.70 3.95
807 809 5.533154 GGGAGAAGAGATTAACGAGAGATGA 59.467 44.000 0.00 0.00 0.00 2.92
808 810 6.208599 GGGAGAAGAGATTAACGAGAGATGAT 59.791 42.308 0.00 0.00 0.00 2.45
826 828 6.430007 AGATGATTCCAGCCTGTAATTTTCT 58.570 36.000 0.00 0.00 0.00 2.52
888 1143 3.890527 GCCAGGTGGTGAATGAGAT 57.109 52.632 0.00 0.00 37.57 2.75
998 1256 4.748277 AAATCATAGCTGCAGCCAAAAT 57.252 36.364 34.39 19.95 43.38 1.82
1024 1282 6.963049 ATGAACCGAACTCATACAAGTAAC 57.037 37.500 0.00 0.00 31.66 2.50
1025 1283 4.919168 TGAACCGAACTCATACAAGTAACG 59.081 41.667 0.00 0.00 0.00 3.18
1026 1284 4.771590 ACCGAACTCATACAAGTAACGA 57.228 40.909 0.00 0.00 33.86 3.85
1027 1285 5.125100 ACCGAACTCATACAAGTAACGAA 57.875 39.130 0.00 0.00 33.86 3.85
1030 1288 6.647895 ACCGAACTCATACAAGTAACGAAAAT 59.352 34.615 0.00 0.00 33.86 1.82
1035 1293 8.029642 ACTCATACAAGTAACGAAAATCAAGG 57.970 34.615 0.00 0.00 0.00 3.61
1038 1296 7.876068 TCATACAAGTAACGAAAATCAAGGTCT 59.124 33.333 0.00 0.00 0.00 3.85
1715 1991 4.416738 GCCAGGGCGCCTTTCTCT 62.417 66.667 28.56 11.88 0.00 3.10
2054 2333 3.459063 CGGAGACCGGGGAAGACC 61.459 72.222 6.32 0.00 44.15 3.85
2221 2500 2.110213 GGGGTCAACGTGCAGTCA 59.890 61.111 0.00 0.00 0.00 3.41
2236 2515 2.917227 TCACTCTGCGTCAGGCCA 60.917 61.111 5.01 0.00 42.61 5.36
2382 2664 7.339212 TGAAGGTCTCTTTGAGATGAAAACAAA 59.661 33.333 0.40 0.00 40.98 2.83
2582 2883 9.155053 GAACTTTCTGATGTTGTACTTTTTACG 57.845 33.333 0.00 0.00 0.00 3.18
2685 2986 5.838531 ATAGAGGGAGTAGAACAAACGAG 57.161 43.478 0.00 0.00 0.00 4.18
2688 2989 2.826725 AGGGAGTAGAACAAACGAGGAG 59.173 50.000 0.00 0.00 0.00 3.69
2713 3014 8.038944 AGTAGTTTGATAGATACGGAAAGCAAA 58.961 33.333 0.00 0.00 0.00 3.68
2726 3027 4.377431 CGGAAAGCAAACACTACACTCATC 60.377 45.833 0.00 0.00 0.00 2.92
2767 3068 0.253160 TTGCCCCTCTGTCCTATGGT 60.253 55.000 0.00 0.00 0.00 3.55
2826 3127 9.994432 CTCTTCATTTCATAATGTAGTTTGTCC 57.006 33.333 0.00 0.00 41.54 4.02
3007 3308 0.878523 GCGGGCGCACTACATTATGA 60.879 55.000 8.62 0.00 41.49 2.15
3093 3394 5.621193 ACTCGATATTACCCCCTTCATTTG 58.379 41.667 0.00 0.00 0.00 2.32
3094 3395 5.368523 ACTCGATATTACCCCCTTCATTTGA 59.631 40.000 0.00 0.00 0.00 2.69
3095 3396 6.126594 ACTCGATATTACCCCCTTCATTTGAA 60.127 38.462 0.00 0.00 0.00 2.69
3096 3397 6.848069 TCGATATTACCCCCTTCATTTGAAT 58.152 36.000 0.00 0.00 33.01 2.57
3097 3398 6.714810 TCGATATTACCCCCTTCATTTGAATG 59.285 38.462 0.00 0.00 37.75 2.67
3098 3399 6.714810 CGATATTACCCCCTTCATTTGAATGA 59.285 38.462 2.39 2.39 43.28 2.57
3109 3410 5.895636 TCATTTGAATGAATAAGGCGTGT 57.104 34.783 4.02 0.00 42.11 4.49
3110 3411 6.266168 TCATTTGAATGAATAAGGCGTGTT 57.734 33.333 4.02 0.00 42.11 3.32
3111 3412 7.384439 TCATTTGAATGAATAAGGCGTGTTA 57.616 32.000 4.02 0.00 42.11 2.41
3112 3413 7.247728 TCATTTGAATGAATAAGGCGTGTTAC 58.752 34.615 4.02 0.00 42.11 2.50
3113 3414 5.554822 TTGAATGAATAAGGCGTGTTACC 57.445 39.130 0.00 0.00 0.00 2.85
3114 3415 4.839121 TGAATGAATAAGGCGTGTTACCT 58.161 39.130 0.00 0.00 40.02 3.08
3126 3427 7.514784 AGGCGTGTTACCTTAAAATTTAACT 57.485 32.000 0.00 0.00 31.87 2.24
3127 3428 7.587629 AGGCGTGTTACCTTAAAATTTAACTC 58.412 34.615 0.00 0.00 31.87 3.01
3128 3429 7.446319 AGGCGTGTTACCTTAAAATTTAACTCT 59.554 33.333 0.00 0.00 31.87 3.24
3129 3430 7.536281 GGCGTGTTACCTTAAAATTTAACTCTG 59.464 37.037 0.00 0.00 0.00 3.35
3130 3431 8.284693 GCGTGTTACCTTAAAATTTAACTCTGA 58.715 33.333 0.00 0.00 0.00 3.27
3131 3432 9.590088 CGTGTTACCTTAAAATTTAACTCTGAC 57.410 33.333 0.00 0.00 0.00 3.51
3132 3433 9.888878 GTGTTACCTTAAAATTTAACTCTGACC 57.111 33.333 0.00 0.00 0.00 4.02
3133 3434 9.629878 TGTTACCTTAAAATTTAACTCTGACCA 57.370 29.630 0.00 0.00 0.00 4.02
3149 3450 8.375493 ACTCTGACCATAAATTAGACTAACCA 57.625 34.615 0.00 0.00 0.00 3.67
3150 3451 8.822805 ACTCTGACCATAAATTAGACTAACCAA 58.177 33.333 0.00 0.00 0.00 3.67
3151 3452 9.667107 CTCTGACCATAAATTAGACTAACCAAA 57.333 33.333 0.00 0.00 0.00 3.28
3152 3453 9.444600 TCTGACCATAAATTAGACTAACCAAAC 57.555 33.333 0.00 0.00 0.00 2.93
3153 3454 8.259049 TGACCATAAATTAGACTAACCAAACG 57.741 34.615 0.00 0.00 0.00 3.60
3154 3455 7.879160 TGACCATAAATTAGACTAACCAAACGT 59.121 33.333 0.00 0.00 0.00 3.99
3155 3456 8.036273 ACCATAAATTAGACTAACCAAACGTG 57.964 34.615 0.00 0.00 0.00 4.49
3259 3560 7.408756 TGATCAAAGTAGGATTGGATTTTGG 57.591 36.000 0.00 0.00 0.00 3.28
3260 3561 6.953520 TGATCAAAGTAGGATTGGATTTTGGT 59.046 34.615 0.00 0.00 0.00 3.67
3261 3562 8.112822 TGATCAAAGTAGGATTGGATTTTGGTA 58.887 33.333 0.00 0.00 0.00 3.25
3262 3563 8.893563 ATCAAAGTAGGATTGGATTTTGGTAA 57.106 30.769 0.00 0.00 0.00 2.85
3263 3564 8.348285 TCAAAGTAGGATTGGATTTTGGTAAG 57.652 34.615 0.00 0.00 0.00 2.34
3264 3565 6.775594 AAGTAGGATTGGATTTTGGTAAGC 57.224 37.500 0.00 0.00 0.00 3.09
3265 3566 4.881850 AGTAGGATTGGATTTTGGTAAGCG 59.118 41.667 0.00 0.00 0.00 4.68
3266 3567 3.697166 AGGATTGGATTTTGGTAAGCGT 58.303 40.909 0.00 0.00 0.00 5.07
3267 3568 3.443681 AGGATTGGATTTTGGTAAGCGTG 59.556 43.478 0.00 0.00 0.00 5.34
3268 3569 2.715737 TTGGATTTTGGTAAGCGTGC 57.284 45.000 0.00 0.00 0.00 5.34
3269 3570 1.610363 TGGATTTTGGTAAGCGTGCA 58.390 45.000 0.00 0.00 0.00 4.57
3270 3571 1.268352 TGGATTTTGGTAAGCGTGCAC 59.732 47.619 6.82 6.82 0.00 4.57
3271 3572 1.602191 GATTTTGGTAAGCGTGCACG 58.398 50.000 34.01 34.01 43.27 5.34
3284 3585 2.715268 CGTGCACGCCTTATTAATTGG 58.285 47.619 28.16 0.00 0.00 3.16
3285 3586 2.353269 CGTGCACGCCTTATTAATTGGA 59.647 45.455 28.16 0.00 0.00 3.53
3286 3587 3.181505 CGTGCACGCCTTATTAATTGGAA 60.182 43.478 28.16 0.00 0.00 3.53
3287 3588 4.497340 CGTGCACGCCTTATTAATTGGAAT 60.497 41.667 28.16 0.00 0.00 3.01
3288 3589 4.739716 GTGCACGCCTTATTAATTGGAATG 59.260 41.667 0.00 8.26 0.00 2.67
3289 3590 4.642437 TGCACGCCTTATTAATTGGAATGA 59.358 37.500 10.30 0.00 0.00 2.57
3290 3591 5.126222 TGCACGCCTTATTAATTGGAATGAA 59.874 36.000 10.30 1.45 0.00 2.57
3291 3592 5.687285 GCACGCCTTATTAATTGGAATGAAG 59.313 40.000 10.30 0.00 0.00 3.02
3292 3593 6.208644 CACGCCTTATTAATTGGAATGAAGG 58.791 40.000 10.30 8.42 35.99 3.46
3293 3594 6.039270 CACGCCTTATTAATTGGAATGAAGGA 59.961 38.462 12.97 0.00 35.06 3.36
3294 3595 6.605594 ACGCCTTATTAATTGGAATGAAGGAA 59.394 34.615 12.97 0.00 35.06 3.36
3295 3596 7.141363 CGCCTTATTAATTGGAATGAAGGAAG 58.859 38.462 12.97 4.61 35.06 3.46
3296 3597 7.201821 CGCCTTATTAATTGGAATGAAGGAAGT 60.202 37.037 12.97 0.00 35.06 3.01
3297 3598 9.131791 GCCTTATTAATTGGAATGAAGGAAGTA 57.868 33.333 12.97 0.00 35.06 2.24
3308 3609 9.990360 TGGAATGAAGGAAGTAAAATTTAAACC 57.010 29.630 0.00 0.00 0.00 3.27
3309 3610 9.990360 GGAATGAAGGAAGTAAAATTTAAACCA 57.010 29.630 0.00 0.00 0.00 3.67
3331 3632 9.887629 AACCAAATTATTCATGCAATTACATCA 57.112 25.926 0.00 0.00 0.00 3.07
3332 3633 9.887629 ACCAAATTATTCATGCAATTACATCAA 57.112 25.926 0.00 0.00 0.00 2.57
3342 3643 9.667989 TCATGCAATTACATCAAATTATTCTCG 57.332 29.630 0.00 0.00 0.00 4.04
3343 3644 8.908678 CATGCAATTACATCAAATTATTCTCGG 58.091 33.333 0.00 0.00 0.00 4.63
3344 3645 8.219546 TGCAATTACATCAAATTATTCTCGGA 57.780 30.769 0.00 0.00 0.00 4.55
3345 3646 8.681806 TGCAATTACATCAAATTATTCTCGGAA 58.318 29.630 0.00 0.00 0.00 4.30
3346 3647 9.173939 GCAATTACATCAAATTATTCTCGGAAG 57.826 33.333 0.00 0.00 0.00 3.46
3350 3651 7.005062 ACATCAAATTATTCTCGGAAGTTCG 57.995 36.000 0.00 0.00 0.00 3.95
3351 3652 5.464965 TCAAATTATTCTCGGAAGTTCGC 57.535 39.130 0.00 0.00 0.00 4.70
3352 3653 4.331717 TCAAATTATTCTCGGAAGTTCGCC 59.668 41.667 0.00 0.00 0.00 5.54
3353 3654 2.304751 TTATTCTCGGAAGTTCGCCC 57.695 50.000 0.00 0.00 0.00 6.13
3354 3655 1.187974 TATTCTCGGAAGTTCGCCCA 58.812 50.000 0.00 0.00 0.00 5.36
3355 3656 0.323629 ATTCTCGGAAGTTCGCCCAA 59.676 50.000 0.00 0.00 0.00 4.12
3356 3657 0.320421 TTCTCGGAAGTTCGCCCAAG 60.320 55.000 0.00 0.00 0.00 3.61
3357 3658 1.183030 TCTCGGAAGTTCGCCCAAGA 61.183 55.000 0.00 0.00 0.00 3.02
3358 3659 0.320421 CTCGGAAGTTCGCCCAAGAA 60.320 55.000 0.00 0.00 0.00 2.52
3366 3667 2.014857 GTTCGCCCAAGAACCTATTCC 58.985 52.381 0.00 0.00 43.33 3.01
3367 3668 1.580059 TCGCCCAAGAACCTATTCCT 58.420 50.000 0.00 0.00 35.18 3.36
3368 3669 1.209504 TCGCCCAAGAACCTATTCCTG 59.790 52.381 0.00 0.00 35.18 3.86
3369 3670 1.209504 CGCCCAAGAACCTATTCCTGA 59.790 52.381 0.00 0.00 35.18 3.86
3370 3671 2.355716 CGCCCAAGAACCTATTCCTGAA 60.356 50.000 0.00 0.00 35.18 3.02
3371 3672 3.282885 GCCCAAGAACCTATTCCTGAAG 58.717 50.000 0.00 0.00 35.18 3.02
3372 3673 3.308473 GCCCAAGAACCTATTCCTGAAGT 60.308 47.826 0.00 0.00 35.18 3.01
3373 3674 4.811063 GCCCAAGAACCTATTCCTGAAGTT 60.811 45.833 0.00 0.00 35.18 2.66
3374 3675 4.944317 CCCAAGAACCTATTCCTGAAGTTC 59.056 45.833 0.00 0.00 37.65 3.01
3375 3676 5.280727 CCCAAGAACCTATTCCTGAAGTTCT 60.281 44.000 4.17 7.02 46.81 3.01
3378 3679 5.810095 AGAACCTATTCCTGAAGTTCTTGG 58.190 41.667 4.17 6.77 43.41 3.61
3379 3680 4.576330 ACCTATTCCTGAAGTTCTTGGG 57.424 45.455 4.17 4.36 0.00 4.12
3380 3681 4.175962 ACCTATTCCTGAAGTTCTTGGGA 58.824 43.478 4.17 6.57 0.00 4.37
3381 3682 4.226168 ACCTATTCCTGAAGTTCTTGGGAG 59.774 45.833 4.17 5.57 0.00 4.30
3382 3683 4.471386 CCTATTCCTGAAGTTCTTGGGAGA 59.529 45.833 4.17 0.00 0.00 3.71
3383 3684 5.045578 CCTATTCCTGAAGTTCTTGGGAGAA 60.046 44.000 4.17 0.00 39.54 2.87
3384 3685 4.357918 TTCCTGAAGTTCTTGGGAGAAG 57.642 45.455 4.17 0.00 42.35 2.85
3385 3686 2.039084 TCCTGAAGTTCTTGGGAGAAGC 59.961 50.000 4.17 0.00 42.35 3.86
3386 3687 2.431454 CTGAAGTTCTTGGGAGAAGCC 58.569 52.381 4.17 0.00 42.35 4.35
3387 3688 1.270839 TGAAGTTCTTGGGAGAAGCCG 60.271 52.381 4.17 0.00 42.35 5.52
3388 3689 0.606673 AAGTTCTTGGGAGAAGCCGC 60.607 55.000 0.00 0.00 42.35 6.53
3389 3690 2.041115 GTTCTTGGGAGAAGCCGCC 61.041 63.158 0.00 0.00 42.35 6.13
3390 3691 3.605749 TTCTTGGGAGAAGCCGCCG 62.606 63.158 0.00 0.00 36.99 6.46
3391 3692 4.082523 CTTGGGAGAAGCCGCCGA 62.083 66.667 0.00 0.00 37.63 5.54
3392 3693 4.388499 TTGGGAGAAGCCGCCGAC 62.388 66.667 0.00 0.00 37.63 4.79
3403 3704 4.201679 CGCCGACGGGTATGAGCA 62.202 66.667 17.22 0.00 34.97 4.26
3404 3705 2.185867 GCCGACGGGTATGAGCAA 59.814 61.111 17.22 0.00 34.97 3.91
3405 3706 1.883084 GCCGACGGGTATGAGCAAG 60.883 63.158 17.22 0.00 34.97 4.01
3406 3707 1.883084 CCGACGGGTATGAGCAAGC 60.883 63.158 5.81 0.00 0.00 4.01
3407 3708 1.141881 CGACGGGTATGAGCAAGCT 59.858 57.895 0.00 0.00 0.00 3.74
3408 3709 1.148157 CGACGGGTATGAGCAAGCTG 61.148 60.000 0.00 0.00 0.00 4.24
3409 3710 0.175760 GACGGGTATGAGCAAGCTGA 59.824 55.000 0.00 0.00 0.00 4.26
3410 3711 0.613260 ACGGGTATGAGCAAGCTGAA 59.387 50.000 0.00 0.00 0.00 3.02
3411 3712 1.009829 CGGGTATGAGCAAGCTGAAC 58.990 55.000 0.00 0.00 0.00 3.18
3412 3713 1.675714 CGGGTATGAGCAAGCTGAACA 60.676 52.381 0.00 0.00 0.00 3.18
3413 3714 2.648059 GGGTATGAGCAAGCTGAACAT 58.352 47.619 0.00 0.00 0.00 2.71
3414 3715 2.615912 GGGTATGAGCAAGCTGAACATC 59.384 50.000 0.00 0.00 0.00 3.06
3415 3716 2.286294 GGTATGAGCAAGCTGAACATCG 59.714 50.000 0.00 0.00 0.00 3.84
3416 3717 2.391616 ATGAGCAAGCTGAACATCGA 57.608 45.000 0.00 0.00 0.00 3.59
3417 3718 1.432514 TGAGCAAGCTGAACATCGAC 58.567 50.000 0.00 0.00 0.00 4.20
3418 3719 0.368227 GAGCAAGCTGAACATCGACG 59.632 55.000 0.00 0.00 0.00 5.12
3419 3720 1.225854 GCAAGCTGAACATCGACGC 60.226 57.895 0.00 0.00 0.00 5.19
3420 3721 1.057822 CAAGCTGAACATCGACGCG 59.942 57.895 3.53 3.53 0.00 6.01
3421 3722 1.372997 AAGCTGAACATCGACGCGT 60.373 52.632 13.85 13.85 0.00 6.01
3422 3723 1.344942 AAGCTGAACATCGACGCGTC 61.345 55.000 28.96 28.96 0.00 5.19
3423 3724 2.086426 GCTGAACATCGACGCGTCA 61.086 57.895 35.71 23.77 0.00 4.35
3424 3725 1.413767 GCTGAACATCGACGCGTCAT 61.414 55.000 35.71 24.79 0.00 3.06
3425 3726 1.822581 CTGAACATCGACGCGTCATA 58.177 50.000 35.71 24.50 0.00 2.15
3426 3727 2.385315 CTGAACATCGACGCGTCATAT 58.615 47.619 35.71 25.54 0.00 1.78
3427 3728 2.789339 CTGAACATCGACGCGTCATATT 59.211 45.455 35.71 23.26 0.00 1.28
3428 3729 3.183754 TGAACATCGACGCGTCATATTT 58.816 40.909 35.71 23.10 0.00 1.40
3429 3730 3.615056 TGAACATCGACGCGTCATATTTT 59.385 39.130 35.71 25.74 0.00 1.82
3430 3731 4.092237 TGAACATCGACGCGTCATATTTTT 59.908 37.500 35.71 21.98 0.00 1.94
3431 3732 5.288952 TGAACATCGACGCGTCATATTTTTA 59.711 36.000 35.71 20.89 0.00 1.52
3432 3733 5.311016 ACATCGACGCGTCATATTTTTAG 57.689 39.130 35.71 17.85 0.00 1.85
3433 3734 4.208460 ACATCGACGCGTCATATTTTTAGG 59.792 41.667 35.71 17.15 0.00 2.69
3434 3735 4.031418 TCGACGCGTCATATTTTTAGGA 57.969 40.909 35.71 19.08 0.00 2.94
3435 3736 3.792956 TCGACGCGTCATATTTTTAGGAC 59.207 43.478 35.71 7.38 0.00 3.85
3440 3741 4.191662 CGTCATATTTTTAGGACGGCAC 57.808 45.455 11.16 0.00 46.40 5.01
3441 3742 3.869246 CGTCATATTTTTAGGACGGCACT 59.131 43.478 11.16 0.00 46.40 4.40
3442 3743 4.260212 CGTCATATTTTTAGGACGGCACTG 60.260 45.833 11.16 0.00 46.40 3.66
3443 3744 4.873827 GTCATATTTTTAGGACGGCACTGA 59.126 41.667 0.00 0.00 0.00 3.41
3444 3745 5.527582 GTCATATTTTTAGGACGGCACTGAT 59.472 40.000 0.00 0.00 0.00 2.90
3445 3746 5.527214 TCATATTTTTAGGACGGCACTGATG 59.473 40.000 0.00 0.00 0.00 3.07
3458 3759 3.416119 CACTGATGCTATTGCTGTTGG 57.584 47.619 0.00 0.00 40.48 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 5.365895 ACTCTGTGTAACACTAACCCTCTTT 59.634 40.000 0.00 0.00 45.67 2.52
127 128 1.261938 TTCGTCCCATGTCCGGATGT 61.262 55.000 7.81 0.00 37.62 3.06
138 139 3.071023 ACAAGATTGAAGACTTCGTCCCA 59.929 43.478 10.56 0.00 32.18 4.37
175 176 2.046217 GACCTTTGGCCGGACTCC 60.046 66.667 9.82 0.00 0.00 3.85
177 178 0.541863 CTATGACCTTTGGCCGGACT 59.458 55.000 9.82 0.00 0.00 3.85
178 179 0.252197 ACTATGACCTTTGGCCGGAC 59.748 55.000 5.05 0.56 0.00 4.79
179 180 0.539986 GACTATGACCTTTGGCCGGA 59.460 55.000 5.05 0.00 0.00 5.14
180 181 0.463833 GGACTATGACCTTTGGCCGG 60.464 60.000 0.00 0.00 0.00 6.13
181 182 0.810031 CGGACTATGACCTTTGGCCG 60.810 60.000 0.00 0.00 0.00 6.13
182 183 0.463833 CCGGACTATGACCTTTGGCC 60.464 60.000 0.00 0.00 0.00 5.36
183 184 1.095807 GCCGGACTATGACCTTTGGC 61.096 60.000 5.05 0.00 0.00 4.52
184 185 0.541863 AGCCGGACTATGACCTTTGG 59.458 55.000 5.05 0.00 0.00 3.28
185 186 3.555168 GGATAGCCGGACTATGACCTTTG 60.555 52.174 19.08 0.00 41.87 2.77
186 187 2.633481 GGATAGCCGGACTATGACCTTT 59.367 50.000 19.08 0.00 41.87 3.11
187 188 2.249139 GGATAGCCGGACTATGACCTT 58.751 52.381 19.08 0.04 41.87 3.50
188 189 1.926108 GGATAGCCGGACTATGACCT 58.074 55.000 19.08 1.66 41.87 3.85
239 241 3.016031 TGCACGATTGGAGCAATTGTAT 58.984 40.909 7.40 0.00 43.97 2.29
322 324 1.210478 GCCATGAGCCTCCTTGTTAGA 59.790 52.381 0.00 0.00 34.35 2.10
807 809 6.948309 ACTTACAGAAAATTACAGGCTGGAAT 59.052 34.615 19.36 19.36 30.72 3.01
808 810 6.206634 CACTTACAGAAAATTACAGGCTGGAA 59.793 38.462 15.84 15.84 0.00 3.53
868 1123 1.003355 CTCATTCACCACCTGGCGT 60.003 57.895 0.00 0.00 39.32 5.68
869 1124 0.107508 ATCTCATTCACCACCTGGCG 60.108 55.000 0.00 0.00 39.32 5.69
909 1164 3.769739 AGTGTCAAGTTGATGCCTACA 57.230 42.857 9.18 0.00 0.00 2.74
998 1256 9.740239 GTTACTTGTATGAGTTCGGTTCATATA 57.260 33.333 7.39 3.62 39.12 0.86
1035 1293 0.390472 AGCGCTGCTACAAGGAAGAC 60.390 55.000 10.39 0.00 36.99 3.01
1038 1296 1.375908 CCAGCGCTGCTACAAGGAA 60.376 57.895 31.96 0.00 36.40 3.36
1059 1317 1.693606 TCATTGCTATCGATCTGCCCA 59.306 47.619 17.11 7.49 0.00 5.36
1060 1318 2.344950 CTCATTGCTATCGATCTGCCC 58.655 52.381 17.11 0.00 0.00 5.36
1061 1319 1.731160 GCTCATTGCTATCGATCTGCC 59.269 52.381 17.11 0.52 38.95 4.85
1062 1320 1.389445 CGCTCATTGCTATCGATCTGC 59.611 52.381 0.00 8.84 40.11 4.26
1063 1321 2.670479 ACGCTCATTGCTATCGATCTG 58.330 47.619 0.00 0.00 40.11 2.90
1268 1526 2.283529 ACACAGGGCGGTAGTGGAG 61.284 63.158 0.00 0.00 37.58 3.86
2054 2333 2.034879 CGGCCAGCCTGTTGTACAG 61.035 63.158 2.24 0.00 45.53 2.74
2221 2500 2.601666 TCTGGCCTGACGCAGAGT 60.602 61.111 8.48 0.00 40.31 3.24
2249 2528 3.077556 GAGCTCGGCCAGGAAGGA 61.078 66.667 2.24 0.00 41.22 3.36
2397 2693 6.148480 AGAGGTCTGTTTTCATCTGAAATTCG 59.852 38.462 6.21 0.00 42.83 3.34
2544 2845 7.719483 ACATCAGAAAGTTCATTGAAATGTGT 58.281 30.769 0.00 0.00 37.65 3.72
2660 2961 6.628185 TCGTTTGTTCTACTCCCTCTATTTC 58.372 40.000 0.00 0.00 0.00 2.17
2685 2986 6.641723 GCTTTCCGTATCTATCAAACTACTCC 59.358 42.308 0.00 0.00 0.00 3.85
2688 2989 7.766219 TTGCTTTCCGTATCTATCAAACTAC 57.234 36.000 0.00 0.00 0.00 2.73
2713 3014 5.416013 TCAAGAATCTCGATGAGTGTAGTGT 59.584 40.000 0.00 0.00 0.00 3.55
2726 3027 3.194542 ACCACTCCTCTTCAAGAATCTCG 59.805 47.826 0.00 0.00 0.00 4.04
2899 3200 1.064003 ACCAGCAGTGTCCCATGTTA 58.936 50.000 0.00 0.00 0.00 2.41
2903 3204 4.796110 AATTATACCAGCAGTGTCCCAT 57.204 40.909 0.00 0.00 0.00 4.00
2945 3246 9.400638 GTTTGATCATAAATTTAACCAACGTGA 57.599 29.630 1.21 0.20 0.00 4.35
3007 3308 4.724279 AAAACATGTACTCCCTCCACTT 57.276 40.909 0.00 0.00 0.00 3.16
3093 3394 5.813080 AAGGTAACACGCCTTATTCATTC 57.187 39.130 0.00 0.00 43.87 2.67
3094 3395 7.690952 TTTAAGGTAACACGCCTTATTCATT 57.309 32.000 4.85 0.00 44.99 2.57
3095 3396 7.690952 TTTTAAGGTAACACGCCTTATTCAT 57.309 32.000 4.85 0.00 44.99 2.57
3096 3397 7.690952 ATTTTAAGGTAACACGCCTTATTCA 57.309 32.000 4.85 0.00 44.99 2.57
3097 3398 8.975410 AAATTTTAAGGTAACACGCCTTATTC 57.025 30.769 4.85 0.00 44.99 1.75
3099 3400 9.844790 GTTAAATTTTAAGGTAACACGCCTTAT 57.155 29.630 0.00 0.00 44.99 1.73
3100 3401 9.065798 AGTTAAATTTTAAGGTAACACGCCTTA 57.934 29.630 0.00 0.00 43.87 2.69
3101 3402 7.944061 AGTTAAATTTTAAGGTAACACGCCTT 58.056 30.769 0.00 2.07 46.90 4.35
3102 3403 7.446319 AGAGTTAAATTTTAAGGTAACACGCCT 59.554 33.333 0.00 0.00 38.11 5.52
3103 3404 7.536281 CAGAGTTAAATTTTAAGGTAACACGCC 59.464 37.037 0.00 0.00 41.41 5.68
3104 3405 8.284693 TCAGAGTTAAATTTTAAGGTAACACGC 58.715 33.333 0.00 0.00 41.41 5.34
3105 3406 9.590088 GTCAGAGTTAAATTTTAAGGTAACACG 57.410 33.333 0.00 0.00 41.41 4.49
3106 3407 9.888878 GGTCAGAGTTAAATTTTAAGGTAACAC 57.111 33.333 0.00 0.00 41.41 3.32
3107 3408 9.629878 TGGTCAGAGTTAAATTTTAAGGTAACA 57.370 29.630 0.00 0.00 41.41 2.41
3123 3424 8.822805 TGGTTAGTCTAATTTATGGTCAGAGTT 58.177 33.333 0.00 0.00 0.00 3.01
3124 3425 8.375493 TGGTTAGTCTAATTTATGGTCAGAGT 57.625 34.615 0.00 0.00 0.00 3.24
3125 3426 9.667107 TTTGGTTAGTCTAATTTATGGTCAGAG 57.333 33.333 0.00 0.00 0.00 3.35
3126 3427 9.444600 GTTTGGTTAGTCTAATTTATGGTCAGA 57.555 33.333 0.00 0.00 0.00 3.27
3127 3428 8.388103 CGTTTGGTTAGTCTAATTTATGGTCAG 58.612 37.037 0.00 0.00 0.00 3.51
3128 3429 7.879160 ACGTTTGGTTAGTCTAATTTATGGTCA 59.121 33.333 0.00 0.00 0.00 4.02
3129 3430 8.173130 CACGTTTGGTTAGTCTAATTTATGGTC 58.827 37.037 0.00 0.00 0.00 4.02
3130 3431 7.120138 CCACGTTTGGTTAGTCTAATTTATGGT 59.880 37.037 0.00 0.00 38.23 3.55
3131 3432 7.334921 TCCACGTTTGGTTAGTCTAATTTATGG 59.665 37.037 0.00 0.00 44.35 2.74
3132 3433 8.259049 TCCACGTTTGGTTAGTCTAATTTATG 57.741 34.615 0.00 0.00 44.35 1.90
3133 3434 9.457436 AATCCACGTTTGGTTAGTCTAATTTAT 57.543 29.630 0.00 0.00 44.35 1.40
3134 3435 8.851541 AATCCACGTTTGGTTAGTCTAATTTA 57.148 30.769 0.00 0.00 44.35 1.40
3135 3436 7.754851 AATCCACGTTTGGTTAGTCTAATTT 57.245 32.000 0.00 0.00 44.35 1.82
3138 3439 9.537192 CATATAATCCACGTTTGGTTAGTCTAA 57.463 33.333 0.00 0.00 44.35 2.10
3139 3440 8.698210 ACATATAATCCACGTTTGGTTAGTCTA 58.302 33.333 0.00 0.00 44.35 2.59
3140 3441 7.494625 CACATATAATCCACGTTTGGTTAGTCT 59.505 37.037 0.00 0.00 44.35 3.24
3141 3442 7.493320 TCACATATAATCCACGTTTGGTTAGTC 59.507 37.037 0.00 0.00 44.35 2.59
3142 3443 7.332557 TCACATATAATCCACGTTTGGTTAGT 58.667 34.615 0.00 0.00 44.35 2.24
3143 3444 7.780008 TCACATATAATCCACGTTTGGTTAG 57.220 36.000 0.00 0.00 44.35 2.34
3144 3445 9.833917 TTATCACATATAATCCACGTTTGGTTA 57.166 29.630 0.00 0.00 44.35 2.85
3145 3446 8.740123 TTATCACATATAATCCACGTTTGGTT 57.260 30.769 0.00 0.00 44.35 3.67
3146 3447 8.740123 TTTATCACATATAATCCACGTTTGGT 57.260 30.769 0.00 0.00 44.35 3.67
3233 3534 9.135189 CCAAAATCCAATCCTACTTTGATCATA 57.865 33.333 0.00 0.00 0.00 2.15
3234 3535 7.620888 ACCAAAATCCAATCCTACTTTGATCAT 59.379 33.333 0.00 0.00 0.00 2.45
3235 3536 6.953520 ACCAAAATCCAATCCTACTTTGATCA 59.046 34.615 0.00 0.00 0.00 2.92
3236 3537 7.410120 ACCAAAATCCAATCCTACTTTGATC 57.590 36.000 0.00 0.00 0.00 2.92
3237 3538 8.893563 TTACCAAAATCCAATCCTACTTTGAT 57.106 30.769 0.00 0.00 0.00 2.57
3238 3539 7.093945 GCTTACCAAAATCCAATCCTACTTTGA 60.094 37.037 0.00 0.00 0.00 2.69
3239 3540 7.035612 GCTTACCAAAATCCAATCCTACTTTG 58.964 38.462 0.00 0.00 0.00 2.77
3240 3541 6.127730 CGCTTACCAAAATCCAATCCTACTTT 60.128 38.462 0.00 0.00 0.00 2.66
3241 3542 5.357032 CGCTTACCAAAATCCAATCCTACTT 59.643 40.000 0.00 0.00 0.00 2.24
3242 3543 4.881850 CGCTTACCAAAATCCAATCCTACT 59.118 41.667 0.00 0.00 0.00 2.57
3243 3544 4.638865 ACGCTTACCAAAATCCAATCCTAC 59.361 41.667 0.00 0.00 0.00 3.18
3244 3545 4.638421 CACGCTTACCAAAATCCAATCCTA 59.362 41.667 0.00 0.00 0.00 2.94
3245 3546 3.443681 CACGCTTACCAAAATCCAATCCT 59.556 43.478 0.00 0.00 0.00 3.24
3246 3547 3.769536 CACGCTTACCAAAATCCAATCC 58.230 45.455 0.00 0.00 0.00 3.01
3247 3548 3.179048 GCACGCTTACCAAAATCCAATC 58.821 45.455 0.00 0.00 0.00 2.67
3248 3549 2.560542 TGCACGCTTACCAAAATCCAAT 59.439 40.909 0.00 0.00 0.00 3.16
3249 3550 1.957177 TGCACGCTTACCAAAATCCAA 59.043 42.857 0.00 0.00 0.00 3.53
3250 3551 1.268352 GTGCACGCTTACCAAAATCCA 59.732 47.619 0.00 0.00 0.00 3.41
3251 3552 1.727857 CGTGCACGCTTACCAAAATCC 60.728 52.381 28.16 0.00 0.00 3.01
3252 3553 1.602191 CGTGCACGCTTACCAAAATC 58.398 50.000 28.16 0.00 0.00 2.17
3253 3554 3.765349 CGTGCACGCTTACCAAAAT 57.235 47.368 28.16 0.00 0.00 1.82
3264 3565 2.353269 TCCAATTAATAAGGCGTGCACG 59.647 45.455 34.01 34.01 43.27 5.34
3265 3566 4.364415 TTCCAATTAATAAGGCGTGCAC 57.636 40.909 6.82 6.82 0.00 4.57
3266 3567 4.642437 TCATTCCAATTAATAAGGCGTGCA 59.358 37.500 2.68 0.00 0.00 4.57
3267 3568 5.181690 TCATTCCAATTAATAAGGCGTGC 57.818 39.130 2.68 0.00 0.00 5.34
3268 3569 6.039270 TCCTTCATTCCAATTAATAAGGCGTG 59.961 38.462 6.17 5.86 33.57 5.34
3269 3570 6.126409 TCCTTCATTCCAATTAATAAGGCGT 58.874 36.000 6.17 0.00 33.57 5.68
3270 3571 6.633500 TCCTTCATTCCAATTAATAAGGCG 57.367 37.500 6.17 0.00 33.57 5.52
3271 3572 8.011844 ACTTCCTTCATTCCAATTAATAAGGC 57.988 34.615 6.17 0.00 33.57 4.35
3282 3583 9.990360 GGTTTAAATTTTACTTCCTTCATTCCA 57.010 29.630 0.00 0.00 0.00 3.53
3283 3584 9.990360 TGGTTTAAATTTTACTTCCTTCATTCC 57.010 29.630 0.00 0.00 0.00 3.01
3305 3606 9.887629 TGATGTAATTGCATGAATAATTTGGTT 57.112 25.926 14.16 0.00 0.00 3.67
3306 3607 9.887629 TTGATGTAATTGCATGAATAATTTGGT 57.112 25.926 14.16 0.00 0.00 3.67
3316 3617 9.667989 CGAGAATAATTTGATGTAATTGCATGA 57.332 29.630 14.16 2.22 0.00 3.07
3317 3618 8.908678 CCGAGAATAATTTGATGTAATTGCATG 58.091 33.333 14.16 0.00 0.00 4.06
3318 3619 8.849168 TCCGAGAATAATTTGATGTAATTGCAT 58.151 29.630 8.93 8.93 0.00 3.96
3319 3620 8.219546 TCCGAGAATAATTTGATGTAATTGCA 57.780 30.769 0.00 0.00 0.00 4.08
3320 3621 9.173939 CTTCCGAGAATAATTTGATGTAATTGC 57.826 33.333 0.00 0.00 0.00 3.56
3324 3625 8.600625 CGAACTTCCGAGAATAATTTGATGTAA 58.399 33.333 0.00 0.00 0.00 2.41
3325 3626 7.254319 GCGAACTTCCGAGAATAATTTGATGTA 60.254 37.037 0.00 0.00 0.00 2.29
3326 3627 6.456988 GCGAACTTCCGAGAATAATTTGATGT 60.457 38.462 0.00 0.00 0.00 3.06
3327 3628 5.904080 GCGAACTTCCGAGAATAATTTGATG 59.096 40.000 0.00 0.00 0.00 3.07
3328 3629 5.007724 GGCGAACTTCCGAGAATAATTTGAT 59.992 40.000 0.00 0.00 0.00 2.57
3329 3630 4.331717 GGCGAACTTCCGAGAATAATTTGA 59.668 41.667 0.00 0.00 0.00 2.69
3330 3631 4.495844 GGGCGAACTTCCGAGAATAATTTG 60.496 45.833 0.00 0.00 0.00 2.32
3331 3632 3.626217 GGGCGAACTTCCGAGAATAATTT 59.374 43.478 0.00 0.00 0.00 1.82
3332 3633 3.203716 GGGCGAACTTCCGAGAATAATT 58.796 45.455 0.00 0.00 0.00 1.40
3333 3634 2.169769 TGGGCGAACTTCCGAGAATAAT 59.830 45.455 0.00 0.00 0.00 1.28
3334 3635 1.551430 TGGGCGAACTTCCGAGAATAA 59.449 47.619 0.00 0.00 0.00 1.40
3335 3636 1.187974 TGGGCGAACTTCCGAGAATA 58.812 50.000 0.00 0.00 0.00 1.75
3336 3637 0.323629 TTGGGCGAACTTCCGAGAAT 59.676 50.000 0.00 0.00 0.00 2.40
3337 3638 0.320421 CTTGGGCGAACTTCCGAGAA 60.320 55.000 0.00 0.00 36.82 2.87
3338 3639 1.183030 TCTTGGGCGAACTTCCGAGA 61.183 55.000 0.00 0.00 40.31 4.04
3339 3640 0.320421 TTCTTGGGCGAACTTCCGAG 60.320 55.000 0.00 0.00 36.19 4.63
3340 3641 0.601841 GTTCTTGGGCGAACTTCCGA 60.602 55.000 0.00 0.00 40.03 4.55
3341 3642 1.574702 GGTTCTTGGGCGAACTTCCG 61.575 60.000 4.01 0.00 42.20 4.30
3342 3643 0.250770 AGGTTCTTGGGCGAACTTCC 60.251 55.000 4.01 0.00 42.20 3.46
3343 3644 2.467566 TAGGTTCTTGGGCGAACTTC 57.532 50.000 4.01 0.00 42.20 3.01
3344 3645 3.344515 GAATAGGTTCTTGGGCGAACTT 58.655 45.455 4.01 0.00 42.20 2.66
3345 3646 2.355818 GGAATAGGTTCTTGGGCGAACT 60.356 50.000 4.01 0.00 42.20 3.01
3346 3647 2.014857 GGAATAGGTTCTTGGGCGAAC 58.985 52.381 0.00 0.00 41.91 3.95
3347 3648 1.913419 AGGAATAGGTTCTTGGGCGAA 59.087 47.619 0.00 0.00 34.68 4.70
3348 3649 1.209504 CAGGAATAGGTTCTTGGGCGA 59.790 52.381 0.00 0.00 37.68 5.54
3349 3650 1.209504 TCAGGAATAGGTTCTTGGGCG 59.790 52.381 1.31 0.00 40.67 6.13
3350 3651 3.282885 CTTCAGGAATAGGTTCTTGGGC 58.717 50.000 1.31 0.00 40.67 5.36
3351 3652 4.576330 ACTTCAGGAATAGGTTCTTGGG 57.424 45.455 1.31 0.00 40.67 4.12
3352 3653 5.810095 AGAACTTCAGGAATAGGTTCTTGG 58.190 41.667 8.50 0.00 42.29 3.61
3355 3656 5.280727 CCCAAGAACTTCAGGAATAGGTTCT 60.281 44.000 8.50 8.50 45.39 3.01
3356 3657 4.944317 CCCAAGAACTTCAGGAATAGGTTC 59.056 45.833 0.00 0.00 37.23 3.62
3357 3658 4.601857 TCCCAAGAACTTCAGGAATAGGTT 59.398 41.667 2.65 0.00 0.00 3.50
3358 3659 4.175962 TCCCAAGAACTTCAGGAATAGGT 58.824 43.478 2.65 0.00 0.00 3.08
3359 3660 4.471386 TCTCCCAAGAACTTCAGGAATAGG 59.529 45.833 2.65 0.00 0.00 2.57
3360 3661 5.683876 TCTCCCAAGAACTTCAGGAATAG 57.316 43.478 2.65 0.00 0.00 1.73
3361 3662 5.571658 GCTTCTCCCAAGAACTTCAGGAATA 60.572 44.000 2.65 0.00 36.59 1.75
3362 3663 4.809007 GCTTCTCCCAAGAACTTCAGGAAT 60.809 45.833 2.65 0.00 36.59 3.01
3363 3664 3.496870 GCTTCTCCCAAGAACTTCAGGAA 60.497 47.826 2.65 0.00 36.59 3.36
3364 3665 2.039084 GCTTCTCCCAAGAACTTCAGGA 59.961 50.000 2.65 0.00 36.59 3.86
3365 3666 2.431454 GCTTCTCCCAAGAACTTCAGG 58.569 52.381 0.00 0.00 36.59 3.86
3366 3667 2.431454 GGCTTCTCCCAAGAACTTCAG 58.569 52.381 0.00 0.00 36.59 3.02
3367 3668 1.270839 CGGCTTCTCCCAAGAACTTCA 60.271 52.381 0.00 0.00 36.59 3.02
3368 3669 1.443802 CGGCTTCTCCCAAGAACTTC 58.556 55.000 0.00 0.00 36.59 3.01
3369 3670 0.606673 GCGGCTTCTCCCAAGAACTT 60.607 55.000 0.00 0.00 36.59 2.66
3370 3671 1.003233 GCGGCTTCTCCCAAGAACT 60.003 57.895 0.00 0.00 36.59 3.01
3371 3672 2.041115 GGCGGCTTCTCCCAAGAAC 61.041 63.158 0.00 0.00 36.59 3.01
3372 3673 2.351276 GGCGGCTTCTCCCAAGAA 59.649 61.111 0.00 0.00 39.22 2.52
3373 3674 4.082523 CGGCGGCTTCTCCCAAGA 62.083 66.667 7.61 0.00 0.00 3.02
3374 3675 4.082523 TCGGCGGCTTCTCCCAAG 62.083 66.667 7.21 0.00 0.00 3.61
3375 3676 4.388499 GTCGGCGGCTTCTCCCAA 62.388 66.667 3.23 0.00 0.00 4.12
3386 3687 3.709880 TTGCTCATACCCGTCGGCG 62.710 63.158 0.29 0.29 37.95 6.46
3387 3688 1.883084 CTTGCTCATACCCGTCGGC 60.883 63.158 5.50 0.00 0.00 5.54
3388 3689 1.883084 GCTTGCTCATACCCGTCGG 60.883 63.158 3.60 3.60 0.00 4.79
3389 3690 1.141881 AGCTTGCTCATACCCGTCG 59.858 57.895 0.00 0.00 0.00 5.12
3390 3691 0.175760 TCAGCTTGCTCATACCCGTC 59.824 55.000 0.00 0.00 0.00 4.79
3391 3692 0.613260 TTCAGCTTGCTCATACCCGT 59.387 50.000 0.00 0.00 0.00 5.28
3392 3693 1.009829 GTTCAGCTTGCTCATACCCG 58.990 55.000 0.00 0.00 0.00 5.28
3393 3694 2.113860 TGTTCAGCTTGCTCATACCC 57.886 50.000 0.00 0.00 0.00 3.69
3394 3695 2.286294 CGATGTTCAGCTTGCTCATACC 59.714 50.000 0.00 0.00 0.00 2.73
3395 3696 3.000724 GTCGATGTTCAGCTTGCTCATAC 59.999 47.826 0.00 0.00 0.00 2.39
3396 3697 3.190079 GTCGATGTTCAGCTTGCTCATA 58.810 45.455 0.00 0.00 0.00 2.15
3397 3698 2.005451 GTCGATGTTCAGCTTGCTCAT 58.995 47.619 0.00 0.00 0.00 2.90
3398 3699 1.432514 GTCGATGTTCAGCTTGCTCA 58.567 50.000 0.00 0.00 0.00 4.26
3399 3700 0.368227 CGTCGATGTTCAGCTTGCTC 59.632 55.000 0.00 0.00 0.00 4.26
3400 3701 1.630244 GCGTCGATGTTCAGCTTGCT 61.630 55.000 6.48 0.00 0.00 3.91
3401 3702 1.225854 GCGTCGATGTTCAGCTTGC 60.226 57.895 6.48 0.00 0.00 4.01
3402 3703 1.057822 CGCGTCGATGTTCAGCTTG 59.942 57.895 6.48 0.00 0.00 4.01
3403 3704 1.344942 GACGCGTCGATGTTCAGCTT 61.345 55.000 25.19 0.00 0.00 3.74
3404 3705 1.801913 GACGCGTCGATGTTCAGCT 60.802 57.895 25.19 0.00 0.00 4.24
3405 3706 1.413767 ATGACGCGTCGATGTTCAGC 61.414 55.000 31.88 7.53 0.00 4.26
3406 3707 1.822581 TATGACGCGTCGATGTTCAG 58.177 50.000 31.88 0.00 0.00 3.02
3407 3708 2.485266 ATATGACGCGTCGATGTTCA 57.515 45.000 31.88 15.52 0.00 3.18
3408 3709 3.836229 AAATATGACGCGTCGATGTTC 57.164 42.857 31.88 9.84 0.00 3.18
3409 3710 4.593597 AAAAATATGACGCGTCGATGTT 57.406 36.364 31.88 24.53 0.00 2.71
3410 3711 4.208460 CCTAAAAATATGACGCGTCGATGT 59.792 41.667 31.88 20.54 0.00 3.06
3411 3712 4.443063 TCCTAAAAATATGACGCGTCGATG 59.557 41.667 31.88 15.51 0.00 3.84
3412 3713 4.443394 GTCCTAAAAATATGACGCGTCGAT 59.557 41.667 31.88 26.06 0.00 3.59
3413 3714 3.792956 GTCCTAAAAATATGACGCGTCGA 59.207 43.478 31.88 23.38 0.00 4.20
3414 3715 3.360384 CGTCCTAAAAATATGACGCGTCG 60.360 47.826 31.88 15.31 43.20 5.12
3415 3716 3.060740 CCGTCCTAAAAATATGACGCGTC 60.061 47.826 31.66 31.66 46.73 5.19
3416 3717 2.861935 CCGTCCTAAAAATATGACGCGT 59.138 45.455 13.85 13.85 46.73 6.01
3417 3718 2.348218 GCCGTCCTAAAAATATGACGCG 60.348 50.000 3.53 3.53 46.73 6.01
3418 3719 2.610374 TGCCGTCCTAAAAATATGACGC 59.390 45.455 5.45 2.75 46.73 5.19
3420 3721 4.873827 TCAGTGCCGTCCTAAAAATATGAC 59.126 41.667 0.00 0.00 0.00 3.06
3421 3722 5.092554 TCAGTGCCGTCCTAAAAATATGA 57.907 39.130 0.00 0.00 0.00 2.15
3422 3723 5.751680 CATCAGTGCCGTCCTAAAAATATG 58.248 41.667 0.00 0.00 0.00 1.78
3423 3724 4.275936 GCATCAGTGCCGTCCTAAAAATAT 59.724 41.667 0.00 0.00 45.76 1.28
3424 3725 3.625764 GCATCAGTGCCGTCCTAAAAATA 59.374 43.478 0.00 0.00 45.76 1.40
3425 3726 2.423538 GCATCAGTGCCGTCCTAAAAAT 59.576 45.455 0.00 0.00 45.76 1.82
3426 3727 1.810151 GCATCAGTGCCGTCCTAAAAA 59.190 47.619 0.00 0.00 45.76 1.94
3427 3728 1.448985 GCATCAGTGCCGTCCTAAAA 58.551 50.000 0.00 0.00 45.76 1.52
3428 3729 3.153024 GCATCAGTGCCGTCCTAAA 57.847 52.632 0.00 0.00 45.76 1.85
3429 3730 4.932789 GCATCAGTGCCGTCCTAA 57.067 55.556 0.00 0.00 45.76 2.69
3438 3739 3.416119 CCAACAGCAATAGCATCAGTG 57.584 47.619 0.00 0.00 45.49 3.66


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

AutoCloner maintained by Alex Coulton.