Multiple sequence alignment - TraesCS5A01G146400

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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 TraesCS5A01G146400 chr5A 100.000 4015 0 0 1 4015 322675996 322680010 0.000000e+00 7415
1 TraesCS5A01G146400 chr5A 86.071 280 32 4 385 660 590290517 590290241 1.090000e-75 294
2 TraesCS5A01G146400 chr5A 88.000 175 12 1 2918 3083 580742596 580742770 8.800000e-47 198
3 TraesCS5A01G146400 chr5B 90.510 3140 160 50 969 4015 272239590 272242684 0.000000e+00 4021
4 TraesCS5A01G146400 chr5B 91.237 194 15 2 656 848 272231919 272232111 3.080000e-66 263
5 TraesCS5A01G146400 chr5D 92.665 2004 72 20 2054 4015 232598717 232596747 0.000000e+00 2817
6 TraesCS5A01G146400 chr5D 91.089 1212 60 23 862 2028 232599915 232598707 0.000000e+00 1596
7 TraesCS5A01G146400 chr5D 90.049 412 40 1 1 411 407960381 407959970 2.120000e-147 532
8 TraesCS5A01G146400 chr5D 90.594 202 11 3 656 851 232600095 232599896 1.110000e-65 261
9 TraesCS5A01G146400 chr5D 83.028 218 35 2 2047 2264 112926586 112926801 3.170000e-46 196
10 TraesCS5A01G146400 chr5D 80.526 190 21 8 1845 2033 112926426 112926600 9.050000e-27 132
11 TraesCS5A01G146400 chr2A 90.732 410 37 1 1 410 735015386 735015794 2.730000e-151 545
12 TraesCS5A01G146400 chr7A 90.511 411 37 2 1 410 47800588 47800997 3.530000e-150 542
13 TraesCS5A01G146400 chr7A 81.658 398 69 3 2047 2441 115634128 115634524 1.080000e-85 327
14 TraesCS5A01G146400 chr7A 82.569 218 36 2 2047 2264 32696282 32696067 1.470000e-44 191
15 TraesCS5A01G146400 chr7A 83.158 190 21 7 1845 2033 115633963 115634142 3.210000e-36 163
16 TraesCS5A01G146400 chr7A 80.526 190 21 8 1845 2033 32696442 32696268 9.050000e-27 132
17 TraesCS5A01G146400 chr1D 90.097 414 37 3 1 410 93504389 93504802 5.910000e-148 534
18 TraesCS5A01G146400 chr3D 90.097 414 36 4 1 410 573053269 573052857 2.120000e-147 532
19 TraesCS5A01G146400 chr3D 89.855 414 37 4 1 410 573042622 573042210 9.880000e-146 527
20 TraesCS5A01G146400 chr3D 87.309 457 44 6 2274 2729 277750974 277750531 9.950000e-141 510
21 TraesCS5A01G146400 chr3D 82.663 398 64 4 2047 2441 255458419 255458024 8.260000e-92 348
22 TraesCS5A01G146400 chr3D 89.362 235 18 4 425 657 40250929 40251158 5.080000e-74 289
23 TraesCS5A01G146400 chr6D 89.855 414 38 3 1 410 2362090 2361677 2.750000e-146 529
24 TraesCS5A01G146400 chr6D 85.199 277 36 3 385 659 346275485 346275758 3.060000e-71 279
25 TraesCS5A01G146400 chr4D 89.781 411 41 1 1 410 473984915 473985325 3.550000e-145 525
26 TraesCS5A01G146400 chr4D 86.909 275 30 4 385 657 473985751 473986021 1.810000e-78 303
27 TraesCS5A01G146400 chr4D 84.286 280 34 8 385 661 469855596 469855324 8.560000e-67 265
28 TraesCS5A01G146400 chr2D 89.756 410 42 0 1 410 180178915 180178506 3.550000e-145 525
29 TraesCS5A01G146400 chr7B 82.810 541 43 16 2881 3386 727119806 727119281 4.760000e-119 438
30 TraesCS5A01G146400 chr6A 86.301 292 28 5 2440 2727 22184908 22184625 1.400000e-79 307
31 TraesCS5A01G146400 chr6A 83.486 218 34 2 2047 2264 518392477 518392262 6.800000e-48 202
32 TraesCS5A01G146400 chr6A 86.364 154 19 2 1714 1866 518392819 518392667 2.480000e-37 167
33 TraesCS5A01G146400 chr6A 79.474 190 23 8 1845 2033 518392637 518392463 1.960000e-23 121
34 TraesCS5A01G146400 chr4B 85.560 277 32 6 385 659 541348739 541348469 2.360000e-72 283
35 TraesCS5A01G146400 chr1A 87.550 249 25 4 413 655 589870358 589870606 2.360000e-72 283
36 TraesCS5A01G146400 chr7D 85.455 275 35 3 385 657 47080169 47080440 8.500000e-72 281
37 TraesCS5A01G146400 chr6B 85.019 267 37 2 398 661 686856140 686855874 6.610000e-68 268
38 TraesCS5A01G146400 chr6B 85.263 190 19 5 1845 2033 618893203 618893022 1.910000e-43 187
39 TraesCS5A01G146400 chr3A 88.571 175 11 1 2918 3083 705237683 705237857 1.890000e-48 204
40 TraesCS5A01G146400 chr1B 79.355 155 24 5 656 804 665288634 665288482 7.100000e-18 102


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 TraesCS5A01G146400 chr5A 322675996 322680010 4014 False 7415 7415 100.000000 1 4015 1 chr5A.!!$F1 4014
1 TraesCS5A01G146400 chr5B 272239590 272242684 3094 False 4021 4021 90.510000 969 4015 1 chr5B.!!$F2 3046
2 TraesCS5A01G146400 chr5D 232596747 232600095 3348 True 1558 2817 91.449333 656 4015 3 chr5D.!!$R2 3359
3 TraesCS5A01G146400 chr7A 115633963 115634524 561 False 245 327 82.408000 1845 2441 2 chr7A.!!$F2 596
4 TraesCS5A01G146400 chr4D 473984915 473986021 1106 False 414 525 88.345000 1 657 2 chr4D.!!$F1 656
5 TraesCS5A01G146400 chr7B 727119281 727119806 525 True 438 438 82.810000 2881 3386 1 chr7B.!!$R1 505

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
595 1046 0.037590 TTCGCTGGGCTGTATGGTTT 59.962 50.0 0.0 0.0 0.00 3.27 F
1004 1486 0.249120 TCAGCCGTTGACTACATGGG 59.751 55.0 0.0 0.0 0.00 4.00 F
1023 1505 0.319900 GCGATATGATGTGTCCCGCT 60.320 55.0 0.0 0.0 38.36 5.52 F
1373 1855 0.456221 CCATTCTGCTACGACGAGGT 59.544 55.0 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1510 1993 0.813184 CAGTGGGGCATGTGAATGAC 59.187 55.0 0.0 0.0 0.00 3.06 R
2762 3280 1.285280 ATCCAAACTCCCCGATCACA 58.715 50.0 0.0 0.0 0.00 3.58 R
2933 3451 5.804473 TGCAAAAATAACTGCATAACCATCG 59.196 36.0 0.0 0.0 43.44 3.84 R
3143 3696 1.325476 GCAGGATGGAGGGGCAAAAG 61.325 60.0 0.0 0.0 35.86 2.27 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
20 21 2.467838 CACCATGATCGTAGTCAGCAG 58.532 52.381 0.00 0.00 0.00 4.24
22 23 1.269988 CCATGATCGTAGTCAGCAGGG 60.270 57.143 0.00 0.00 0.00 4.45
25 26 1.103803 GATCGTAGTCAGCAGGGTCA 58.896 55.000 0.00 0.00 0.00 4.02
27 28 1.557099 TCGTAGTCAGCAGGGTCATT 58.443 50.000 0.00 0.00 0.00 2.57
33 34 0.913934 TCAGCAGGGTCATTGGCCTA 60.914 55.000 7.34 0.00 0.00 3.93
42 43 1.537202 GTCATTGGCCTATTCATCGGC 59.463 52.381 3.32 0.00 45.55 5.54
79 80 1.912043 CCATCCTGACTTTGGGTCTCT 59.088 52.381 0.00 0.00 44.74 3.10
85 86 0.974383 GACTTTGGGTCTCTTCGGGA 59.026 55.000 0.00 0.00 41.46 5.14
92 93 1.677942 GGTCTCTTCGGGATCGTAGT 58.322 55.000 0.00 0.00 35.67 2.73
95 96 2.879646 GTCTCTTCGGGATCGTAGTCAT 59.120 50.000 0.00 0.00 35.67 3.06
100 101 1.744320 CGGGATCGTAGTCATGGCCA 61.744 60.000 8.56 8.56 0.00 5.36
126 127 2.035632 ACCCTCGAAGATCACATCCTC 58.964 52.381 0.00 0.00 33.89 3.71
135 136 5.221322 CGAAGATCACATCCTCCATGAACTA 60.221 44.000 0.00 0.00 36.21 2.24
146 147 6.253758 TCCTCCATGAACTAGTTGTAGAAGA 58.746 40.000 14.14 1.29 0.00 2.87
150 151 6.497259 TCCATGAACTAGTTGTAGAAGAGGTT 59.503 38.462 14.14 0.00 0.00 3.50
184 185 2.034999 GGGGTTGGCATTCCGTCA 59.965 61.111 0.00 0.00 34.14 4.35
237 239 4.043200 GGTGGCCGTGCTTGCTTC 62.043 66.667 0.00 0.00 0.00 3.86
254 256 1.019278 TTCCTTTGCATCTCGACGGC 61.019 55.000 0.00 0.00 0.00 5.68
257 259 3.289704 TTTGCATCTCGACGGCCGA 62.290 57.895 35.90 9.64 46.35 5.54
287 289 1.680522 CTGCTGGACCTAGGCGTGAT 61.681 60.000 9.30 0.00 0.00 3.06
299 301 1.352156 GGCGTGATGTTGAGGTCGAC 61.352 60.000 7.13 7.13 0.00 4.20
337 339 1.208358 GTGGACGACACGATCACGA 59.792 57.895 0.00 0.00 40.85 4.35
341 343 1.614385 GACGACACGATCACGACAAT 58.386 50.000 0.00 0.00 42.66 2.71
345 347 1.654105 GACACGATCACGACAATGTCC 59.346 52.381 7.91 0.00 42.66 4.02
394 396 2.399607 TGCCTTGGTGGGGGAAAGT 61.400 57.895 0.00 0.00 36.00 2.66
395 397 1.068943 TGCCTTGGTGGGGGAAAGTA 61.069 55.000 0.00 0.00 36.00 2.24
406 408 1.697982 GGGGAAAGTAGGGCGACATAT 59.302 52.381 0.00 0.00 0.00 1.78
434 883 1.908299 GGAGGGGGTTGCTTTGTGG 60.908 63.158 0.00 0.00 0.00 4.17
443 892 1.315981 TTGCTTTGTGGCACCGACAA 61.316 50.000 16.26 11.31 42.27 3.18
499 950 1.227999 CCACGTGCTGTCCGTTTCAT 61.228 55.000 10.91 0.00 36.17 2.57
502 953 0.948623 CGTGCTGTCCGTTTCATCCA 60.949 55.000 0.00 0.00 0.00 3.41
510 961 3.815962 TGTCCGTTTCATCCAAAAATCGA 59.184 39.130 0.00 0.00 0.00 3.59
520 971 4.815040 TCCAAAAATCGACGCAAACTTA 57.185 36.364 0.00 0.00 0.00 2.24
523 974 4.533222 CAAAAATCGACGCAAACTTAGGT 58.467 39.130 0.00 0.00 0.00 3.08
536 987 1.745320 CTTAGGTCGGGGATGGGTCG 61.745 65.000 0.00 0.00 0.00 4.79
545 996 1.146263 GGATGGGTCGAAAGCGGAT 59.854 57.895 0.00 0.00 38.28 4.18
547 998 1.605712 GGATGGGTCGAAAGCGGATAG 60.606 57.143 0.00 0.00 38.28 2.08
561 1012 3.435671 AGCGGATAGAAAACGGACAAAAG 59.564 43.478 0.00 0.00 0.00 2.27
562 1013 3.187842 GCGGATAGAAAACGGACAAAAGT 59.812 43.478 0.00 0.00 0.00 2.66
563 1014 4.668431 GCGGATAGAAAACGGACAAAAGTC 60.668 45.833 0.00 0.00 0.00 3.01
564 1015 4.142966 CGGATAGAAAACGGACAAAAGTCC 60.143 45.833 4.59 4.59 40.04 3.85
572 1023 2.401017 GGACAAAAGTCCGTTTGCTC 57.599 50.000 5.75 3.77 41.33 4.26
573 1024 1.001706 GGACAAAAGTCCGTTTGCTCC 60.002 52.381 5.75 7.99 41.33 4.70
574 1025 0.661020 ACAAAAGTCCGTTTGCTCCG 59.339 50.000 5.75 0.00 41.33 4.63
575 1026 0.040425 CAAAAGTCCGTTTGCTCCGG 60.040 55.000 0.00 0.00 46.83 5.14
576 1027 0.464916 AAAAGTCCGTTTGCTCCGGT 60.465 50.000 0.00 0.00 45.63 5.28
577 1028 0.464916 AAAGTCCGTTTGCTCCGGTT 60.465 50.000 0.00 0.00 45.63 4.44
578 1029 0.883370 AAGTCCGTTTGCTCCGGTTC 60.883 55.000 0.00 0.00 45.63 3.62
579 1030 2.356553 TCCGTTTGCTCCGGTTCG 60.357 61.111 0.00 0.00 45.63 3.95
580 1031 4.084888 CCGTTTGCTCCGGTTCGC 62.085 66.667 0.00 3.56 40.59 4.70
581 1032 3.041940 CGTTTGCTCCGGTTCGCT 61.042 61.111 0.00 0.00 0.00 4.93
582 1033 2.556287 GTTTGCTCCGGTTCGCTG 59.444 61.111 0.00 0.00 0.00 5.18
583 1034 2.668212 TTTGCTCCGGTTCGCTGG 60.668 61.111 0.00 0.00 45.14 4.85
584 1035 4.697756 TTGCTCCGGTTCGCTGGG 62.698 66.667 0.00 0.00 43.91 4.45
589 1040 4.077184 CCGGTTCGCTGGGCTGTA 62.077 66.667 0.00 0.00 40.01 2.74
590 1041 2.186903 CGGTTCGCTGGGCTGTAT 59.813 61.111 0.00 0.00 0.00 2.29
591 1042 2.173669 CGGTTCGCTGGGCTGTATG 61.174 63.158 0.00 0.00 0.00 2.39
592 1043 1.819632 GGTTCGCTGGGCTGTATGG 60.820 63.158 0.00 0.00 0.00 2.74
593 1044 1.078426 GTTCGCTGGGCTGTATGGT 60.078 57.895 0.00 0.00 0.00 3.55
594 1045 0.676782 GTTCGCTGGGCTGTATGGTT 60.677 55.000 0.00 0.00 0.00 3.67
595 1046 0.037590 TTCGCTGGGCTGTATGGTTT 59.962 50.000 0.00 0.00 0.00 3.27
596 1047 0.676466 TCGCTGGGCTGTATGGTTTG 60.676 55.000 0.00 0.00 0.00 2.93
597 1048 0.960364 CGCTGGGCTGTATGGTTTGT 60.960 55.000 0.00 0.00 0.00 2.83
598 1049 1.256812 GCTGGGCTGTATGGTTTGTT 58.743 50.000 0.00 0.00 0.00 2.83
599 1050 1.202348 GCTGGGCTGTATGGTTTGTTC 59.798 52.381 0.00 0.00 0.00 3.18
600 1051 1.818674 CTGGGCTGTATGGTTTGTTCC 59.181 52.381 0.00 0.00 0.00 3.62
601 1052 1.427368 TGGGCTGTATGGTTTGTTCCT 59.573 47.619 0.00 0.00 0.00 3.36
602 1053 2.158385 TGGGCTGTATGGTTTGTTCCTT 60.158 45.455 0.00 0.00 0.00 3.36
603 1054 2.897326 GGGCTGTATGGTTTGTTCCTTT 59.103 45.455 0.00 0.00 0.00 3.11
604 1055 3.323691 GGGCTGTATGGTTTGTTCCTTTT 59.676 43.478 0.00 0.00 0.00 2.27
605 1056 4.525100 GGGCTGTATGGTTTGTTCCTTTTA 59.475 41.667 0.00 0.00 0.00 1.52
606 1057 5.466819 GGCTGTATGGTTTGTTCCTTTTAC 58.533 41.667 0.00 0.00 0.00 2.01
607 1058 5.466819 GCTGTATGGTTTGTTCCTTTTACC 58.533 41.667 0.00 0.00 0.00 2.85
608 1059 5.566032 GCTGTATGGTTTGTTCCTTTTACCC 60.566 44.000 0.00 0.00 0.00 3.69
609 1060 4.833938 TGTATGGTTTGTTCCTTTTACCCC 59.166 41.667 0.00 0.00 0.00 4.95
610 1061 3.399952 TGGTTTGTTCCTTTTACCCCA 57.600 42.857 0.00 0.00 0.00 4.96
611 1062 3.721021 TGGTTTGTTCCTTTTACCCCAA 58.279 40.909 0.00 0.00 0.00 4.12
612 1063 4.101856 TGGTTTGTTCCTTTTACCCCAAA 58.898 39.130 0.00 0.00 0.00 3.28
613 1064 4.081031 TGGTTTGTTCCTTTTACCCCAAAC 60.081 41.667 0.00 0.00 40.35 2.93
614 1065 4.114073 GTTTGTTCCTTTTACCCCAAACG 58.886 43.478 0.00 0.00 34.39 3.60
615 1066 2.308690 TGTTCCTTTTACCCCAAACGG 58.691 47.619 0.00 0.00 36.98 4.44
616 1067 2.091994 TGTTCCTTTTACCCCAAACGGA 60.092 45.455 0.00 0.00 41.48 4.69
617 1068 2.275134 TCCTTTTACCCCAAACGGAC 57.725 50.000 0.00 0.00 39.09 4.79
618 1069 0.876399 CCTTTTACCCCAAACGGACG 59.124 55.000 0.00 0.00 37.67 4.79
619 1070 0.876399 CTTTTACCCCAAACGGACGG 59.124 55.000 0.00 0.00 0.00 4.79
620 1071 0.536915 TTTTACCCCAAACGGACGGG 60.537 55.000 0.00 0.00 43.05 5.28
632 1083 3.782443 GACGGGGCCGGACAAGAT 61.782 66.667 18.95 0.00 44.69 2.40
633 1084 4.096003 ACGGGGCCGGACAAGATG 62.096 66.667 18.95 0.00 44.69 2.90
634 1085 4.856801 CGGGGCCGGACAAGATGG 62.857 72.222 11.00 0.00 35.56 3.51
635 1086 3.407967 GGGGCCGGACAAGATGGA 61.408 66.667 11.00 0.00 0.00 3.41
636 1087 2.190578 GGGCCGGACAAGATGGAG 59.809 66.667 11.00 0.00 0.00 3.86
637 1088 2.670148 GGGCCGGACAAGATGGAGT 61.670 63.158 11.00 0.00 0.00 3.85
638 1089 1.153349 GGCCGGACAAGATGGAGTC 60.153 63.158 5.05 0.00 0.00 3.36
639 1090 1.519455 GCCGGACAAGATGGAGTCG 60.519 63.158 5.05 0.00 35.63 4.18
640 1091 1.519455 CCGGACAAGATGGAGTCGC 60.519 63.158 0.00 0.00 35.63 5.19
641 1092 1.874019 CGGACAAGATGGAGTCGCG 60.874 63.158 0.00 0.00 35.63 5.87
642 1093 2.167861 GGACAAGATGGAGTCGCGC 61.168 63.158 0.00 0.00 35.63 6.86
643 1094 2.507102 ACAAGATGGAGTCGCGCG 60.507 61.111 26.76 26.76 0.00 6.86
644 1095 3.257561 CAAGATGGAGTCGCGCGG 61.258 66.667 31.69 11.75 0.00 6.46
645 1096 3.760035 AAGATGGAGTCGCGCGGT 61.760 61.111 31.69 18.30 0.00 5.68
646 1097 3.989698 AAGATGGAGTCGCGCGGTG 62.990 63.158 31.69 1.17 0.00 4.94
651 1102 4.719369 GAGTCGCGCGGTGGAGTT 62.719 66.667 31.69 7.61 0.00 3.01
670 1121 5.360714 GGAGTTGGCCTTATTTCATCATCAA 59.639 40.000 3.32 0.00 0.00 2.57
679 1130 9.807649 GCCTTATTTCATCATCAAACTTTACAT 57.192 29.630 0.00 0.00 0.00 2.29
782 1239 3.350219 AATAAGGTCGTCCAATGCACT 57.650 42.857 0.51 0.00 35.89 4.40
818 1275 1.398739 ACTCTCGTCGTGTATCAGCAG 59.601 52.381 0.00 0.00 0.00 4.24
826 1283 4.177026 GTCGTGTATCAGCAGACTTGATT 58.823 43.478 0.00 0.00 36.68 2.57
831 1288 6.347644 CGTGTATCAGCAGACTTGATTCAAAA 60.348 38.462 0.01 0.00 35.20 2.44
832 1289 6.798959 GTGTATCAGCAGACTTGATTCAAAAC 59.201 38.462 0.01 0.00 35.20 2.43
833 1290 6.486320 TGTATCAGCAGACTTGATTCAAAACA 59.514 34.615 0.01 0.00 36.68 2.83
834 1291 5.833406 TCAGCAGACTTGATTCAAAACAA 57.167 34.783 0.01 0.00 0.00 2.83
835 1292 5.824429 TCAGCAGACTTGATTCAAAACAAG 58.176 37.500 10.21 10.21 45.85 3.16
846 1303 8.659925 TTGATTCAAAACAAGTGCATTATTGT 57.340 26.923 8.57 8.57 41.28 2.71
889 1346 4.219507 TGCATTATTGTTGTTGGTACCCAG 59.780 41.667 10.07 0.00 33.81 4.45
892 1349 0.820074 TTGTTGTTGGTACCCAGCGG 60.820 55.000 10.07 0.00 37.56 5.52
960 1417 8.748582 GTTTTTACGGGAACTAAACATTTTGAG 58.251 33.333 0.00 0.00 0.00 3.02
961 1418 7.804843 TTTACGGGAACTAAACATTTTGAGA 57.195 32.000 0.00 0.00 0.00 3.27
963 1420 4.517832 ACGGGAACTAAACATTTTGAGACC 59.482 41.667 0.00 0.00 0.00 3.85
999 1481 2.150397 AACACTCAGCCGTTGACTAC 57.850 50.000 0.00 0.00 0.00 2.73
1004 1486 0.249120 TCAGCCGTTGACTACATGGG 59.751 55.000 0.00 0.00 0.00 4.00
1014 1496 4.192429 TGACTACATGGGCGATATGATG 57.808 45.455 0.00 0.00 0.00 3.07
1023 1505 0.319900 GCGATATGATGTGTCCCGCT 60.320 55.000 0.00 0.00 38.36 5.52
1026 1508 1.344438 GATATGATGTGTCCCGCTCCA 59.656 52.381 0.00 0.00 0.00 3.86
1089 1571 1.753463 CTACGTCCTCCTCGGCCTT 60.753 63.158 0.00 0.00 0.00 4.35
1109 1591 1.079819 CTTCCACCGTCATGTCGCT 60.080 57.895 6.84 0.00 0.00 4.93
1171 1653 2.260434 GCGCTCACCTGGTAACGA 59.740 61.111 16.49 2.84 42.51 3.85
1373 1855 0.456221 CCATTCTGCTACGACGAGGT 59.544 55.000 0.00 0.00 0.00 3.85
1432 1914 1.406180 CTTGATGAAATGCATGGCCGA 59.594 47.619 0.00 0.00 37.34 5.54
1447 1929 0.796927 GCCGAGTAGCGCTTTTCTTT 59.203 50.000 18.68 0.00 39.11 2.52
1484 1966 6.966435 AAATTTGCCGGATCTTACATTTTG 57.034 33.333 5.05 0.00 0.00 2.44
1497 1980 5.757320 TCTTACATTTTGTGCATGTTTTGGG 59.243 36.000 0.00 0.00 36.28 4.12
1510 1993 5.163834 GCATGTTTTGGGTGAAATTGCTATG 60.164 40.000 0.00 0.00 32.43 2.23
1549 2032 1.679153 GACCCACTCGCCAAAAAGAAA 59.321 47.619 0.00 0.00 0.00 2.52
1595 2078 7.123098 TGAAACTGGATGCTCATCATACATTTT 59.877 33.333 11.49 5.49 45.79 1.82
1596 2079 8.523915 AAACTGGATGCTCATCATACATTTTA 57.476 30.769 11.49 0.00 44.66 1.52
1598 2081 8.332996 ACTGGATGCTCATCATACATTTTATC 57.667 34.615 11.49 0.00 44.66 1.75
1643 2154 3.835395 AGTGTTTCTTTGGGTTTTGGTGA 59.165 39.130 0.00 0.00 0.00 4.02
1729 2240 5.086104 AGATGCGGTTAATACTGTCACTT 57.914 39.130 0.00 0.00 32.95 3.16
1813 2324 4.273274 GCGTAGATCTTACTTCTGACGAC 58.727 47.826 13.13 2.95 0.00 4.34
1827 2338 1.535896 TGACGACGACTTCTTCTCTGG 59.464 52.381 0.00 0.00 0.00 3.86
1899 2410 1.207089 CCGTACCTCAAAGAGCCATCA 59.793 52.381 0.00 0.00 0.00 3.07
1930 2442 4.019174 TCCTGATATCTATCATGCTGCGA 58.981 43.478 3.98 0.00 41.46 5.10
1983 2495 8.352201 GCTATATGAAATGACACCAGCAAATTA 58.648 33.333 0.00 0.00 0.00 1.40
2024 2536 3.194062 GCCAGCTCTGAATTCTGTAGTC 58.806 50.000 7.05 3.63 0.00 2.59
2025 2537 3.791245 CCAGCTCTGAATTCTGTAGTCC 58.209 50.000 7.05 0.00 0.00 3.85
2026 2538 3.450457 CCAGCTCTGAATTCTGTAGTCCT 59.550 47.826 7.05 0.00 0.00 3.85
2027 2539 4.431809 CAGCTCTGAATTCTGTAGTCCTG 58.568 47.826 7.05 6.55 0.00 3.86
2028 2540 4.081752 CAGCTCTGAATTCTGTAGTCCTGT 60.082 45.833 7.05 0.00 0.00 4.00
2029 2541 5.126222 CAGCTCTGAATTCTGTAGTCCTGTA 59.874 44.000 7.05 0.00 0.00 2.74
2030 2542 5.896678 AGCTCTGAATTCTGTAGTCCTGTAT 59.103 40.000 7.05 0.00 0.00 2.29
2031 2543 6.382570 AGCTCTGAATTCTGTAGTCCTGTATT 59.617 38.462 7.05 0.00 0.00 1.89
2032 2544 6.699642 GCTCTGAATTCTGTAGTCCTGTATTC 59.300 42.308 7.05 0.00 32.79 1.75
2033 2545 7.417342 GCTCTGAATTCTGTAGTCCTGTATTCT 60.417 40.741 7.05 0.00 33.12 2.40
2034 2546 8.367660 TCTGAATTCTGTAGTCCTGTATTCTT 57.632 34.615 7.05 0.00 33.12 2.52
2035 2547 8.816894 TCTGAATTCTGTAGTCCTGTATTCTTT 58.183 33.333 7.05 0.00 33.12 2.52
2036 2548 9.442047 CTGAATTCTGTAGTCCTGTATTCTTTT 57.558 33.333 7.05 0.00 33.12 2.27
2037 2549 9.793259 TGAATTCTGTAGTCCTGTATTCTTTTT 57.207 29.630 7.05 0.00 33.12 1.94
2061 2573 2.024655 TCCGGGTGTAGTCCTGTATTCT 60.025 50.000 0.00 0.00 32.33 2.40
2080 2592 9.653287 TGTATTCTTGTTATACCAGAGTTTCAG 57.347 33.333 0.00 0.00 0.00 3.02
2082 2594 7.962964 TTCTTGTTATACCAGAGTTTCAGTG 57.037 36.000 0.00 0.00 0.00 3.66
2093 2605 4.872124 CAGAGTTTCAGTGCTGTGCATATA 59.128 41.667 0.00 0.00 41.91 0.86
2096 2608 7.225341 CAGAGTTTCAGTGCTGTGCATATATTA 59.775 37.037 0.00 0.00 41.91 0.98
2097 2609 7.935755 AGAGTTTCAGTGCTGTGCATATATTAT 59.064 33.333 0.00 0.00 41.91 1.28
2155 2667 4.922206 TCACAAATGAGGCCTACAAAGAT 58.078 39.130 4.42 0.00 0.00 2.40
2164 2676 4.561752 AGGCCTACAAAGATGATCCTACT 58.438 43.478 1.29 0.00 0.00 2.57
2339 2852 2.305343 GGCATGGATAGAAGAGATGGCT 59.695 50.000 0.00 0.00 36.82 4.75
2539 3054 4.974645 ATTCAGACACTTGGTAAGTCCA 57.025 40.909 0.00 0.00 45.60 4.02
2595 3110 1.402194 GCTGAGTAGCTATAGCGGCTG 60.402 57.143 22.60 15.71 46.57 4.85
2611 3126 3.821841 CGGCTGAATTAAACCACTTCAC 58.178 45.455 0.00 0.00 0.00 3.18
2653 3168 3.010584 TCAGGGCTGAGCTTAGGATTTTT 59.989 43.478 7.72 0.00 34.14 1.94
2654 3169 3.129988 CAGGGCTGAGCTTAGGATTTTTG 59.870 47.826 7.72 0.00 0.00 2.44
2687 3205 1.423584 TGCCTGACTCAACAGAGGAA 58.576 50.000 0.00 0.00 39.94 3.36
2705 3223 2.159296 GGAAAGCCACGTTCAGTTTGTT 60.159 45.455 0.00 0.00 0.00 2.83
2933 3451 1.237285 AAGGCGCAGAACACATGGAC 61.237 55.000 10.83 0.00 0.00 4.02
3058 3586 6.260714 ACATGGTTTTTCAAGCCAAGAATTTC 59.739 34.615 0.00 0.00 35.74 2.17
3060 3588 6.355747 TGGTTTTTCAAGCCAAGAATTTCAT 58.644 32.000 0.00 0.00 0.00 2.57
3143 3696 8.462016 AGGTAGAGATTGAATTGTGCAATAAAC 58.538 33.333 0.00 0.00 36.19 2.01
3168 3721 0.846015 CCCCTCCATCCTGCACATAA 59.154 55.000 0.00 0.00 0.00 1.90
3216 3769 9.754382 ATATGCTGTCATTTTGATTCCATTTAC 57.246 29.630 0.00 0.00 34.22 2.01
3217 3770 6.092092 TGCTGTCATTTTGATTCCATTTACG 58.908 36.000 0.00 0.00 0.00 3.18
3228 3782 7.804614 TGATTCCATTTACGTATTTGTTTGC 57.195 32.000 0.00 0.00 0.00 3.68
3235 3789 9.906660 CCATTTACGTATTTGTTTGCCATATAT 57.093 29.630 0.00 0.00 0.00 0.86
3293 3847 3.610637 CCCGAGAACGTTGGGTAAA 57.389 52.632 5.00 0.00 44.68 2.01
3356 3910 6.154534 AGGTTTAATAAAGAGGGTGGATTTGC 59.845 38.462 0.00 0.00 0.00 3.68
3469 4029 0.238289 GCACATCTCCGGTGTTTGTG 59.762 55.000 24.79 24.79 40.42 3.33
3493 4053 6.765989 TGTTAGAGTTGTAGTTCTGCAAATGT 59.234 34.615 8.12 7.05 0.00 2.71
3545 4112 1.730064 GCAAATGCACAGCTGGAATTG 59.270 47.619 19.93 15.40 41.59 2.32
3667 4245 6.887376 CAGATTTGCATCTTTGAGATTTGG 57.113 37.500 0.00 0.00 37.71 3.28
3692 4270 7.596621 GGCTATTAGATTAAAAATTGGCTCTGC 59.403 37.037 0.00 0.00 33.06 4.26
3716 4294 2.548875 AGCGAAGAAGATGCTGTGATC 58.451 47.619 0.00 0.00 37.62 2.92
3746 4324 2.637025 CGAAAGCACACCCGTTGG 59.363 61.111 0.00 0.00 37.80 3.77
3755 4333 0.109723 ACACCCGTTGGCTTACACAT 59.890 50.000 0.00 0.00 33.59 3.21
3766 4344 3.585289 TGGCTTACACATTCCAGGTCTTA 59.415 43.478 0.00 0.00 0.00 2.10
3786 4364 1.199615 TATTGGGACAGACGATGGCA 58.800 50.000 0.00 0.00 39.54 4.92
3830 4408 2.093658 GCCAACTCAACCCTATTCTCGA 60.094 50.000 0.00 0.00 0.00 4.04
3864 4442 2.616960 TCCTGCTGCACATTAACGTAG 58.383 47.619 0.00 0.00 0.00 3.51
3885 4463 5.242795 AGAAAGGTTGTAGTTGCCATACT 57.757 39.130 0.00 0.00 0.00 2.12
3910 4488 9.132923 CTTGGTACTAGTATTCAAGTCTATCCA 57.867 37.037 25.21 14.44 32.59 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.781786 ATGACCCTGCTGACTACGAT 58.218 50.000 0.00 0.00 0.00 3.73
20 21 2.154462 CGATGAATAGGCCAATGACCC 58.846 52.381 5.01 0.00 0.00 4.46
33 34 0.808453 CCCGTACGTTGCCGATGAAT 60.808 55.000 15.21 0.00 37.88 2.57
79 80 0.387929 GCCATGACTACGATCCCGAA 59.612 55.000 0.00 0.00 39.50 4.30
85 86 3.312404 GCATGGCCATGACTACGAT 57.688 52.632 43.18 6.93 41.20 3.73
100 101 0.982852 TGATCTTCGAGGGTGGGCAT 60.983 55.000 0.00 0.00 0.00 4.40
113 114 5.664908 ACTAGTTCATGGAGGATGTGATCTT 59.335 40.000 0.00 0.00 33.29 2.40
126 127 6.287589 ACCTCTTCTACAACTAGTTCATGG 57.712 41.667 4.77 0.00 0.00 3.66
135 136 3.005578 GGTCGACAACCTCTTCTACAACT 59.994 47.826 18.91 0.00 45.45 3.16
146 147 4.309950 GCCACCGGTCGACAACCT 62.310 66.667 18.91 0.00 46.87 3.50
150 151 4.953868 CAACGCCACCGGTCGACA 62.954 66.667 21.16 0.00 39.22 4.35
169 170 0.671251 TGTTTGACGGAATGCCAACC 59.329 50.000 0.00 0.00 0.00 3.77
221 223 4.043200 GGAAGCAAGCACGGCCAC 62.043 66.667 2.24 0.00 0.00 5.01
224 226 1.372128 CAAAGGAAGCAAGCACGGC 60.372 57.895 0.00 0.00 0.00 5.68
237 239 2.464459 GGCCGTCGAGATGCAAAGG 61.464 63.158 0.00 0.00 0.00 3.11
278 280 0.172578 CGACCTCAACATCACGCCTA 59.827 55.000 0.00 0.00 0.00 3.93
287 289 2.640989 CCGTCGTCGACCTCAACA 59.359 61.111 19.29 0.00 39.71 3.33
326 328 1.710013 GGACATTGTCGTGATCGTGT 58.290 50.000 10.56 0.00 38.33 4.49
328 330 0.457853 CCGGACATTGTCGTGATCGT 60.458 55.000 10.56 0.00 38.33 3.73
337 339 4.404098 GGGGTCGCCGGACATTGT 62.404 66.667 5.05 0.00 45.28 2.71
384 386 2.123180 TCGCCCTACTTTCCCCCA 59.877 61.111 0.00 0.00 0.00 4.96
414 803 2.283894 CAAAGCAACCCCCTCCCC 60.284 66.667 0.00 0.00 0.00 4.81
426 875 1.008538 CTTGTCGGTGCCACAAAGC 60.009 57.895 0.00 0.00 33.36 3.51
485 936 1.974265 TTTGGATGAAACGGACAGCA 58.026 45.000 0.00 0.00 0.00 4.41
499 950 3.701532 AAGTTTGCGTCGATTTTTGGA 57.298 38.095 0.00 0.00 0.00 3.53
502 953 4.779987 GACCTAAGTTTGCGTCGATTTTT 58.220 39.130 0.00 0.00 0.00 1.94
510 961 1.004200 CCCCGACCTAAGTTTGCGT 60.004 57.895 0.00 0.00 0.00 5.24
520 971 3.612115 TTCGACCCATCCCCGACCT 62.612 63.158 0.00 0.00 31.60 3.85
523 974 3.026431 GCTTTCGACCCATCCCCGA 62.026 63.158 0.00 0.00 0.00 5.14
536 987 2.997986 TGTCCGTTTTCTATCCGCTTTC 59.002 45.455 0.00 0.00 0.00 2.62
564 1015 3.041940 AGCGAACCGGAGCAAACG 61.042 61.111 9.46 5.41 35.48 3.60
565 1016 2.556287 CAGCGAACCGGAGCAAAC 59.444 61.111 9.46 0.00 35.48 2.93
566 1017 2.668212 CCAGCGAACCGGAGCAAA 60.668 61.111 9.46 0.00 35.48 3.68
567 1018 4.697756 CCCAGCGAACCGGAGCAA 62.698 66.667 9.46 0.00 35.48 3.91
572 1023 3.385749 ATACAGCCCAGCGAACCGG 62.386 63.158 0.00 0.00 0.00 5.28
573 1024 2.173669 CATACAGCCCAGCGAACCG 61.174 63.158 0.00 0.00 0.00 4.44
574 1025 1.819632 CCATACAGCCCAGCGAACC 60.820 63.158 0.00 0.00 0.00 3.62
575 1026 0.676782 AACCATACAGCCCAGCGAAC 60.677 55.000 0.00 0.00 0.00 3.95
576 1027 0.037590 AAACCATACAGCCCAGCGAA 59.962 50.000 0.00 0.00 0.00 4.70
577 1028 0.676466 CAAACCATACAGCCCAGCGA 60.676 55.000 0.00 0.00 0.00 4.93
578 1029 0.960364 ACAAACCATACAGCCCAGCG 60.960 55.000 0.00 0.00 0.00 5.18
579 1030 1.202348 GAACAAACCATACAGCCCAGC 59.798 52.381 0.00 0.00 0.00 4.85
580 1031 1.818674 GGAACAAACCATACAGCCCAG 59.181 52.381 0.00 0.00 0.00 4.45
581 1032 1.427368 AGGAACAAACCATACAGCCCA 59.573 47.619 0.00 0.00 0.00 5.36
582 1033 2.215942 AGGAACAAACCATACAGCCC 57.784 50.000 0.00 0.00 0.00 5.19
583 1034 4.600692 AAAAGGAACAAACCATACAGCC 57.399 40.909 0.00 0.00 0.00 4.85
584 1035 5.466819 GGTAAAAGGAACAAACCATACAGC 58.533 41.667 0.00 0.00 0.00 4.40
585 1036 5.047590 GGGGTAAAAGGAACAAACCATACAG 60.048 44.000 0.00 0.00 31.58 2.74
586 1037 4.833938 GGGGTAAAAGGAACAAACCATACA 59.166 41.667 0.00 0.00 31.58 2.29
587 1038 4.833938 TGGGGTAAAAGGAACAAACCATAC 59.166 41.667 0.00 0.00 31.58 2.39
588 1039 5.076057 TGGGGTAAAAGGAACAAACCATA 57.924 39.130 0.00 0.00 31.58 2.74
589 1040 3.930035 TGGGGTAAAAGGAACAAACCAT 58.070 40.909 0.00 0.00 31.58 3.55
590 1041 3.399952 TGGGGTAAAAGGAACAAACCA 57.600 42.857 0.00 0.00 31.58 3.67
591 1042 4.444536 GTTTGGGGTAAAAGGAACAAACC 58.555 43.478 0.00 0.00 40.82 3.27
592 1043 4.114073 CGTTTGGGGTAAAAGGAACAAAC 58.886 43.478 0.00 0.00 42.32 2.93
593 1044 3.132467 CCGTTTGGGGTAAAAGGAACAAA 59.868 43.478 0.00 0.00 46.84 2.83
594 1045 2.694109 CCGTTTGGGGTAAAAGGAACAA 59.306 45.455 0.00 0.00 46.84 2.83
595 1046 2.308690 CCGTTTGGGGTAAAAGGAACA 58.691 47.619 0.00 0.00 46.84 3.18
599 1050 0.876399 CGTCCGTTTGGGGTAAAAGG 59.124 55.000 0.00 0.00 45.73 3.11
600 1051 0.876399 CCGTCCGTTTGGGGTAAAAG 59.124 55.000 0.00 0.00 36.01 2.27
601 1052 0.536915 CCCGTCCGTTTGGGGTAAAA 60.537 55.000 0.00 0.00 42.05 1.52
602 1053 1.072852 CCCGTCCGTTTGGGGTAAA 59.927 57.895 0.00 0.00 42.05 2.01
603 1054 2.749016 CCCGTCCGTTTGGGGTAA 59.251 61.111 0.00 0.00 42.05 2.85
615 1066 3.782443 ATCTTGTCCGGCCCCGTC 61.782 66.667 5.93 0.00 37.81 4.79
616 1067 4.096003 CATCTTGTCCGGCCCCGT 62.096 66.667 5.93 0.00 37.81 5.28
617 1068 4.856801 CCATCTTGTCCGGCCCCG 62.857 72.222 0.00 0.00 39.44 5.73
618 1069 3.406595 CTCCATCTTGTCCGGCCCC 62.407 68.421 0.00 0.00 0.00 5.80
619 1070 2.190578 CTCCATCTTGTCCGGCCC 59.809 66.667 0.00 0.00 0.00 5.80
620 1071 1.153349 GACTCCATCTTGTCCGGCC 60.153 63.158 0.00 0.00 0.00 6.13
621 1072 1.519455 CGACTCCATCTTGTCCGGC 60.519 63.158 0.00 0.00 0.00 6.13
622 1073 1.519455 GCGACTCCATCTTGTCCGG 60.519 63.158 0.00 0.00 0.00 5.14
623 1074 1.874019 CGCGACTCCATCTTGTCCG 60.874 63.158 0.00 0.00 0.00 4.79
624 1075 2.167861 GCGCGACTCCATCTTGTCC 61.168 63.158 12.10 0.00 0.00 4.02
625 1076 2.508891 CGCGCGACTCCATCTTGTC 61.509 63.158 28.94 0.00 0.00 3.18
626 1077 2.507102 CGCGCGACTCCATCTTGT 60.507 61.111 28.94 0.00 0.00 3.16
627 1078 3.257561 CCGCGCGACTCCATCTTG 61.258 66.667 34.63 6.11 0.00 3.02
628 1079 3.760035 ACCGCGCGACTCCATCTT 61.760 61.111 34.63 0.00 0.00 2.40
629 1080 4.498520 CACCGCGCGACTCCATCT 62.499 66.667 34.63 0.00 0.00 2.90
634 1085 4.719369 AACTCCACCGCGCGACTC 62.719 66.667 34.63 0.00 0.00 3.36
640 1091 2.869503 ATAAGGCCAACTCCACCGCG 62.870 60.000 5.01 0.00 0.00 6.46
641 1092 0.679960 AATAAGGCCAACTCCACCGC 60.680 55.000 5.01 0.00 0.00 5.68
642 1093 1.743394 GAAATAAGGCCAACTCCACCG 59.257 52.381 5.01 0.00 0.00 4.94
643 1094 2.802719 TGAAATAAGGCCAACTCCACC 58.197 47.619 5.01 0.00 0.00 4.61
644 1095 4.016444 TGATGAAATAAGGCCAACTCCAC 58.984 43.478 5.01 0.00 0.00 4.02
645 1096 4.314522 TGATGAAATAAGGCCAACTCCA 57.685 40.909 5.01 0.00 0.00 3.86
646 1097 4.889409 TGATGATGAAATAAGGCCAACTCC 59.111 41.667 5.01 0.00 0.00 3.85
647 1098 6.455360 TTGATGATGAAATAAGGCCAACTC 57.545 37.500 5.01 0.00 0.00 3.01
648 1099 6.438425 AGTTTGATGATGAAATAAGGCCAACT 59.562 34.615 5.01 0.00 0.00 3.16
649 1100 6.633856 AGTTTGATGATGAAATAAGGCCAAC 58.366 36.000 5.01 0.00 0.00 3.77
650 1101 6.855763 AGTTTGATGATGAAATAAGGCCAA 57.144 33.333 5.01 0.00 0.00 4.52
651 1102 6.855763 AAGTTTGATGATGAAATAAGGCCA 57.144 33.333 5.01 0.00 0.00 5.36
652 1103 8.250332 TGTAAAGTTTGATGATGAAATAAGGCC 58.750 33.333 0.00 0.00 0.00 5.19
653 1104 9.807649 ATGTAAAGTTTGATGATGAAATAAGGC 57.192 29.630 0.00 0.00 0.00 4.35
774 1231 0.597568 TTTTGGAGCCGAGTGCATTG 59.402 50.000 0.00 0.00 44.83 2.82
782 1239 1.351017 AGAGTGGATTTTTGGAGCCGA 59.649 47.619 0.00 0.00 0.00 5.54
853 1310 9.062524 ACAACAATAATGCACTTGTAGTTTCTA 57.937 29.630 10.51 0.00 34.61 2.10
854 1311 7.940850 ACAACAATAATGCACTTGTAGTTTCT 58.059 30.769 10.51 0.00 34.61 2.52
855 1312 8.479280 CAACAACAATAATGCACTTGTAGTTTC 58.521 33.333 10.51 0.00 34.61 2.78
856 1313 7.437862 CCAACAACAATAATGCACTTGTAGTTT 59.562 33.333 10.51 3.76 34.61 2.66
857 1314 6.922957 CCAACAACAATAATGCACTTGTAGTT 59.077 34.615 10.51 0.15 34.61 2.24
858 1315 6.040391 ACCAACAACAATAATGCACTTGTAGT 59.960 34.615 10.51 3.45 34.61 2.73
859 1316 6.446318 ACCAACAACAATAATGCACTTGTAG 58.554 36.000 10.51 3.77 34.61 2.74
860 1317 6.398234 ACCAACAACAATAATGCACTTGTA 57.602 33.333 10.51 0.00 34.61 2.41
889 1346 4.789095 AACGTGTATTATCATGTTCCGC 57.211 40.909 0.00 0.00 41.76 5.54
937 1394 7.255208 GGTCTCAAAATGTTTAGTTCCCGTAAA 60.255 37.037 0.00 0.00 0.00 2.01
938 1395 6.205270 GGTCTCAAAATGTTTAGTTCCCGTAA 59.795 38.462 0.00 0.00 0.00 3.18
939 1396 5.702209 GGTCTCAAAATGTTTAGTTCCCGTA 59.298 40.000 0.00 0.00 0.00 4.02
940 1397 4.517832 GGTCTCAAAATGTTTAGTTCCCGT 59.482 41.667 0.00 0.00 0.00 5.28
941 1398 4.517453 TGGTCTCAAAATGTTTAGTTCCCG 59.483 41.667 0.00 0.00 0.00 5.14
942 1399 6.213677 GTTGGTCTCAAAATGTTTAGTTCCC 58.786 40.000 0.00 0.00 34.28 3.97
943 1400 6.213677 GGTTGGTCTCAAAATGTTTAGTTCC 58.786 40.000 0.00 0.00 34.28 3.62
944 1401 5.912955 CGGTTGGTCTCAAAATGTTTAGTTC 59.087 40.000 0.00 0.00 34.28 3.01
960 1417 2.153366 TTTTCTACCGTCGGTTGGTC 57.847 50.000 24.36 0.00 40.96 4.02
961 1418 2.618442 TTTTTCTACCGTCGGTTGGT 57.382 45.000 24.36 0.00 43.62 3.67
981 1463 1.037493 TGTAGTCAACGGCTGAGTGT 58.963 50.000 0.00 0.00 38.25 3.55
987 1469 1.078426 GCCCATGTAGTCAACGGCT 60.078 57.895 0.00 0.00 38.20 5.52
999 1481 2.079158 GGACACATCATATCGCCCATG 58.921 52.381 0.00 0.00 0.00 3.66
1004 1486 0.319900 AGCGGGACACATCATATCGC 60.320 55.000 0.00 0.00 41.64 4.58
1089 1571 1.374125 CGACATGACGGTGGAAGCA 60.374 57.895 9.78 0.00 0.00 3.91
1155 1637 1.153823 CCTCGTTACCAGGTGAGCG 60.154 63.158 0.76 4.13 0.00 5.03
1373 1855 1.451504 CAGCTCACCTGGAACACCA 59.548 57.895 0.00 0.00 37.93 4.17
1432 1914 7.334421 TGATGATCTAAAAAGAAAAGCGCTACT 59.666 33.333 12.05 8.21 0.00 2.57
1447 1929 8.231692 TCCGGCAAATTTATTGATGATCTAAA 57.768 30.769 0.00 0.00 0.00 1.85
1469 1951 4.985413 ACATGCACAAAATGTAAGATCCG 58.015 39.130 0.00 0.00 36.50 4.18
1484 1966 3.303924 GCAATTTCACCCAAAACATGCAC 60.304 43.478 0.00 0.00 35.75 4.57
1497 1980 6.020121 GCATGTGAATGACATAGCAATTTCAC 60.020 38.462 8.30 8.30 43.96 3.18
1510 1993 0.813184 CAGTGGGGCATGTGAATGAC 59.187 55.000 0.00 0.00 0.00 3.06
1549 2032 7.877612 AGTTTCACTTGTTTCCATTTTCTTGTT 59.122 29.630 0.00 0.00 0.00 2.83
1595 2078 4.652881 ACCTTGCAGAGATCAGACATGATA 59.347 41.667 0.00 0.00 46.39 2.15
1598 2081 2.937149 CACCTTGCAGAGATCAGACATG 59.063 50.000 0.00 0.00 0.00 3.21
1643 2154 6.209192 TGGCAAACAGACATGATAAAATCAGT 59.791 34.615 0.00 0.00 43.53 3.41
1672 2183 1.816835 TCGCTGACCACGAAATCTAGT 59.183 47.619 0.00 0.00 36.44 2.57
1729 2240 8.217799 CCTCCATAATCTTCCCAGTTATTACAA 58.782 37.037 0.00 0.00 0.00 2.41
1813 2324 2.035961 TGTTGGACCAGAGAAGAAGTCG 59.964 50.000 0.00 0.00 0.00 4.18
1827 2338 5.857268 TGTAGTACCCTTTAAGTGTTGGAC 58.143 41.667 0.00 0.00 0.00 4.02
1891 2402 2.686915 CAGGAACCATTTCTGATGGCTC 59.313 50.000 5.00 2.80 42.82 4.70
1899 2410 7.828223 GCATGATAGATATCAGGAACCATTTCT 59.172 37.037 16.41 0.00 44.68 2.52
1930 2442 6.072649 TGCATATGATGATTTCCATTGGTCT 58.927 36.000 6.97 0.00 35.17 3.85
1983 2495 7.035612 GCTGGCAAACTAAAATTAGCAGTAAT 58.964 34.615 0.13 0.00 34.09 1.89
2036 2548 1.770061 ACAGGACTACACCCGGAAAAA 59.230 47.619 0.73 0.00 0.00 1.94
2037 2549 1.426751 ACAGGACTACACCCGGAAAA 58.573 50.000 0.73 0.00 0.00 2.29
2038 2550 2.307496 TACAGGACTACACCCGGAAA 57.693 50.000 0.73 0.00 0.00 3.13
2039 2551 2.537633 ATACAGGACTACACCCGGAA 57.462 50.000 0.73 0.00 0.00 4.30
2040 2552 2.024655 AGAATACAGGACTACACCCGGA 60.025 50.000 0.73 0.00 0.00 5.14
2041 2553 2.385803 AGAATACAGGACTACACCCGG 58.614 52.381 0.00 0.00 0.00 5.73
2042 2554 3.194968 ACAAGAATACAGGACTACACCCG 59.805 47.826 0.00 0.00 0.00 5.28
2043 2555 4.820894 ACAAGAATACAGGACTACACCC 57.179 45.455 0.00 0.00 0.00 4.61
2044 2556 7.924947 GGTATAACAAGAATACAGGACTACACC 59.075 40.741 0.00 0.00 32.49 4.16
2045 2557 8.472413 TGGTATAACAAGAATACAGGACTACAC 58.528 37.037 0.00 0.00 32.49 2.90
2046 2558 8.598202 TGGTATAACAAGAATACAGGACTACA 57.402 34.615 0.00 0.00 32.49 2.74
2047 2559 8.910944 TCTGGTATAACAAGAATACAGGACTAC 58.089 37.037 0.00 0.00 32.49 2.73
2048 2560 9.132923 CTCTGGTATAACAAGAATACAGGACTA 57.867 37.037 0.00 0.00 32.49 2.59
2049 2561 7.620094 ACTCTGGTATAACAAGAATACAGGACT 59.380 37.037 6.88 0.00 32.49 3.85
2050 2562 7.783042 ACTCTGGTATAACAAGAATACAGGAC 58.217 38.462 6.88 0.00 32.49 3.85
2051 2563 7.973048 ACTCTGGTATAACAAGAATACAGGA 57.027 36.000 6.88 0.00 32.49 3.86
2061 2573 5.700832 CAGCACTGAAACTCTGGTATAACAA 59.299 40.000 0.00 0.00 0.00 2.83
2080 2592 6.906659 AGCAAAGATAATATATGCACAGCAC 58.093 36.000 0.00 0.00 43.04 4.40
2082 2594 8.180267 CCTAAGCAAAGATAATATATGCACAGC 58.820 37.037 0.00 0.00 39.42 4.40
2093 2605 7.039784 TGACAAAACAGCCTAAGCAAAGATAAT 60.040 33.333 0.00 0.00 43.56 1.28
2096 2608 4.584325 TGACAAAACAGCCTAAGCAAAGAT 59.416 37.500 0.00 0.00 43.56 2.40
2097 2609 3.951037 TGACAAAACAGCCTAAGCAAAGA 59.049 39.130 0.00 0.00 43.56 2.52
2155 2667 3.648067 CCCAGGCAAGAATAGTAGGATCA 59.352 47.826 0.00 0.00 0.00 2.92
2164 2676 1.583556 TCAGCTCCCAGGCAAGAATA 58.416 50.000 0.00 0.00 34.17 1.75
2539 3054 3.037549 GGGATCAGACATGAGGACTTCT 58.962 50.000 0.00 0.00 39.29 2.85
2540 3055 2.768527 TGGGATCAGACATGAGGACTTC 59.231 50.000 0.00 0.00 39.29 3.01
2541 3056 2.503356 GTGGGATCAGACATGAGGACTT 59.497 50.000 0.00 0.00 39.29 3.01
2542 3057 2.114616 GTGGGATCAGACATGAGGACT 58.885 52.381 0.00 0.00 39.29 3.85
2543 3058 1.833630 TGTGGGATCAGACATGAGGAC 59.166 52.381 0.00 0.00 39.29 3.85
2544 3059 2.252535 TGTGGGATCAGACATGAGGA 57.747 50.000 0.00 0.00 39.29 3.71
2545 3060 3.354948 TTTGTGGGATCAGACATGAGG 57.645 47.619 0.00 0.00 39.29 3.86
2546 3061 4.074259 TGTTTTGTGGGATCAGACATGAG 58.926 43.478 0.00 0.00 39.29 2.90
2590 3105 3.252215 TGTGAAGTGGTTTAATTCAGCCG 59.748 43.478 0.00 0.00 43.27 5.52
2621 3136 5.379706 AGCTCAGCCCTGATAGTAAATTT 57.620 39.130 0.00 0.00 39.13 1.82
2661 3179 1.347707 TGTTGAGTCAGGCAACCTAGG 59.652 52.381 7.41 7.41 43.71 3.02
2687 3205 3.440872 TGTTAACAAACTGAACGTGGCTT 59.559 39.130 5.64 0.00 0.00 4.35
2705 3223 6.832520 ATATGTTGTTGCATCCAAGTGTTA 57.167 33.333 0.00 0.00 0.00 2.41
2752 3270 1.361271 CCGATCACAATGGGCATGC 59.639 57.895 9.90 9.90 0.00 4.06
2762 3280 1.285280 ATCCAAACTCCCCGATCACA 58.715 50.000 0.00 0.00 0.00 3.58
2933 3451 5.804473 TGCAAAAATAACTGCATAACCATCG 59.196 36.000 0.00 0.00 43.44 3.84
3143 3696 1.325476 GCAGGATGGAGGGGCAAAAG 61.325 60.000 0.00 0.00 35.86 2.27
3206 3759 6.692486 TGGCAAACAAATACGTAAATGGAAT 58.308 32.000 13.50 0.31 0.00 3.01
3260 3814 5.164954 GTTCTCGGGATGAATAGTAGCATC 58.835 45.833 0.00 7.08 40.05 3.91
3264 3818 4.832590 ACGTTCTCGGGATGAATAGTAG 57.167 45.455 0.00 0.00 41.85 2.57
3276 3830 2.419667 ACATTTACCCAACGTTCTCGG 58.580 47.619 0.00 0.35 41.85 4.63
3278 3832 7.255001 CCCATATTACATTTACCCAACGTTCTC 60.255 40.741 0.00 0.00 0.00 2.87
3293 3847 9.311676 TCACAATATCAAATGCCCATATTACAT 57.688 29.630 0.00 0.00 0.00 2.29
3356 3910 1.663379 CCATGTGCCCATGTGCTCAG 61.663 60.000 10.55 3.68 45.83 3.35
3386 3940 3.201290 GACAGGGCAAGTGACATATCAG 58.799 50.000 0.00 0.00 34.75 2.90
3388 3942 3.266510 TGACAGGGCAAGTGACATATC 57.733 47.619 0.00 0.00 0.00 1.63
3429 3989 6.543465 TGTGCCTCCATAATAATTGAGAACAG 59.457 38.462 0.00 0.00 28.35 3.16
3430 3990 6.422333 TGTGCCTCCATAATAATTGAGAACA 58.578 36.000 0.00 0.00 28.35 3.18
3431 3991 6.942532 TGTGCCTCCATAATAATTGAGAAC 57.057 37.500 0.00 0.00 28.35 3.01
3459 4019 4.807304 ACTACAACTCTAACACAAACACCG 59.193 41.667 0.00 0.00 0.00 4.94
3469 4029 7.190920 ACATTTGCAGAACTACAACTCTAAC 57.809 36.000 0.00 0.00 0.00 2.34
3667 4245 8.355913 AGCAGAGCCAATTTTTAATCTAATAGC 58.644 33.333 0.00 0.00 0.00 2.97
3687 4265 0.389556 TCTTCTTCGCTGCAGCAGAG 60.390 55.000 36.03 29.84 42.21 3.35
3692 4270 0.374063 CAGCATCTTCTTCGCTGCAG 59.626 55.000 10.11 10.11 45.85 4.41
3716 4294 1.872952 TGCTTTCGGTCATTGACACAG 59.127 47.619 18.09 9.03 33.68 3.66
3746 4324 7.041098 CCAATATAAGACCTGGAATGTGTAAGC 60.041 40.741 0.00 0.00 0.00 3.09
3755 4333 5.130477 GTCTGTCCCAATATAAGACCTGGAA 59.870 44.000 0.00 0.00 32.82 3.53
3766 4344 1.768275 TGCCATCGTCTGTCCCAATAT 59.232 47.619 0.00 0.00 0.00 1.28
3786 4364 6.043411 GCACTCGGTAGATCAGAATTTAAGT 58.957 40.000 0.00 0.00 0.00 2.24
3864 4442 5.335661 CCAAGTATGGCAACTACAACCTTTC 60.336 44.000 0.00 0.00 40.58 2.62
3885 4463 9.656323 ATGGATAGACTTGAATACTAGTACCAA 57.344 33.333 4.31 11.27 32.85 3.67
3910 4488 8.457261 GCTCAGTCTTCTGTCATTTTATTTGAT 58.543 33.333 0.00 0.00 41.91 2.57


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

AutoCloner maintained by Alex Coulton.