Multiple sequence alignment - TraesCS4B01G026200

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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 TraesCS4B01G026200 chr4B 100.000 5085 0 0 1 5085 19739974 19745058 0.000000e+00 9391.0
1 TraesCS4B01G026200 chr4A 93.688 3501 136 36 8 3446 593353587 593350110 0.000000e+00 5162.0
2 TraesCS4B01G026200 chr4A 90.921 771 38 14 3527 4269 593350112 593349346 0.000000e+00 1007.0
3 TraesCS4B01G026200 chr4A 97.849 93 1 1 3441 3532 179963127 179963035 5.270000e-35 159.0
4 TraesCS4B01G026200 chr4D 93.705 3161 116 31 339 3446 10254233 10257363 0.000000e+00 4658.0
5 TraesCS4B01G026200 chr4D 91.166 1347 79 14 3527 4840 10257361 10258700 0.000000e+00 1792.0
6 TraesCS4B01G026200 chr4D 88.814 295 23 4 1 295 10253937 10254221 2.250000e-93 353.0
7 TraesCS4B01G026200 chr4D 82.716 243 32 5 4841 5083 10258743 10258975 1.860000e-49 207.0
8 TraesCS4B01G026200 chr4D 98.913 92 1 0 3439 3530 478669020 478668929 1.130000e-36 165.0
9 TraesCS4B01G026200 chr4D 97.826 92 2 0 3444 3535 10274495 10274404 5.270000e-35 159.0
10 TraesCS4B01G026200 chr4D 91.525 59 3 2 4301 4357 491530502 491530560 4.220000e-11 80.5
11 TraesCS4B01G026200 chr1B 82.558 516 36 23 22 498 429583705 429584205 6.130000e-109 405.0
12 TraesCS4B01G026200 chr1D 81.961 510 51 22 22 498 317427037 317427538 1.330000e-105 394.0
13 TraesCS4B01G026200 chr1A 81.925 509 53 21 22 498 398448151 398448652 1.330000e-105 394.0
14 TraesCS4B01G026200 chr2D 81.414 495 56 19 18 498 566987105 566987577 6.220000e-99 372.0
15 TraesCS4B01G026200 chr7B 78.598 528 55 27 18 498 141798487 141799003 3.850000e-76 296.0
16 TraesCS4B01G026200 chr7B 93.333 105 4 3 3438 3540 388716515 388716412 8.820000e-33 152.0
17 TraesCS4B01G026200 chr7B 90.769 65 5 1 4297 4360 115389160 115389096 9.070000e-13 86.1
18 TraesCS4B01G026200 chr7D 78.652 534 43 32 18 498 175918900 175919415 6.440000e-74 289.0
19 TraesCS4B01G026200 chr2B 78.788 495 55 20 18 498 679896333 679896791 2.320000e-73 287.0
20 TraesCS4B01G026200 chr3A 78.571 532 43 24 21 499 498246549 498247062 8.330000e-73 285.0
21 TraesCS4B01G026200 chr5B 76.749 529 59 28 18 498 562979609 562979097 2.370000e-58 237.0
22 TraesCS4B01G026200 chr5B 97.826 92 2 0 3442 3533 432174699 432174790 5.270000e-35 159.0
23 TraesCS4B01G026200 chr5B 92.035 113 8 1 1 113 61802121 61802010 1.900000e-34 158.0
24 TraesCS4B01G026200 chr5B 95.918 98 2 2 3442 3538 323861175 323861079 1.900000e-34 158.0
25 TraesCS4B01G026200 chr5B 83.200 125 12 7 175 299 157594693 157594808 6.960000e-19 106.0
26 TraesCS4B01G026200 chr5B 98.077 52 0 1 495 546 61800681 61800631 7.010000e-14 89.8
27 TraesCS4B01G026200 chr5B 92.308 52 1 2 495 546 62306199 62306247 2.540000e-08 71.3
28 TraesCS4B01G026200 chr6D 95.918 98 2 2 3444 3540 248004087 248003991 1.900000e-34 158.0
29 TraesCS4B01G026200 chr6D 77.222 180 22 15 2348 2524 286630240 286630077 2.520000e-13 87.9
30 TraesCS4B01G026200 chr5D 95.876 97 4 0 3443 3539 456610347 456610443 1.900000e-34 158.0
31 TraesCS4B01G026200 chr5A 94.118 102 5 1 3437 3537 6625977 6625876 2.450000e-33 154.0
32 TraesCS4B01G026200 chr7A 86.957 92 10 2 4712 4802 240743026 240743116 9.010000e-18 102.0
33 TraesCS4B01G026200 chr3B 79.412 170 14 7 21 177 489361275 489361436 3.240000e-17 100.0
34 TraesCS4B01G026200 chr3B 89.231 65 5 2 4297 4360 41644949 41644886 4.220000e-11 80.5
35 TraesCS4B01G026200 chr3B 92.000 50 3 1 2344 2393 27086174 27086222 9.140000e-08 69.4
36 TraesCS4B01G026200 chr3B 100.000 31 0 0 2363 2393 27106173 27106203 1.980000e-04 58.4
37 TraesCS4B01G026200 chr6A 77.297 185 24 15 2342 2524 408041414 408041246 5.420000e-15 93.5
38 TraesCS4B01G026200 chr6A 93.333 60 4 0 4301 4360 50040002 50039943 7.010000e-14 89.8
39 TraesCS4B01G026200 chr2A 86.207 87 10 2 4712 4797 584344730 584344815 5.420000e-15 93.5
40 TraesCS4B01G026200 chr2A 84.314 102 9 4 198 299 706751051 706751145 5.420000e-15 93.5
41 TraesCS4B01G026200 chr6B 95.455 44 2 0 2481 2524 447114898 447114855 2.540000e-08 71.3


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 TraesCS4B01G026200 chr4B 19739974 19745058 5084 False 9391.0 9391 100.00000 1 5085 1 chr4B.!!$F1 5084
1 TraesCS4B01G026200 chr4A 593349346 593353587 4241 True 3084.5 5162 92.30450 8 4269 2 chr4A.!!$R2 4261
2 TraesCS4B01G026200 chr4D 10253937 10258975 5038 False 1752.5 4658 89.10025 1 5083 4 chr4D.!!$F2 5082
3 TraesCS4B01G026200 chr1B 429583705 429584205 500 False 405.0 405 82.55800 22 498 1 chr1B.!!$F1 476
4 TraesCS4B01G026200 chr1D 317427037 317427538 501 False 394.0 394 81.96100 22 498 1 chr1D.!!$F1 476
5 TraesCS4B01G026200 chr1A 398448151 398448652 501 False 394.0 394 81.92500 22 498 1 chr1A.!!$F1 476
6 TraesCS4B01G026200 chr7B 141798487 141799003 516 False 296.0 296 78.59800 18 498 1 chr7B.!!$F1 480
7 TraesCS4B01G026200 chr7D 175918900 175919415 515 False 289.0 289 78.65200 18 498 1 chr7D.!!$F1 480
8 TraesCS4B01G026200 chr3A 498246549 498247062 513 False 285.0 285 78.57100 21 499 1 chr3A.!!$F1 478
9 TraesCS4B01G026200 chr5B 562979097 562979609 512 True 237.0 237 76.74900 18 498 1 chr5B.!!$R2 480

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
78 94 0.620556 TGAGGTGAGCTTCCCATTCC 59.379 55.0 5.51 0.0 0.00 3.01 F
1103 1185 0.598065 GTGTGTGAATGGCTCAACCC 59.402 55.0 0.00 0.0 35.22 4.11 F
1984 2104 0.994247 ATGGCCCATGTGAGAGTTCA 59.006 50.0 0.00 0.0 0.00 3.18 F
3620 3753 0.109597 GCGTTTTCTCGGTAGACGGA 60.110 55.0 0.00 0.0 44.45 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1962 2082 0.107508 ACTCTCACATGGGCCATTCG 60.108 55.000 18.46 11.08 0.00 3.34 R
2160 2283 1.270094 CGTTGACAAGTGGCAGTCCTA 60.270 52.381 0.00 0.00 32.66 2.94 R
3743 3880 0.458543 CTCCGGTCGACATTGTCCAG 60.459 60.000 18.91 0.00 0.00 3.86 R
4614 4782 0.668096 TACTGTTAGTGCGGGCGTTG 60.668 55.000 0.00 0.00 0.00 4.10 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
77 93 1.743996 GTGAGGTGAGCTTCCCATTC 58.256 55.000 5.51 0.00 0.00 2.67
78 94 0.620556 TGAGGTGAGCTTCCCATTCC 59.379 55.000 5.51 0.00 0.00 3.01
214 246 4.032900 GTCCTGTGAACGCATACACATTAG 59.967 45.833 0.00 0.00 44.21 1.73
215 247 4.081917 TCCTGTGAACGCATACACATTAGA 60.082 41.667 0.00 0.00 44.21 2.10
244 276 3.415457 TCCAGTGCATACATGAACACA 57.585 42.857 0.00 0.00 38.87 3.72
284 316 5.733620 ATGATTTGTCTGATTGTTTGCCT 57.266 34.783 0.00 0.00 0.00 4.75
334 394 9.224267 CATATTCTTCTTTGAACTTCTCAAGGA 57.776 33.333 0.00 0.00 45.57 3.36
357 417 8.371699 AGGAATGTATTATGTAGGCTTCTCTTC 58.628 37.037 0.00 0.00 0.00 2.87
358 418 8.371699 GGAATGTATTATGTAGGCTTCTCTTCT 58.628 37.037 0.00 0.00 0.00 2.85
359 419 9.202273 GAATGTATTATGTAGGCTTCTCTTCTG 57.798 37.037 0.00 0.00 0.00 3.02
360 420 6.516718 TGTATTATGTAGGCTTCTCTTCTGC 58.483 40.000 0.00 0.00 0.00 4.26
363 423 3.988976 TGTAGGCTTCTCTTCTGCAAT 57.011 42.857 0.00 0.00 0.00 3.56
448 523 9.590451 AATTAATTAGAAAGTTGGCATGTCATG 57.410 29.630 0.00 8.56 0.00 3.07
556 637 4.415881 GGTTTGAATTGAACCCTGGTTT 57.584 40.909 2.55 0.00 40.52 3.27
630 711 3.562141 TGCGCTGCAAAACTTCTAAGTAA 59.438 39.130 9.73 0.00 34.98 2.24
633 714 5.629435 GCGCTGCAAAACTTCTAAGTAATTT 59.371 36.000 0.00 0.00 38.57 1.82
794 875 9.639601 AAGAAATTTTAAAGTAGCTAATGCACC 57.360 29.630 0.00 0.00 42.74 5.01
822 903 4.216472 CAGTCTCAGGGAGGTTTTAAAAGC 59.784 45.833 19.94 19.94 36.69 3.51
849 930 2.122167 AAACAACCGAGGCGCCAAA 61.122 52.632 31.54 0.00 0.00 3.28
875 956 3.173151 TCTCTTCTATCTGTTGGCACCA 58.827 45.455 0.00 0.00 0.00 4.17
915 996 8.788325 ATTAAGCTAGTTTGATAAGTTTCCGT 57.212 30.769 1.54 0.00 0.00 4.69
966 1047 8.103935 ACTGATAAGACTGTCGATGATCCTATA 58.896 37.037 1.52 0.00 0.00 1.31
998 1080 8.311109 GGGACAAATTTCTTGGTTACATTATGT 58.689 33.333 2.58 2.58 0.00 2.29
1024 1106 6.179906 TCTCAATGTCTTCAACTCTCCTTT 57.820 37.500 0.00 0.00 0.00 3.11
1029 1111 3.118261 TGTCTTCAACTCTCCTTTGCTGT 60.118 43.478 0.00 0.00 0.00 4.40
1073 1155 8.999431 TCCTTTTGAGAGTGTGTTTTATGTATC 58.001 33.333 0.00 0.00 0.00 2.24
1103 1185 0.598065 GTGTGTGAATGGCTCAACCC 59.402 55.000 0.00 0.00 35.22 4.11
1336 1428 9.793252 CAAAATATTATAGACCAATGCATAGGC 57.207 33.333 0.00 0.00 41.68 3.93
1392 1486 3.022287 CACCGTGTGCCTGTTGAC 58.978 61.111 0.00 0.00 0.00 3.18
1394 1488 1.078072 ACCGTGTGCCTGTTGACAA 60.078 52.632 0.00 0.00 0.00 3.18
1414 1508 4.022849 ACAACCTATCTTTTGCAGCAAGTC 60.023 41.667 8.12 0.00 0.00 3.01
1546 1640 5.241403 TCTCTAAAAGCAACCAATCTGGA 57.759 39.130 0.00 0.00 40.96 3.86
1711 1808 2.640826 TGGGATTTACGGTGAGGTTTCT 59.359 45.455 0.00 0.00 0.00 2.52
1740 1837 1.915141 ATGTTGCTTGGCTACAGCTT 58.085 45.000 11.58 0.00 45.67 3.74
1822 1927 6.774656 AGAATCCAAAGCAAACCCATCTATAG 59.225 38.462 0.00 0.00 0.00 1.31
1825 1930 4.580580 CCAAAGCAAACCCATCTATAGGTC 59.419 45.833 0.00 0.00 34.45 3.85
1828 1933 3.392616 AGCAAACCCATCTATAGGTCCTG 59.607 47.826 0.00 0.00 34.45 3.86
1843 1963 2.223735 GGTCCTGTTATGCTCGATTCGA 60.224 50.000 8.70 8.70 0.00 3.71
1904 2024 7.538678 GTGTCAATCACTCAATTGAATGTAACC 59.461 37.037 15.89 3.79 44.83 2.85
1927 2047 8.721133 ACCTGTTTAGAAAATCCTACCAATTT 57.279 30.769 0.00 0.00 0.00 1.82
1962 2082 7.565323 AAATCTGCTCTATCCAAATCTTGTC 57.435 36.000 0.00 0.00 0.00 3.18
1983 2103 2.019984 GAATGGCCCATGTGAGAGTTC 58.980 52.381 0.00 0.00 0.00 3.01
1984 2104 0.994247 ATGGCCCATGTGAGAGTTCA 59.006 50.000 0.00 0.00 0.00 3.18
2033 2153 4.184629 CGAAGGAATAGTGGTCTTGAAGG 58.815 47.826 0.00 0.00 0.00 3.46
2058 2178 8.092687 GGTGAAACTTTAACTAGATACTCACCA 58.907 37.037 0.00 0.00 40.50 4.17
2077 2197 9.381038 ACTCACCATTATAGTAATATCCTGTGT 57.619 33.333 0.00 0.00 0.00 3.72
2130 2253 6.765036 GTCCATGATGTATGTTCTGTTGATCT 59.235 38.462 0.00 0.00 34.87 2.75
2160 2283 4.782019 ATTCGTGTGCATGTATGGTTTT 57.218 36.364 0.00 0.00 0.00 2.43
2394 2517 6.587206 TCAAATGATGCATAGTTTGACCAA 57.413 33.333 24.22 10.85 36.11 3.67
2397 2520 8.095792 TCAAATGATGCATAGTTTGACCAAATT 58.904 29.630 24.22 5.91 36.11 1.82
2406 2529 7.542130 GCATAGTTTGACCAAATTTGTAGGAAG 59.458 37.037 16.73 3.16 32.36 3.46
2424 2547 5.690865 AGGAAGAACCATCAACAACTACAA 58.309 37.500 0.00 0.00 42.04 2.41
2432 2555 9.959749 GAACCATCAACAACTACAATCTTAAAA 57.040 29.630 0.00 0.00 0.00 1.52
2697 2820 1.195448 CAGCTGCGAGTTGGTAAGTTG 59.805 52.381 0.00 0.00 0.00 3.16
2711 2834 8.246180 AGTTGGTAAGTTGCATATTTCAGATTG 58.754 33.333 0.00 0.00 0.00 2.67
2752 2875 1.151668 AGTGAGATGCAAGAACACGC 58.848 50.000 0.00 0.00 36.71 5.34
3076 3207 8.519799 AATTTTGTGACCCTAACAGGTATATG 57.480 34.615 0.00 0.00 41.42 1.78
3106 3237 4.871933 AATGACCAATTTTCGCTTTCCT 57.128 36.364 0.00 0.00 0.00 3.36
3225 3356 2.227388 AGCATTCACCTTTCAAAGCTCG 59.773 45.455 0.00 0.00 0.00 5.03
3226 3357 2.030805 GCATTCACCTTTCAAAGCTCGT 60.031 45.455 0.00 0.00 0.00 4.18
3228 3359 4.320202 GCATTCACCTTTCAAAGCTCGTAA 60.320 41.667 0.00 0.00 0.00 3.18
3229 3360 5.385617 CATTCACCTTTCAAAGCTCGTAAG 58.614 41.667 0.00 0.00 0.00 2.34
3294 3427 8.477984 TTCGTATACTAAAACAATGTACCACC 57.522 34.615 0.56 0.00 0.00 4.61
3409 3542 2.683362 CGGTAATTTCTGGGCTCCTTTC 59.317 50.000 0.00 0.00 0.00 2.62
3417 3550 6.636454 TTTCTGGGCTCCTTTCTAATTCTA 57.364 37.500 0.00 0.00 0.00 2.10
3449 3582 9.708092 ATCAGTTAGAACTAAAAGTTGTACTCC 57.292 33.333 0.00 0.00 38.80 3.85
3450 3583 8.146412 TCAGTTAGAACTAAAAGTTGTACTCCC 58.854 37.037 0.00 0.00 38.80 4.30
3451 3584 8.148999 CAGTTAGAACTAAAAGTTGTACTCCCT 58.851 37.037 0.00 0.00 38.80 4.20
3452 3585 8.366401 AGTTAGAACTAAAAGTTGTACTCCCTC 58.634 37.037 0.00 0.00 38.80 4.30
3453 3586 6.997942 AGAACTAAAAGTTGTACTCCCTCT 57.002 37.500 0.00 0.00 38.80 3.69
3454 3587 6.760291 AGAACTAAAAGTTGTACTCCCTCTG 58.240 40.000 0.00 0.00 38.80 3.35
3455 3588 6.326843 AGAACTAAAAGTTGTACTCCCTCTGT 59.673 38.462 0.00 0.00 38.80 3.41
3456 3589 7.508296 AGAACTAAAAGTTGTACTCCCTCTGTA 59.492 37.037 0.00 0.00 38.80 2.74
3457 3590 7.607615 ACTAAAAGTTGTACTCCCTCTGTAA 57.392 36.000 0.00 0.00 0.00 2.41
3458 3591 8.026396 ACTAAAAGTTGTACTCCCTCTGTAAA 57.974 34.615 0.00 0.00 0.00 2.01
3459 3592 7.930325 ACTAAAAGTTGTACTCCCTCTGTAAAC 59.070 37.037 0.00 0.00 0.00 2.01
3460 3593 6.496144 AAAGTTGTACTCCCTCTGTAAACT 57.504 37.500 0.00 0.00 0.00 2.66
3461 3594 7.607615 AAAGTTGTACTCCCTCTGTAAACTA 57.392 36.000 0.00 0.00 0.00 2.24
3462 3595 7.607615 AAGTTGTACTCCCTCTGTAAACTAA 57.392 36.000 0.00 0.00 0.00 2.24
3463 3596 7.793948 AGTTGTACTCCCTCTGTAAACTAAT 57.206 36.000 0.00 0.00 0.00 1.73
3464 3597 8.890410 AGTTGTACTCCCTCTGTAAACTAATA 57.110 34.615 0.00 0.00 0.00 0.98
3465 3598 9.490083 AGTTGTACTCCCTCTGTAAACTAATAT 57.510 33.333 0.00 0.00 0.00 1.28
3471 3604 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
3472 3605 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
3473 3606 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
3474 3607 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
3475 3608 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
3490 3623 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
3491 3624 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
3505 3638 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
3506 3639 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
3507 3640 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
3508 3641 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
3520 3653 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
3521 3654 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
3522 3655 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
3523 3656 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
3524 3657 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
3525 3658 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
3526 3659 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
3527 3660 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
3528 3661 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
3563 3696 1.073284 ACACTGAAACTATGCGGGGTT 59.927 47.619 0.00 0.00 0.00 4.11
3611 3744 0.319555 TCTGGGACTGCGTTTTCTCG 60.320 55.000 0.00 0.00 0.00 4.04
3620 3753 0.109597 GCGTTTTCTCGGTAGACGGA 60.110 55.000 0.00 0.00 44.45 4.69
3627 3760 2.492012 TCTCGGTAGACGGAGCTTATC 58.508 52.381 11.32 0.00 44.45 1.75
3660 3793 1.447838 CGCTAACCGCTCACATGGT 60.448 57.895 0.00 0.00 41.20 3.55
3661 3794 1.695893 CGCTAACCGCTCACATGGTG 61.696 60.000 0.00 0.00 38.82 4.17
3702 3839 3.508402 ACGATTTAAAACCGGGCAAATCT 59.492 39.130 20.44 11.18 35.96 2.40
3743 3880 1.400846 TCTGATACGACGGCAAGACTC 59.599 52.381 0.00 0.00 0.00 3.36
3854 3991 1.818060 GCACCATCATAAGCAACACCA 59.182 47.619 0.00 0.00 0.00 4.17
3911 4048 4.389576 CGAACAACGCAGCAGGGC 62.390 66.667 0.00 0.00 34.51 5.19
3952 4089 1.290324 GTGGCAGCTCGAAGACAGA 59.710 57.895 0.00 0.00 0.00 3.41
3979 4116 8.020819 CGGTTTTAAGATTTGATTTGCTGTAGA 58.979 33.333 0.00 0.00 0.00 2.59
3980 4117 9.860898 GGTTTTAAGATTTGATTTGCTGTAGAT 57.139 29.630 0.00 0.00 0.00 1.98
4049 4199 5.415701 CAGGTGAATTGTATGGTTGCTTACT 59.584 40.000 0.00 0.00 0.00 2.24
4053 4203 6.586082 GTGAATTGTATGGTTGCTTACTTTGG 59.414 38.462 0.00 0.00 0.00 3.28
4126 4276 3.611433 GCTTGGTAAATGCGAGCTG 57.389 52.632 0.00 0.00 0.00 4.24
4157 4307 1.450905 CGACGTCGACTGTTTTTCCTC 59.549 52.381 33.35 0.00 43.02 3.71
4172 4323 7.001674 TGTTTTTCCTCTGGTTCTTTGCTATA 58.998 34.615 0.00 0.00 0.00 1.31
4251 4414 1.020437 GAGCAAGGCAGCCACTATTC 58.980 55.000 15.80 0.52 34.23 1.75
4287 4453 2.949644 GGTTTATGTCATAAGCCGCCTT 59.050 45.455 19.15 0.00 36.58 4.35
4318 4484 7.195374 AGTTTCTTTTAAGGGAAAGCCTTTT 57.805 32.000 0.00 0.00 36.73 2.27
4403 4570 0.830648 TCAGACGGCTAGAATTGGGG 59.169 55.000 0.00 0.00 0.00 4.96
4422 4589 1.007118 GGGGTTCTCCATCCCAAACAT 59.993 52.381 2.64 0.00 45.06 2.71
4431 4598 5.429762 TCTCCATCCCAAACATAATCAGACT 59.570 40.000 0.00 0.00 0.00 3.24
4539 4707 0.254747 CCCTTATTCGCTTGGGGTCA 59.745 55.000 0.00 0.00 36.15 4.02
4549 4717 1.272490 GCTTGGGGTCAGTTAAAAGCC 59.728 52.381 0.00 0.00 35.19 4.35
4594 4762 3.732212 CGAGAGATGGTGCATTTGGATA 58.268 45.455 0.00 0.00 0.00 2.59
4625 4793 0.096454 GAGATAAACAACGCCCGCAC 59.904 55.000 0.00 0.00 0.00 5.34
4630 4798 1.096386 AAACAACGCCCGCACTAACA 61.096 50.000 0.00 0.00 0.00 2.41
4649 4817 4.392921 ACAGTATCCATTTCTGAGTCCG 57.607 45.455 0.00 0.00 33.93 4.79
4650 4818 4.023980 ACAGTATCCATTTCTGAGTCCGA 58.976 43.478 0.00 0.00 33.93 4.55
4667 4835 2.163509 CCGAGATCATCTACACCCGAT 58.836 52.381 0.00 0.00 0.00 4.18
4678 4846 0.245539 ACACCCGATGAACAGTACCG 59.754 55.000 0.00 0.00 0.00 4.02
4682 4850 2.268298 CCCGATGAACAGTACCGAAAG 58.732 52.381 0.00 0.00 0.00 2.62
4685 4853 3.991773 CCGATGAACAGTACCGAAAGAAA 59.008 43.478 0.00 0.00 0.00 2.52
4688 4856 5.389516 CGATGAACAGTACCGAAAGAAAAGG 60.390 44.000 0.00 0.00 0.00 3.11
4689 4857 3.562557 TGAACAGTACCGAAAGAAAAGGC 59.437 43.478 0.00 0.00 0.00 4.35
4692 4860 3.949113 ACAGTACCGAAAGAAAAGGCAAA 59.051 39.130 0.00 0.00 0.00 3.68
4743 4913 3.994392 GGAAGATGTTTTAGTGCGTGAGA 59.006 43.478 0.00 0.00 0.00 3.27
4778 4948 1.154016 CGCGTTCGGACATCTGAGT 60.154 57.895 0.00 0.00 32.05 3.41
4832 5002 7.297936 TGAGTTAACTATTTCACAGACCTCA 57.702 36.000 8.42 0.00 0.00 3.86
4861 5073 2.125912 GCACGGATCTCACGCACT 60.126 61.111 0.00 0.00 34.00 4.40
4864 5076 0.388520 CACGGATCTCACGCACTGAA 60.389 55.000 0.00 0.00 34.00 3.02
4866 5078 1.066858 ACGGATCTCACGCACTGAAAT 60.067 47.619 0.00 0.00 34.00 2.17
4877 5089 4.333649 CACGCACTGAAATATCTTCCATGT 59.666 41.667 0.00 0.00 0.00 3.21
4878 5090 5.523552 CACGCACTGAAATATCTTCCATGTA 59.476 40.000 0.00 0.00 0.00 2.29
4879 5091 6.037062 CACGCACTGAAATATCTTCCATGTAA 59.963 38.462 0.00 0.00 0.00 2.41
4880 5092 6.037172 ACGCACTGAAATATCTTCCATGTAAC 59.963 38.462 0.00 0.00 0.00 2.50
4881 5093 6.511767 CGCACTGAAATATCTTCCATGTAACC 60.512 42.308 0.00 0.00 0.00 2.85
4885 5097 9.308000 ACTGAAATATCTTCCATGTAACCAAAA 57.692 29.630 0.00 0.00 0.00 2.44
4947 5159 8.806429 TTCTTCTGATTTTATAGTTCATGGCA 57.194 30.769 0.00 0.00 0.00 4.92
4959 5171 0.468648 TCATGGCAGGAGCAGATGAG 59.531 55.000 0.00 0.00 44.61 2.90
4997 5209 0.866483 GCTCTACCGCGCTAACTGTC 60.866 60.000 5.56 0.00 0.00 3.51
5001 5213 2.094390 TCTACCGCGCTAACTGTCATTT 60.094 45.455 5.56 0.00 0.00 2.32
5008 5220 3.242543 GCGCTAACTGTCATTTGATCCAG 60.243 47.826 0.00 0.00 0.00 3.86
5010 5222 3.944015 GCTAACTGTCATTTGATCCAGCT 59.056 43.478 0.00 0.00 0.00 4.24
5013 5225 2.490903 ACTGTCATTTGATCCAGCTTGC 59.509 45.455 0.00 0.00 0.00 4.01
5027 5239 3.984186 CTTGCGAGGGGGAGGGAGA 62.984 68.421 0.00 0.00 0.00 3.71
5028 5240 3.984186 TTGCGAGGGGGAGGGAGAG 62.984 68.421 0.00 0.00 0.00 3.20
5040 5252 2.596851 GGGAGAGGCACTGCTTCCA 61.597 63.158 9.43 0.00 41.55 3.53
5083 5295 5.237815 CAGCTGATTACAACAACTCCTACA 58.762 41.667 8.42 0.00 0.00 2.74
5084 5296 5.349817 CAGCTGATTACAACAACTCCTACAG 59.650 44.000 8.42 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 94 2.311841 ACCCTAAATCAGAAACTGGGGG 59.688 50.000 12.20 0.00 33.97 5.40
214 246 5.756195 TGTATGCACTGGATAGCAAAATC 57.244 39.130 0.00 0.00 44.88 2.17
215 247 5.829391 TCATGTATGCACTGGATAGCAAAAT 59.171 36.000 0.00 0.00 44.88 1.82
284 316 6.090129 GCGGCATTGTTAATTTGTTAAGAGA 58.910 36.000 0.00 0.00 0.00 3.10
334 394 7.659390 GCAGAAGAGAAGCCTACATAATACATT 59.341 37.037 0.00 0.00 0.00 2.71
358 418 9.844790 CAGACATACTAAAATTCTCAAATTGCA 57.155 29.630 0.00 0.00 35.27 4.08
359 419 9.846248 ACAGACATACTAAAATTCTCAAATTGC 57.154 29.630 0.00 0.00 35.27 3.56
434 509 3.132646 ACAACAAACATGACATGCCAACT 59.867 39.130 15.49 0.00 0.00 3.16
448 523 8.626526 TCCACCTAAAGAAATTCTACAACAAAC 58.373 33.333 0.00 0.00 0.00 2.93
556 637 0.904865 CCTCCAGGTGTGAGGCTACA 60.905 60.000 0.00 0.00 42.75 2.74
630 711 1.068434 CACACAGGGGCGAAAACAAAT 59.932 47.619 0.00 0.00 0.00 2.32
633 714 0.817634 CTCACACAGGGGCGAAAACA 60.818 55.000 0.00 0.00 0.00 2.83
794 875 0.969894 ACCTCCCTGAGACTGAAACG 59.030 55.000 0.00 0.00 0.00 3.60
822 903 2.350772 GCCTCGGTTGTTTGATGTTCAG 60.351 50.000 0.00 0.00 0.00 3.02
875 956 8.893563 ACTAGCTTAATAGATAGAGCCTGAAT 57.106 34.615 4.62 0.00 41.82 2.57
915 996 4.223556 TGAGTTTGGGTCAAAGTACACA 57.776 40.909 0.00 0.00 37.16 3.72
966 1047 2.905736 CCAAGAAATTTGTCCCACCCAT 59.094 45.455 0.00 0.00 0.00 4.00
998 1080 5.483231 AGGAGAGTTGAAGACATTGAGATGA 59.517 40.000 0.00 0.00 36.73 2.92
1024 1106 0.746063 CAGAAAGTGGCCAAACAGCA 59.254 50.000 7.24 0.00 0.00 4.41
1103 1185 3.198863 GCAGTTGCAAGAATGACAGAG 57.801 47.619 0.00 0.00 41.59 3.35
1133 1215 4.022068 GCTTCCCAAAATCTGATTGTGTGA 60.022 41.667 17.10 10.09 0.00 3.58
1336 1428 6.893958 ATGTAACTATGTCTTGAAGCGAAG 57.106 37.500 0.00 0.00 0.00 3.79
1392 1486 4.022935 TGACTTGCTGCAAAAGATAGGTTG 60.023 41.667 16.74 3.14 0.00 3.77
1394 1488 3.754965 TGACTTGCTGCAAAAGATAGGT 58.245 40.909 16.74 8.61 0.00 3.08
1414 1508 2.222027 GGGGTTATCTCAAGGCGATTG 58.778 52.381 0.00 0.00 40.52 2.67
1468 1562 4.654091 AACATCAAAAAGGCGGATATGG 57.346 40.909 0.00 0.00 0.00 2.74
1546 1640 2.358322 AGGAACGGAAACATGTTGGT 57.642 45.000 12.82 8.05 0.00 3.67
1711 1808 7.053498 TGTAGCCAAGCAACATAATAAGATGA 58.947 34.615 0.00 0.00 0.00 2.92
1754 1851 0.250467 TGAGAACAGCAGGTGAAGCC 60.250 55.000 6.61 0.00 37.58 4.35
1755 1852 1.597742 TTGAGAACAGCAGGTGAAGC 58.402 50.000 6.61 0.00 0.00 3.86
1756 1853 5.947228 TTATTTGAGAACAGCAGGTGAAG 57.053 39.130 6.61 0.00 0.00 3.02
1757 1854 6.899393 AATTATTTGAGAACAGCAGGTGAA 57.101 33.333 6.61 0.00 0.00 3.18
1759 1856 9.643693 AAAATAATTATTTGAGAACAGCAGGTG 57.356 29.630 21.23 0.00 36.14 4.00
1822 1927 2.128035 CGAATCGAGCATAACAGGACC 58.872 52.381 0.00 0.00 0.00 4.46
1825 1930 3.183172 CACATCGAATCGAGCATAACAGG 59.817 47.826 12.00 0.00 39.91 4.00
1828 1933 3.123804 ACCACATCGAATCGAGCATAAC 58.876 45.455 12.00 0.00 39.91 1.89
1862 1982 5.621197 TTGACACTTAATCCCGTTTGATG 57.379 39.130 0.00 0.00 0.00 3.07
1959 2079 0.392863 CTCACATGGGCCATTCGACA 60.393 55.000 18.46 0.00 0.00 4.35
1962 2082 0.107508 ACTCTCACATGGGCCATTCG 60.108 55.000 18.46 11.08 0.00 3.34
2033 2153 9.654663 ATGGTGAGTATCTAGTTAAAGTTTCAC 57.345 33.333 0.00 0.00 34.92 3.18
2080 2200 9.883142 ACAGGAAAATCATTAACAAAAAGTCAA 57.117 25.926 0.00 0.00 0.00 3.18
2081 2201 9.528018 GACAGGAAAATCATTAACAAAAAGTCA 57.472 29.630 0.00 0.00 0.00 3.41
2082 2202 8.978539 GGACAGGAAAATCATTAACAAAAAGTC 58.021 33.333 0.00 0.00 0.00 3.01
2083 2203 8.482128 TGGACAGGAAAATCATTAACAAAAAGT 58.518 29.630 0.00 0.00 0.00 2.66
2084 2204 8.885494 TGGACAGGAAAATCATTAACAAAAAG 57.115 30.769 0.00 0.00 0.00 2.27
2130 2253 5.878332 ACATGCACACGAATAAAGATTCA 57.122 34.783 0.00 0.00 41.48 2.57
2160 2283 1.270094 CGTTGACAAGTGGCAGTCCTA 60.270 52.381 0.00 0.00 32.66 2.94
2266 2389 5.008613 GCTATGCTTGGATAATGAAAACCGA 59.991 40.000 0.00 0.00 0.00 4.69
2268 2391 5.979517 GTGCTATGCTTGGATAATGAAAACC 59.020 40.000 0.00 0.00 0.00 3.27
2269 2392 6.694411 CAGTGCTATGCTTGGATAATGAAAAC 59.306 38.462 0.00 0.00 0.00 2.43
2372 2495 7.837202 ATTTGGTCAAACTATGCATCATTTG 57.163 32.000 21.43 21.43 32.51 2.32
2392 2515 7.432869 TGTTGATGGTTCTTCCTACAAATTTG 58.567 34.615 16.67 16.67 35.37 2.32
2394 2517 7.287696 AGTTGTTGATGGTTCTTCCTACAAATT 59.712 33.333 0.00 0.00 35.37 1.82
2397 2520 5.690865 AGTTGTTGATGGTTCTTCCTACAA 58.309 37.500 0.00 0.00 37.07 2.41
2406 2529 9.959749 TTTTAAGATTGTAGTTGTTGATGGTTC 57.040 29.630 0.00 0.00 0.00 3.62
2495 2618 9.515226 TTTGTAGCAAAAACTATCAAGACCTAT 57.485 29.630 0.00 0.00 0.00 2.57
2697 2820 8.338259 CACTTGTACCTACAATCTGAAATATGC 58.662 37.037 0.00 0.00 44.34 3.14
2717 2840 9.448438 TGCATCTCACTTTAATTATACACTTGT 57.552 29.630 0.00 0.00 0.00 3.16
3076 3207 6.532657 AGCGAAAATTGGTCATTTTGATCATC 59.467 34.615 0.00 0.00 43.89 2.92
3106 3237 7.498900 TGCAAAAGAAGACATTTAGAAGAGTCA 59.501 33.333 0.00 0.00 33.56 3.41
3271 3402 7.010738 CCAGGTGGTACATTGTTTTAGTATACG 59.989 40.741 0.00 0.00 44.52 3.06
3294 3427 6.601613 TGCAAGATACCTATAAACAAACCCAG 59.398 38.462 0.00 0.00 0.00 4.45
3398 3531 9.936329 ATAAATTTAGAATTAGAAAGGAGCCCA 57.064 29.630 3.94 0.00 0.00 5.36
3446 3579 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
3447 3580 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
3448 3581 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
3449 3582 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
3464 3597 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
3465 3598 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
3466 3599 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
3467 3600 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
3481 3614 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
3482 3615 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
3494 3627 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
3495 3628 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
3496 3629 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
3497 3630 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
3498 3631 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
3499 3632 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
3500 3633 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
3501 3634 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
3502 3635 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
3503 3636 9.512588 CTACTCCCTCCGTAAACTAATATAAGA 57.487 37.037 0.00 0.00 0.00 2.10
3504 3637 9.512588 TCTACTCCCTCCGTAAACTAATATAAG 57.487 37.037 0.00 0.00 0.00 1.73
3505 3638 9.866655 TTCTACTCCCTCCGTAAACTAATATAA 57.133 33.333 0.00 0.00 0.00 0.98
3507 3640 8.953223 ATTCTACTCCCTCCGTAAACTAATAT 57.047 34.615 0.00 0.00 0.00 1.28
3508 3641 8.773033 AATTCTACTCCCTCCGTAAACTAATA 57.227 34.615 0.00 0.00 0.00 0.98
3509 3642 7.672122 AATTCTACTCCCTCCGTAAACTAAT 57.328 36.000 0.00 0.00 0.00 1.73
3510 3643 7.486407 AAATTCTACTCCCTCCGTAAACTAA 57.514 36.000 0.00 0.00 0.00 2.24
3511 3644 7.486407 AAAATTCTACTCCCTCCGTAAACTA 57.514 36.000 0.00 0.00 0.00 2.24
3512 3645 6.370186 AAAATTCTACTCCCTCCGTAAACT 57.630 37.500 0.00 0.00 0.00 2.66
3513 3646 8.728337 ATTAAAATTCTACTCCCTCCGTAAAC 57.272 34.615 0.00 0.00 0.00 2.01
3514 3647 7.707893 CGATTAAAATTCTACTCCCTCCGTAAA 59.292 37.037 0.00 0.00 0.00 2.01
3515 3648 7.205297 CGATTAAAATTCTACTCCCTCCGTAA 58.795 38.462 0.00 0.00 0.00 3.18
3516 3649 6.239120 CCGATTAAAATTCTACTCCCTCCGTA 60.239 42.308 0.00 0.00 0.00 4.02
3517 3650 5.452917 CCGATTAAAATTCTACTCCCTCCGT 60.453 44.000 0.00 0.00 0.00 4.69
3518 3651 4.989168 CCGATTAAAATTCTACTCCCTCCG 59.011 45.833 0.00 0.00 0.00 4.63
3519 3652 5.926663 ACCGATTAAAATTCTACTCCCTCC 58.073 41.667 0.00 0.00 0.00 4.30
3520 3653 7.437565 GTGTACCGATTAAAATTCTACTCCCTC 59.562 40.741 0.00 0.00 0.00 4.30
3521 3654 7.125356 AGTGTACCGATTAAAATTCTACTCCCT 59.875 37.037 0.00 0.00 0.00 4.20
3522 3655 7.224167 CAGTGTACCGATTAAAATTCTACTCCC 59.776 40.741 0.00 0.00 0.00 4.30
3523 3656 7.977853 TCAGTGTACCGATTAAAATTCTACTCC 59.022 37.037 0.00 0.00 0.00 3.85
3524 3657 8.922058 TCAGTGTACCGATTAAAATTCTACTC 57.078 34.615 0.00 0.00 0.00 2.59
3525 3658 9.715121 TTTCAGTGTACCGATTAAAATTCTACT 57.285 29.630 0.00 0.00 0.00 2.57
3526 3659 9.750882 GTTTCAGTGTACCGATTAAAATTCTAC 57.249 33.333 0.00 0.00 0.00 2.59
3527 3660 9.715121 AGTTTCAGTGTACCGATTAAAATTCTA 57.285 29.630 0.00 0.00 0.00 2.10
3528 3661 8.617290 AGTTTCAGTGTACCGATTAAAATTCT 57.383 30.769 0.00 0.00 0.00 2.40
3563 3696 0.966920 GGTGACCTGGAGAGTCGAAA 59.033 55.000 0.00 0.00 37.04 3.46
3593 3726 1.291877 CCGAGAAAACGCAGTCCCAG 61.292 60.000 0.00 0.00 45.00 4.45
3611 3744 5.241064 TGTTATCAGATAAGCTCCGTCTACC 59.759 44.000 2.83 0.00 0.00 3.18
3620 3753 4.556898 CGCGTACCTGTTATCAGATAAGCT 60.557 45.833 10.27 0.00 41.04 3.74
3627 3760 2.768833 TAGCGCGTACCTGTTATCAG 57.231 50.000 8.43 0.00 41.01 2.90
3660 3793 0.467384 GAATAGCCAGGAGAGCAGCA 59.533 55.000 0.00 0.00 0.00 4.41
3661 3794 0.467384 TGAATAGCCAGGAGAGCAGC 59.533 55.000 0.00 0.00 0.00 5.25
3708 3845 0.581529 TCAGACGAAGCTGCAAAACG 59.418 50.000 1.02 4.42 35.86 3.60
3743 3880 0.458543 CTCCGGTCGACATTGTCCAG 60.459 60.000 18.91 0.00 0.00 3.86
3839 3976 1.094785 GCGGTGGTGTTGCTTATGAT 58.905 50.000 0.00 0.00 0.00 2.45
3911 4048 1.257415 CGCTGAAAATCTAGCAGAGCG 59.743 52.381 0.00 0.00 39.87 5.03
3946 4083 7.745620 AATCAAATCTTAAAACCGTCTGTCT 57.254 32.000 0.00 0.00 0.00 3.41
3952 4089 6.512297 ACAGCAAATCAAATCTTAAAACCGT 58.488 32.000 0.00 0.00 0.00 4.83
3979 4116 7.308770 GCACTGCATATACATTGTTACATGGAT 60.309 37.037 0.00 0.00 0.00 3.41
3980 4117 6.017192 GCACTGCATATACATTGTTACATGGA 60.017 38.462 0.00 0.00 0.00 3.41
3982 4119 6.727215 TGCACTGCATATACATTGTTACATG 58.273 36.000 0.00 0.00 31.71 3.21
4032 4181 5.047377 CCACCAAAGTAAGCAACCATACAAT 60.047 40.000 0.00 0.00 0.00 2.71
4049 4199 6.997655 TGTGCACAAATAAATATCCACCAAA 58.002 32.000 19.28 0.00 0.00 3.28
4053 4203 5.514914 CGGTTGTGCACAAATAAATATCCAC 59.485 40.000 32.61 16.50 37.63 4.02
4126 4276 1.411394 TCGACGTCGAACACATTTCC 58.589 50.000 36.25 0.00 46.30 3.13
4157 4307 8.186821 CCAAAGAAGAATATAGCAAAGAACCAG 58.813 37.037 0.00 0.00 0.00 4.00
4172 4323 1.804748 GCCGTCGAACCAAAGAAGAAT 59.195 47.619 0.00 0.00 0.00 2.40
4282 4448 6.311690 CCTTAAAAGAAACTAGAGAGAAGGCG 59.688 42.308 0.00 0.00 0.00 5.52
4287 4453 7.878644 GCTTTCCCTTAAAAGAAACTAGAGAGA 59.121 37.037 0.00 0.00 38.30 3.10
4318 4484 8.415950 TCTTTTGGCTGAGAAATAAAATACCA 57.584 30.769 0.00 0.00 0.00 3.25
4403 4570 2.532250 ATGTTTGGGATGGAGAACCC 57.468 50.000 0.00 0.00 45.74 4.11
4406 4573 6.069440 AGTCTGATTATGTTTGGGATGGAGAA 60.069 38.462 0.00 0.00 0.00 2.87
4491 4658 6.702282 CGGTTTCTAAAATAAGCTAGGGAGAG 59.298 42.308 0.00 0.00 0.00 3.20
4539 4707 6.148976 CCTAGTTCTTTTAGCGGCTTTTAACT 59.851 38.462 8.26 13.16 0.00 2.24
4549 4717 4.567159 CACTAAGGCCTAGTTCTTTTAGCG 59.433 45.833 5.16 0.00 38.92 4.26
4594 4762 6.092259 GCGTTGTTTATCTCTGGAATAACTGT 59.908 38.462 0.00 0.00 0.00 3.55
4596 4764 5.585047 GGCGTTGTTTATCTCTGGAATAACT 59.415 40.000 0.00 0.00 0.00 2.24
4614 4782 0.668096 TACTGTTAGTGCGGGCGTTG 60.668 55.000 0.00 0.00 0.00 4.10
4625 4793 5.980116 CGGACTCAGAAATGGATACTGTTAG 59.020 44.000 0.00 0.00 33.93 2.34
4630 4798 4.537751 TCTCGGACTCAGAAATGGATACT 58.462 43.478 0.00 0.00 37.61 2.12
4667 4835 3.562557 GCCTTTTCTTTCGGTACTGTTCA 59.437 43.478 0.64 0.00 0.00 3.18
4712 4882 6.202570 GCACTAAAACATCTTCCATGCAAAAA 59.797 34.615 0.00 0.00 0.00 1.94
4713 4883 5.695816 GCACTAAAACATCTTCCATGCAAAA 59.304 36.000 0.00 0.00 0.00 2.44
4714 4884 5.229423 GCACTAAAACATCTTCCATGCAAA 58.771 37.500 0.00 0.00 0.00 3.68
4732 4902 1.218047 GGCATGGTCTCACGCACTA 59.782 57.895 0.00 0.00 33.17 2.74
4743 4913 1.959085 CGCTGAAAACTGGCATGGT 59.041 52.632 0.00 0.00 0.00 3.55
4752 4922 1.438222 GTCCGAACGCGCTGAAAAC 60.438 57.895 5.73 0.00 35.83 2.43
4832 5002 4.704540 TGAGATCCGTGCCAATACAAATTT 59.295 37.500 0.00 0.00 0.00 1.82
4924 5136 7.500227 TCCTGCCATGAACTATAAAATCAGAAG 59.500 37.037 0.00 0.00 0.00 2.85
4925 5137 7.345691 TCCTGCCATGAACTATAAAATCAGAA 58.654 34.615 0.00 0.00 0.00 3.02
4926 5138 6.899089 TCCTGCCATGAACTATAAAATCAGA 58.101 36.000 0.00 0.00 0.00 3.27
4927 5139 6.293845 GCTCCTGCCATGAACTATAAAATCAG 60.294 42.308 0.00 0.00 0.00 2.90
4936 5148 1.571955 TCTGCTCCTGCCATGAACTA 58.428 50.000 0.00 0.00 38.71 2.24
4937 5149 0.917533 ATCTGCTCCTGCCATGAACT 59.082 50.000 0.00 0.00 38.71 3.01
4944 5156 2.909577 AGCTCATCTGCTCCTGCC 59.090 61.111 0.00 0.00 39.34 4.85
4970 5182 2.027751 GCGGTAGAGCGGTGATCC 59.972 66.667 0.00 0.00 0.00 3.36
4980 5192 1.100510 ATGACAGTTAGCGCGGTAGA 58.899 50.000 18.33 7.08 0.00 2.59
4997 5209 1.065102 CCTCGCAAGCTGGATCAAATG 59.935 52.381 0.00 0.00 33.51 2.32
5001 5213 2.586245 CCCTCGCAAGCTGGATCA 59.414 61.111 0.00 0.00 33.51 2.92
5010 5222 3.984186 CTCTCCCTCCCCCTCGCAA 62.984 68.421 0.00 0.00 0.00 4.85
5040 5252 3.561143 TGCAGATGTTGTAGGTTTTGGT 58.439 40.909 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.