Multiple sequence alignment - TraesCS1A01G380600

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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 TraesCS1A01G380600 chr1A 100.000 3334 0 0 1 3334 551681541 551678208 0.000000e+00 6157
1 TraesCS1A01G380600 chr1A 83.117 1001 125 29 1430 2403 551736694 551735711 0.000000e+00 872
2 TraesCS1A01G380600 chr1A 87.293 362 43 2 922 1281 551737057 551736697 8.610000e-111 411
3 TraesCS1A01G380600 chr1B 86.732 3354 237 61 79 3334 632635752 632632509 0.000000e+00 3537
4 TraesCS1A01G380600 chr1B 88.945 2587 196 44 8 2546 632635859 632633315 0.000000e+00 3110
5 TraesCS1A01G380600 chr1B 83.124 1511 209 29 922 2403 632650984 632649491 0.000000e+00 1336
6 TraesCS1A01G380600 chr1B 79.679 748 52 57 3 741 632651894 632651238 6.560000e-122 448
7 TraesCS1A01G380600 chr7B 76.957 1380 219 60 995 2327 74299786 74301113 0.000000e+00 695
8 TraesCS1A01G380600 chr7D 80.243 658 96 20 974 1601 114817987 114818640 6.520000e-127 464
9 TraesCS1A01G380600 chr7D 79.828 466 70 15 1880 2327 114818895 114819354 5.370000e-83 318
10 TraesCS1A01G380600 chr7D 77.944 467 63 24 1887 2324 114839958 114840413 4.270000e-64 255
11 TraesCS1A01G380600 chr7A 79.504 605 98 16 1022 1601 119688749 119689352 1.110000e-109 407
12 TraesCS1A01G380600 chr7A 78.091 461 79 15 1884 2327 119689605 119690060 4.240000e-69 272
13 TraesCS1A01G380600 chr3A 89.139 267 14 11 502 763 734641256 734641000 5.370000e-83 318
14 TraesCS1A01G380600 chr3A 82.031 256 36 5 503 758 729695051 729694806 3.370000e-50 209
15 TraesCS1A01G380600 chr6A 76.758 512 98 17 1038 1541 437021250 437021748 1.970000e-67 267
16 TraesCS1A01G380600 chr6D 75.665 526 105 18 1025 1541 288541793 288541282 1.200000e-59 241
17 TraesCS1A01G380600 chr2A 75.851 323 65 12 1158 1475 600529807 600529493 5.760000e-33 152
18 TraesCS1A01G380600 chrUn 75.915 328 56 19 1158 1475 479365934 479365620 2.680000e-31 147
19 TraesCS1A01G380600 chr2D 75.915 328 56 19 1158 1475 457255626 457255312 2.680000e-31 147


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 TraesCS1A01G380600 chr1A 551678208 551681541 3333 True 6157.0 6157 100.0000 1 3334 1 chr1A.!!$R1 3333
1 TraesCS1A01G380600 chr1A 551735711 551737057 1346 True 641.5 872 85.2050 922 2403 2 chr1A.!!$R2 1481
2 TraesCS1A01G380600 chr1B 632632509 632635859 3350 True 3323.5 3537 87.8385 8 3334 2 chr1B.!!$R1 3326
3 TraesCS1A01G380600 chr1B 632649491 632651894 2403 True 892.0 1336 81.4015 3 2403 2 chr1B.!!$R2 2400
4 TraesCS1A01G380600 chr7B 74299786 74301113 1327 False 695.0 695 76.9570 995 2327 1 chr7B.!!$F1 1332
5 TraesCS1A01G380600 chr7D 114817987 114819354 1367 False 391.0 464 80.0355 974 2327 2 chr7D.!!$F2 1353
6 TraesCS1A01G380600 chr7A 119688749 119690060 1311 False 339.5 407 78.7975 1022 2327 2 chr7A.!!$F1 1305
7 TraesCS1A01G380600 chr6D 288541282 288541793 511 True 241.0 241 75.6650 1025 1541 1 chr6D.!!$R1 516

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
910 1101 0.179004 CAGTAAGGTGTGGCCCAACA 60.179 55.0 11.28 1.88 38.26 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2451 2713 0.452987 CCACCCAGCAATTCATCACG 59.547 55.0 0.0 0.0 0.0 4.35 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
25 26 1.737793 CAGTGACGGCCCAAAAGATAC 59.262 52.381 0.00 0.00 0.00 2.24
136 175 2.444706 CTCCCGCCTCCCTCATCA 60.445 66.667 0.00 0.00 0.00 3.07
146 185 1.895707 CCCTCATCATTCCAGCGCC 60.896 63.158 2.29 0.00 0.00 6.53
196 235 0.543174 GTCCAGTCACTCCAGACCCT 60.543 60.000 0.00 0.00 39.34 4.34
199 238 0.894141 CAGTCACTCCAGACCCTCTG 59.106 60.000 0.00 0.00 43.91 3.35
215 254 3.311110 TGGACGTCCAGCAGACCC 61.311 66.667 33.23 5.07 43.08 4.46
216 255 4.083862 GGACGTCCAGCAGACCCC 62.084 72.222 29.75 0.00 43.08 4.95
217 256 4.436998 GACGTCCAGCAGACCCCG 62.437 72.222 3.51 0.00 43.08 5.73
219 258 4.436998 CGTCCAGCAGACCCCGTC 62.437 72.222 1.71 0.00 43.08 4.79
220 259 4.436998 GTCCAGCAGACCCCGTCG 62.437 72.222 0.00 0.00 39.84 5.12
310 349 2.182030 CGCCTCGTCCTCCTGTTC 59.818 66.667 0.00 0.00 0.00 3.18
320 359 1.229658 CTCCTGTTCCCCTCCCAGT 60.230 63.158 0.00 0.00 0.00 4.00
378 417 6.265577 CAATACACATAAAAAGGTAGCAGCC 58.734 40.000 0.00 0.00 0.00 4.85
393 432 1.071605 CAGCCGCTTGTACACTTCTC 58.928 55.000 0.00 0.00 0.00 2.87
424 463 1.822990 TGTCGAAACCCTAGCAGTAGG 59.177 52.381 0.00 0.00 45.25 3.18
501 541 6.293081 GCACTATATGTAGTTGCTGTCCATTG 60.293 42.308 0.00 0.00 39.12 2.82
519 559 5.059161 CCATTGTTGACACTTCTCTTGAGA 58.941 41.667 0.00 0.00 0.00 3.27
564 604 4.037446 TCGTGTCCTTTTGAAAAGATTGGG 59.963 41.667 18.59 3.05 0.00 4.12
594 635 2.834549 ACCCTGGAGACTGTGATTACTG 59.165 50.000 0.00 0.00 0.00 2.74
694 740 6.935741 ATGTAGTGTGCTGTGAAACTTTAA 57.064 33.333 0.00 0.00 38.04 1.52
721 775 5.288543 GCACTAGGATGCACTATATTTGC 57.711 43.478 0.00 2.70 45.39 3.68
746 800 3.991773 GCTGTCCGTTGTTGTCACTAATA 59.008 43.478 0.00 0.00 0.00 0.98
753 807 4.201628 CGTTGTTGTCACTAATAGAGCTGC 60.202 45.833 0.00 0.00 0.00 5.25
754 808 3.511699 TGTTGTCACTAATAGAGCTGCG 58.488 45.455 0.00 0.00 0.00 5.18
760 896 2.474359 CACTAATAGAGCTGCGATGCAC 59.526 50.000 0.00 0.00 33.79 4.57
797 943 9.282247 CTTACAAATTGTTGTCATTGATAGAGC 57.718 33.333 3.17 0.00 45.00 4.09
798 944 7.458409 ACAAATTGTTGTCATTGATAGAGCT 57.542 32.000 0.00 0.00 45.00 4.09
799 945 7.310664 ACAAATTGTTGTCATTGATAGAGCTG 58.689 34.615 0.00 0.00 45.00 4.24
800 946 7.040201 ACAAATTGTTGTCATTGATAGAGCTGT 60.040 33.333 0.00 0.00 45.00 4.40
801 947 5.868043 TTGTTGTCATTGATAGAGCTGTG 57.132 39.130 0.00 0.00 0.00 3.66
802 948 5.151297 TGTTGTCATTGATAGAGCTGTGA 57.849 39.130 0.00 0.00 0.00 3.58
803 949 5.550290 TGTTGTCATTGATAGAGCTGTGAA 58.450 37.500 0.00 0.00 0.00 3.18
804 950 5.997129 TGTTGTCATTGATAGAGCTGTGAAA 59.003 36.000 0.00 0.00 0.00 2.69
846 1037 6.085555 TGAATGTAGCTACTGTACCTATGC 57.914 41.667 23.84 7.22 0.00 3.14
857 1048 5.605534 ACTGTACCTATGCATGAATGTCTC 58.394 41.667 10.16 0.01 0.00 3.36
902 1093 6.710744 AGGTCTTACAAAATCAGTAAGGTGTG 59.289 38.462 11.75 0.00 45.27 3.82
910 1101 0.179004 CAGTAAGGTGTGGCCCAACA 60.179 55.000 11.28 1.88 38.26 3.33
914 1105 1.685355 AAGGTGTGGCCCAACAAAGC 61.685 55.000 11.28 0.00 38.26 3.51
931 1122 1.884235 AGCCGAAGTTTGAGAAGTGG 58.116 50.000 0.00 0.00 0.00 4.00
938 1129 1.024271 GTTTGAGAAGTGGCAGTGCA 58.976 50.000 18.61 0.00 0.00 4.57
982 1175 1.069090 GTCCACTGTGCGGAAGTCA 59.931 57.895 1.29 0.00 33.29 3.41
1020 1215 2.439338 TGCACGCCACAACCAACT 60.439 55.556 0.00 0.00 0.00 3.16
1023 1218 2.124320 ACGCCACAACCAACTGCT 60.124 55.556 0.00 0.00 0.00 4.24
1077 1272 1.299850 CAAGACGACGGCTGACACA 60.300 57.895 2.63 0.00 0.00 3.72
1177 1384 0.098200 CGAGTACTTCATCGACCGCA 59.902 55.000 0.00 0.00 41.40 5.69
1281 1488 2.750141 TCCAAGAGGCGTCCTACTAT 57.250 50.000 2.06 0.00 31.76 2.12
1290 1497 1.705873 CGTCCTACTATGGCCTCCTT 58.294 55.000 3.32 0.00 0.00 3.36
1295 1502 2.398588 CTACTATGGCCTCCTTGACCA 58.601 52.381 3.32 0.00 37.99 4.02
1324 1531 2.491621 CTCGCATCGGTGAGCTCA 59.508 61.111 13.74 13.74 44.00 4.26
1423 1643 4.178169 ACGGGGGTGTTGCGTCAA 62.178 61.111 0.00 0.00 0.00 3.18
1437 1657 1.303561 GTCAAGCACAGCCCCATCA 60.304 57.895 0.00 0.00 0.00 3.07
1486 1706 2.996395 CCAGCCAGTCTGCCTCAT 59.004 61.111 0.00 0.00 41.50 2.90
1568 1791 1.748122 CGGCATGGCAGCTTTCTCT 60.748 57.895 20.37 0.00 34.17 3.10
1708 1944 2.422597 CAACAACTCGGGCATAACTCA 58.577 47.619 0.00 0.00 0.00 3.41
1788 2024 5.926542 TCTTTCTTTGACCTGAAGTATGTCG 59.073 40.000 0.00 0.00 0.00 4.35
1838 2074 4.347453 CTGGCAAGCACCAACGCC 62.347 66.667 0.00 0.00 45.11 5.68
1877 2113 1.806542 TGCTCACCGAAAGATGCTTTC 59.193 47.619 9.30 9.30 0.00 2.62
1937 2173 1.490490 AGTGTTGTGTGGTCATGGTCT 59.510 47.619 0.00 0.00 0.00 3.85
1939 2175 0.593128 GTTGTGTGGTCATGGTCTGC 59.407 55.000 0.00 0.00 0.00 4.26
2070 2309 3.465403 CTCGGGGCTCTGTCCAGG 61.465 72.222 0.00 0.00 0.00 4.45
2085 2330 0.469917 CCAGGAGCCGTGGACATATT 59.530 55.000 7.84 0.00 37.23 1.28
2086 2331 1.586422 CAGGAGCCGTGGACATATTG 58.414 55.000 0.00 0.00 0.00 1.90
2087 2332 1.134401 CAGGAGCCGTGGACATATTGT 60.134 52.381 0.00 0.00 0.00 2.71
2089 2334 2.769663 AGGAGCCGTGGACATATTGTAA 59.230 45.455 0.00 0.00 0.00 2.41
2161 2415 2.166459 TCTTAGCGTCCAAGGATGACAG 59.834 50.000 12.42 4.42 33.22 3.51
2194 2448 3.110139 CGGCCCAAATCATGACCG 58.890 61.111 0.00 0.95 40.54 4.79
2296 2550 0.729116 CATCATGAGGACAACGTGCC 59.271 55.000 0.00 0.00 0.00 5.01
2333 2593 3.142393 CCACCTCCCATCGCCTAG 58.858 66.667 0.00 0.00 0.00 3.02
2401 2663 0.178068 TTGGATAGTGAGCCGGCTTC 59.822 55.000 33.34 25.51 31.83 3.86
2437 2699 6.855763 ATATTTGTGCTTTGGAATTGGAGA 57.144 33.333 0.00 0.00 0.00 3.71
2438 2700 5.750352 ATTTGTGCTTTGGAATTGGAGAT 57.250 34.783 0.00 0.00 0.00 2.75
2439 2701 4.524316 TTGTGCTTTGGAATTGGAGATG 57.476 40.909 0.00 0.00 0.00 2.90
2440 2702 3.499338 TGTGCTTTGGAATTGGAGATGT 58.501 40.909 0.00 0.00 0.00 3.06
2441 2703 4.661222 TGTGCTTTGGAATTGGAGATGTA 58.339 39.130 0.00 0.00 0.00 2.29
2442 2704 4.458989 TGTGCTTTGGAATTGGAGATGTAC 59.541 41.667 0.00 0.00 0.00 2.90
2443 2705 4.702131 GTGCTTTGGAATTGGAGATGTACT 59.298 41.667 0.00 0.00 0.00 2.73
2444 2706 4.701651 TGCTTTGGAATTGGAGATGTACTG 59.298 41.667 0.00 0.00 0.00 2.74
2445 2707 4.702131 GCTTTGGAATTGGAGATGTACTGT 59.298 41.667 0.00 0.00 0.00 3.55
2446 2708 5.392380 GCTTTGGAATTGGAGATGTACTGTG 60.392 44.000 0.00 0.00 0.00 3.66
2447 2709 3.609853 TGGAATTGGAGATGTACTGTGC 58.390 45.455 0.00 0.00 0.00 4.57
2448 2710 3.264193 TGGAATTGGAGATGTACTGTGCT 59.736 43.478 0.00 0.00 0.00 4.40
2449 2711 4.263462 TGGAATTGGAGATGTACTGTGCTT 60.263 41.667 0.00 0.00 0.00 3.91
2450 2712 4.702131 GGAATTGGAGATGTACTGTGCTTT 59.298 41.667 0.00 0.00 0.00 3.51
2451 2713 5.163713 GGAATTGGAGATGTACTGTGCTTTC 60.164 44.000 0.00 0.00 0.00 2.62
2452 2714 2.959516 TGGAGATGTACTGTGCTTTCG 58.040 47.619 0.00 0.00 0.00 3.46
2515 2777 6.232581 AGATGAACTGAGGTAAGATGAAGG 57.767 41.667 0.00 0.00 0.00 3.46
2548 2837 4.122776 AGTCGCACCTGCTTAATTAGATG 58.877 43.478 0.00 0.00 39.32 2.90
2557 2846 5.238214 CCTGCTTAATTAGATGAACTGAGGC 59.762 44.000 0.00 0.00 0.00 4.70
2586 2875 0.737715 GTAGACCTCACTTGCCAGCG 60.738 60.000 0.00 0.00 0.00 5.18
2601 2890 1.541233 CCAGCGCTCCCCTATAACTTG 60.541 57.143 7.13 0.00 0.00 3.16
2607 2896 2.158798 GCTCCCCTATAACTTGTGGGTC 60.159 54.545 0.00 0.00 38.03 4.46
2612 2901 4.296056 CCCTATAACTTGTGGGTCCTAGT 58.704 47.826 0.00 0.00 35.13 2.57
2613 2902 4.720273 CCCTATAACTTGTGGGTCCTAGTT 59.280 45.833 0.00 0.00 35.13 2.24
2614 2903 5.901276 CCCTATAACTTGTGGGTCCTAGTTA 59.099 44.000 0.00 0.00 37.46 2.24
2674 2963 2.614057 CAAGTAGGATTTGATCACCCGC 59.386 50.000 0.00 0.00 0.00 6.13
2678 2967 1.643832 GATTTGATCACCCGCGAGC 59.356 57.895 8.23 0.00 0.00 5.03
2681 2970 2.773397 TTTGATCACCCGCGAGCGAA 62.773 55.000 19.72 0.04 42.83 4.70
2682 2971 3.255379 GATCACCCGCGAGCGAAC 61.255 66.667 19.72 0.00 42.83 3.95
2730 3019 6.015688 TGTCTGTTACTGTAAACTAGGACCTG 60.016 42.308 3.53 0.00 0.00 4.00
2735 3024 8.048514 TGTTACTGTAAACTAGGACCTGTTTTT 58.951 33.333 20.14 12.23 37.53 1.94
2771 3062 3.540314 ACAAAATCAAAGTTGGCAGCA 57.460 38.095 3.63 0.00 0.00 4.41
2773 3064 4.060205 ACAAAATCAAAGTTGGCAGCATC 58.940 39.130 3.63 0.00 0.00 3.91
2774 3065 4.059511 CAAAATCAAAGTTGGCAGCATCA 58.940 39.130 3.63 0.00 0.00 3.07
2775 3066 4.339872 AAATCAAAGTTGGCAGCATCAA 57.660 36.364 3.63 0.00 0.00 2.57
2776 3067 2.798976 TCAAAGTTGGCAGCATCAAC 57.201 45.000 3.63 6.45 43.31 3.18
2778 3069 1.032014 AAAGTTGGCAGCATCAACGT 58.968 45.000 3.63 3.68 46.36 3.99
2779 3070 1.890876 AAGTTGGCAGCATCAACGTA 58.109 45.000 3.63 0.00 46.36 3.57
2810 3121 4.007581 TCCTGTCAATATCTCCCCTTCA 57.992 45.455 0.00 0.00 0.00 3.02
2836 3147 6.004574 GGACTCTTTCACCTGGTCTTTTAAT 58.995 40.000 0.00 0.00 0.00 1.40
2838 3149 6.601332 ACTCTTTCACCTGGTCTTTTAATGA 58.399 36.000 0.00 0.00 0.00 2.57
2853 3164 6.658816 TCTTTTAATGAGCAAGCAGGTATCAA 59.341 34.615 0.00 0.00 0.00 2.57
2879 3190 5.008415 GCACAGATCAAGGGACTGATTTATG 59.992 44.000 0.00 0.00 40.86 1.90
2891 3202 7.403231 AGGGACTGATTTATGTTCCTTAGAAGA 59.597 37.037 0.00 0.00 39.00 2.87
2941 3252 9.670719 GCAAAATTATTAGCTTCTATGGAGTTC 57.329 33.333 0.00 0.00 0.00 3.01
2963 3274 8.704668 AGTTCAAAAATTAAGGACCATCAAGTT 58.295 29.630 0.00 0.00 0.00 2.66
3028 3340 4.336433 CACAATCCGAATAAGACCTTGCAT 59.664 41.667 0.00 0.00 0.00 3.96
3061 3373 4.335315 CACACTTGAAAACAGCTCCACTAA 59.665 41.667 0.00 0.00 0.00 2.24
3062 3374 5.009010 CACACTTGAAAACAGCTCCACTAAT 59.991 40.000 0.00 0.00 0.00 1.73
3063 3375 5.594317 ACACTTGAAAACAGCTCCACTAATT 59.406 36.000 0.00 0.00 0.00 1.40
3064 3376 6.096846 ACACTTGAAAACAGCTCCACTAATTT 59.903 34.615 0.00 0.00 0.00 1.82
3065 3377 6.638468 CACTTGAAAACAGCTCCACTAATTTC 59.362 38.462 0.00 0.00 34.80 2.17
3066 3378 6.321181 ACTTGAAAACAGCTCCACTAATTTCA 59.679 34.615 0.00 0.00 38.96 2.69
3067 3379 6.899393 TGAAAACAGCTCCACTAATTTCAT 57.101 33.333 0.00 0.00 37.29 2.57
3068 3380 7.288810 TGAAAACAGCTCCACTAATTTCATT 57.711 32.000 0.00 0.00 37.29 2.57
3069 3381 7.370383 TGAAAACAGCTCCACTAATTTCATTC 58.630 34.615 0.00 0.00 37.29 2.67
3070 3382 6.899393 AAACAGCTCCACTAATTTCATTCA 57.101 33.333 0.00 0.00 0.00 2.57
3071 3383 6.506500 AACAGCTCCACTAATTTCATTCAG 57.493 37.500 0.00 0.00 0.00 3.02
3072 3384 4.397417 ACAGCTCCACTAATTTCATTCAGC 59.603 41.667 0.00 0.00 0.00 4.26
3073 3385 3.950395 AGCTCCACTAATTTCATTCAGCC 59.050 43.478 0.00 0.00 0.00 4.85
3074 3386 3.696051 GCTCCACTAATTTCATTCAGCCA 59.304 43.478 0.00 0.00 0.00 4.75
3075 3387 4.158394 GCTCCACTAATTTCATTCAGCCAA 59.842 41.667 0.00 0.00 0.00 4.52
3076 3388 5.336690 GCTCCACTAATTTCATTCAGCCAAA 60.337 40.000 0.00 0.00 0.00 3.28
3077 3389 6.662865 TCCACTAATTTCATTCAGCCAAAA 57.337 33.333 0.00 0.00 0.00 2.44
3078 3390 6.454795 TCCACTAATTTCATTCAGCCAAAAC 58.545 36.000 0.00 0.00 0.00 2.43
3084 3396 7.571080 AATTTCATTCAGCCAAAACATTTGT 57.429 28.000 2.53 0.00 0.00 2.83
3102 3414 0.811281 GTTGGGCACACAATAGCTCC 59.189 55.000 0.00 0.00 32.24 4.70
3103 3415 0.323360 TTGGGCACACAATAGCTCCC 60.323 55.000 0.00 0.00 0.00 4.30
3104 3416 1.207488 TGGGCACACAATAGCTCCCT 61.207 55.000 4.64 0.00 34.89 4.20
3105 3417 0.749454 GGGCACACAATAGCTCCCTG 60.749 60.000 0.00 0.00 0.00 4.45
3106 3418 1.379642 GGCACACAATAGCTCCCTGC 61.380 60.000 0.00 0.00 43.29 4.85
3107 3419 1.379642 GCACACAATAGCTCCCTGCC 61.380 60.000 0.00 0.00 44.23 4.85
3108 3420 0.749454 CACACAATAGCTCCCTGCCC 60.749 60.000 0.00 0.00 44.23 5.36
3109 3421 1.152881 CACAATAGCTCCCTGCCCC 60.153 63.158 0.00 0.00 44.23 5.80
3110 3422 1.619363 ACAATAGCTCCCTGCCCCA 60.619 57.895 0.00 0.00 44.23 4.96
3111 3423 1.152881 CAATAGCTCCCTGCCCCAC 60.153 63.158 0.00 0.00 44.23 4.61
3112 3424 1.619363 AATAGCTCCCTGCCCCACA 60.619 57.895 0.00 0.00 44.23 4.17
3114 3426 0.104462 ATAGCTCCCTGCCCCACATA 60.104 55.000 0.00 0.00 44.23 2.29
3115 3427 0.764369 TAGCTCCCTGCCCCACATAG 60.764 60.000 0.00 0.00 44.23 2.23
3116 3428 2.512896 CTCCCTGCCCCACATAGC 59.487 66.667 0.00 0.00 0.00 2.97
3117 3429 2.042762 TCCCTGCCCCACATAGCT 59.957 61.111 0.00 0.00 0.00 3.32
3121 3433 0.749454 CCTGCCCCACATAGCTTGAC 60.749 60.000 0.00 0.00 0.00 3.18
3123 3435 0.253044 TGCCCCACATAGCTTGACTC 59.747 55.000 0.00 0.00 0.00 3.36
3124 3436 0.811616 GCCCCACATAGCTTGACTCG 60.812 60.000 0.00 0.00 0.00 4.18
3125 3437 0.824109 CCCCACATAGCTTGACTCGA 59.176 55.000 0.00 0.00 0.00 4.04
3126 3438 1.207089 CCCCACATAGCTTGACTCGAA 59.793 52.381 0.00 0.00 0.00 3.71
3127 3439 2.158900 CCCCACATAGCTTGACTCGAAT 60.159 50.000 0.00 0.00 0.00 3.34
3128 3440 3.069586 CCCCACATAGCTTGACTCGAATA 59.930 47.826 0.00 0.00 0.00 1.75
3129 3441 4.262635 CCCCACATAGCTTGACTCGAATAT 60.263 45.833 0.00 0.00 0.00 1.28
3136 3448 8.414003 ACATAGCTTGACTCGAATATTTAGACA 58.586 33.333 0.00 3.69 0.00 3.41
3140 3452 7.063544 AGCTTGACTCGAATATTTAGACACAAC 59.936 37.037 5.93 0.44 0.00 3.32
3149 3461 2.736144 TTAGACACAACGGGTAGCAG 57.264 50.000 0.00 0.00 0.00 4.24
3160 3472 5.065988 ACAACGGGTAGCAGCTTTTATATTG 59.934 40.000 0.00 1.94 0.00 1.90
3192 3526 7.280876 CGAAGGAATTGATATCCAAGAAAGTGA 59.719 37.037 0.00 0.00 39.55 3.41
3204 3538 4.153835 CCAAGAAAGTGAAGTCTCATCTGC 59.846 45.833 0.00 0.00 33.05 4.26
3208 3542 3.608316 AGTGAAGTCTCATCTGCCTTC 57.392 47.619 0.00 0.00 33.05 3.46
3209 3543 2.235898 AGTGAAGTCTCATCTGCCTTCC 59.764 50.000 0.00 0.00 33.91 3.46
3210 3544 1.205655 TGAAGTCTCATCTGCCTTCCG 59.794 52.381 0.00 0.00 33.91 4.30
3212 3546 1.561643 AGTCTCATCTGCCTTCCGAA 58.438 50.000 0.00 0.00 0.00 4.30
3213 3547 2.114616 AGTCTCATCTGCCTTCCGAAT 58.885 47.619 0.00 0.00 0.00 3.34
3232 3566 6.375174 TCCGAATCATTGAAACATTGACATCT 59.625 34.615 0.00 0.00 0.00 2.90
3233 3567 7.031372 CCGAATCATTGAAACATTGACATCTT 58.969 34.615 0.00 0.00 0.00 2.40
3234 3568 7.219535 CCGAATCATTGAAACATTGACATCTTC 59.780 37.037 0.00 0.00 0.00 2.87
3235 3569 7.219535 CGAATCATTGAAACATTGACATCTTCC 59.780 37.037 0.00 0.00 0.00 3.46
3236 3570 6.897706 TCATTGAAACATTGACATCTTCCA 57.102 33.333 0.00 0.00 0.00 3.53
3237 3571 7.470935 TCATTGAAACATTGACATCTTCCAT 57.529 32.000 0.00 0.00 0.00 3.41
3238 3572 7.541162 TCATTGAAACATTGACATCTTCCATC 58.459 34.615 0.00 0.00 0.00 3.51
3239 3573 7.395206 TCATTGAAACATTGACATCTTCCATCT 59.605 33.333 0.00 0.00 0.00 2.90
3249 3583 5.183530 ACATCTTCCATCTCCAATGTCAA 57.816 39.130 0.00 0.00 0.00 3.18
3261 3595 3.636300 TCCAATGTCAAAAACCCACTGAG 59.364 43.478 0.00 0.00 0.00 3.35
3265 3599 2.828520 TGTCAAAAACCCACTGAGCAAA 59.171 40.909 0.00 0.00 0.00 3.68
3279 3613 2.713011 GAGCAAATGCATAACGCTCAG 58.287 47.619 27.30 5.53 46.55 3.35
3281 3615 1.467883 GCAAATGCATAACGCTCAGCA 60.468 47.619 0.00 0.00 43.06 4.41
3290 3624 4.363990 CGCTCAGCACGGGACTGT 62.364 66.667 0.00 0.00 36.50 3.55
3309 3643 0.036388 TGGCGTCAATTCAGGAGACC 60.036 55.000 0.00 0.00 0.00 3.85
3318 3652 1.919240 TTCAGGAGACCTAAGACGCA 58.081 50.000 0.00 0.00 29.64 5.24
3326 3660 4.337555 GGAGACCTAAGACGCATGTTAGTA 59.662 45.833 0.00 0.00 31.20 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.395862 TTTGGGCCGTCACTGGAAAA 60.396 50.000 0.00 0.00 0.00 2.29
100 139 4.856801 CGGCGGTGGATTGGGGAG 62.857 72.222 0.00 0.00 0.00 4.30
130 169 2.890109 GCGGCGCTGGAATGATGAG 61.890 63.158 26.86 0.00 0.00 2.90
131 170 2.896854 GCGGCGCTGGAATGATGA 60.897 61.111 26.86 0.00 0.00 2.92
199 238 4.083862 GGGGTCTGCTGGACGTCC 62.084 72.222 28.17 28.17 45.35 4.79
220 259 4.767255 CTGGAGTGGCTGGACGGC 62.767 72.222 0.00 0.00 38.97 5.68
221 260 4.767255 GCTGGAGTGGCTGGACGG 62.767 72.222 0.00 0.00 0.00 4.79
378 417 3.290308 ACTGAGAGAAGTGTACAAGCG 57.710 47.619 0.00 0.00 0.00 4.68
393 432 1.668047 GGTTTCGACACCCGTACTGAG 60.668 57.143 9.73 0.00 39.75 3.35
424 463 3.692101 TGCTGCTAGTAGTGAACTCTCTC 59.308 47.826 9.73 0.00 39.80 3.20
485 525 3.563808 TGTCAACAATGGACAGCAACTAC 59.436 43.478 0.00 0.00 40.16 2.73
487 527 2.358898 GTGTCAACAATGGACAGCAACT 59.641 45.455 0.00 0.00 45.21 3.16
536 576 7.755582 ATCTTTTCAAAAGGACACGAAAAAG 57.244 32.000 10.06 0.00 37.03 2.27
542 582 4.298332 CCCAATCTTTTCAAAAGGACACG 58.702 43.478 10.06 0.00 0.00 4.49
543 583 4.100963 ACCCCAATCTTTTCAAAAGGACAC 59.899 41.667 10.06 0.00 0.00 3.67
564 604 0.036294 GTCTCCAGGGTTGCTGTACC 60.036 60.000 0.00 0.00 37.47 3.34
700 754 6.567321 GCAAGCAAATATAGTGCATCCTAGTG 60.567 42.308 12.46 2.48 44.74 2.74
721 775 1.013596 TGACAACAACGGACAGCAAG 58.986 50.000 0.00 0.00 0.00 4.01
746 800 2.470362 GCATGTGCATCGCAGCTCT 61.470 57.895 0.00 0.00 40.08 4.09
760 896 7.908230 ACAACAATTTGTAAGAAACTTGCATG 58.092 30.769 1.76 0.00 44.53 4.06
775 921 7.272731 CACAGCTCTATCAATGACAACAATTTG 59.727 37.037 0.00 0.00 38.83 2.32
797 943 7.255491 ACATATATGCATCACAGTTTCACAG 57.745 36.000 12.79 0.00 0.00 3.66
798 944 8.776470 CATACATATATGCATCACAGTTTCACA 58.224 33.333 12.79 0.00 32.08 3.58
799 945 8.992073 TCATACATATATGCATCACAGTTTCAC 58.008 33.333 12.79 0.00 38.50 3.18
800 946 9.558396 TTCATACATATATGCATCACAGTTTCA 57.442 29.630 12.79 0.00 38.50 2.69
803 949 9.511272 ACATTCATACATATATGCATCACAGTT 57.489 29.630 12.79 0.00 38.50 3.16
886 1077 2.158385 TGGGCCACACCTTACTGATTTT 60.158 45.455 0.00 0.00 39.10 1.82
894 1085 1.698506 CTTTGTTGGGCCACACCTTA 58.301 50.000 5.23 0.00 39.10 2.69
902 1093 1.744320 AACTTCGGCTTTGTTGGGCC 61.744 55.000 0.00 0.00 44.43 5.80
910 1101 2.618709 CCACTTCTCAAACTTCGGCTTT 59.381 45.455 0.00 0.00 0.00 3.51
914 1105 1.532868 CTGCCACTTCTCAAACTTCGG 59.467 52.381 0.00 0.00 0.00 4.30
916 1107 2.287248 GCACTGCCACTTCTCAAACTTC 60.287 50.000 0.00 0.00 0.00 3.01
931 1122 3.026311 GTTGCGTTGCTGCACTGC 61.026 61.111 16.00 16.00 46.25 4.40
938 1129 2.032681 GGAGAGGGTTGCGTTGCT 59.967 61.111 0.00 0.00 0.00 3.91
972 1163 4.178861 GCGTACATGACTTCCGCA 57.821 55.556 0.00 0.00 43.53 5.69
982 1175 3.892740 TTGCCGGCTGTGCGTACAT 62.893 57.895 29.70 0.00 35.97 2.29
1060 1255 1.299926 GTGTGTCAGCCGTCGTCTT 60.300 57.895 0.00 0.00 0.00 3.01
1324 1531 2.722201 GCCGGACCCTGTCGAGATT 61.722 63.158 5.05 0.00 32.65 2.40
1423 1643 2.441532 GCATGATGGGGCTGTGCT 60.442 61.111 0.00 0.00 33.25 4.40
1437 1657 1.134401 CATCCAGTTGTAGACCCGCAT 60.134 52.381 0.00 0.00 0.00 4.73
1486 1706 4.329545 GGACCGGCTCAACAGGCA 62.330 66.667 0.00 0.00 45.86 4.75
1550 1773 1.748122 AGAGAAAGCTGCCATGCCG 60.748 57.895 0.00 0.00 0.00 5.69
1568 1791 3.381983 AGATCGCCGGTGAGCACA 61.382 61.111 32.64 5.86 0.00 4.57
1708 1944 1.680338 GATGCCGTAGCCAATTCCTT 58.320 50.000 0.00 0.00 38.69 3.36
1838 2074 2.110967 CGCCTTGACAGCCATGAGG 61.111 63.158 0.00 0.00 38.23 3.86
1847 2083 2.280797 GGTGAGCACGCCTTGACA 60.281 61.111 6.47 0.00 42.77 3.58
1856 2092 1.160137 AAGCATCTTTCGGTGAGCAC 58.840 50.000 0.00 0.00 0.00 4.40
1877 2113 0.526524 GAGTGATGGAAGACGGCGAG 60.527 60.000 16.62 0.00 0.00 5.03
2022 2261 1.069358 GAGGAACCCGAGATCATGGTC 59.931 57.143 0.00 0.00 0.00 4.02
2070 2309 3.308866 GTGTTACAATATGTCCACGGCTC 59.691 47.826 0.00 0.00 0.00 4.70
2085 2330 1.896183 TCGGGGTCGTCGTGTTACA 60.896 57.895 0.00 0.00 37.69 2.41
2086 2331 1.442688 GTCGGGGTCGTCGTGTTAC 60.443 63.158 0.00 0.00 37.69 2.50
2087 2332 2.953821 GTCGGGGTCGTCGTGTTA 59.046 61.111 0.00 0.00 37.69 2.41
2161 2415 1.956170 CCGCCATACACCGAGATGC 60.956 63.158 0.00 0.00 0.00 3.91
2333 2593 9.291664 GTAGATCAATGACGATAGCCTAAATAC 57.708 37.037 0.00 0.00 42.67 1.89
2429 2691 4.393062 CGAAAGCACAGTACATCTCCAATT 59.607 41.667 0.00 0.00 0.00 2.32
2430 2692 3.935203 CGAAAGCACAGTACATCTCCAAT 59.065 43.478 0.00 0.00 0.00 3.16
2431 2693 3.244078 ACGAAAGCACAGTACATCTCCAA 60.244 43.478 0.00 0.00 0.00 3.53
2432 2694 2.299013 ACGAAAGCACAGTACATCTCCA 59.701 45.455 0.00 0.00 0.00 3.86
2433 2695 2.668457 CACGAAAGCACAGTACATCTCC 59.332 50.000 0.00 0.00 0.00 3.71
2434 2696 3.575630 TCACGAAAGCACAGTACATCTC 58.424 45.455 0.00 0.00 0.00 2.75
2435 2697 3.660501 TCACGAAAGCACAGTACATCT 57.339 42.857 0.00 0.00 0.00 2.90
2436 2698 3.926527 TCATCACGAAAGCACAGTACATC 59.073 43.478 0.00 0.00 0.00 3.06
2437 2699 3.925379 TCATCACGAAAGCACAGTACAT 58.075 40.909 0.00 0.00 0.00 2.29
2438 2700 3.378911 TCATCACGAAAGCACAGTACA 57.621 42.857 0.00 0.00 0.00 2.90
2439 2701 4.928661 ATTCATCACGAAAGCACAGTAC 57.071 40.909 0.00 0.00 37.12 2.73
2440 2702 4.378356 GCAATTCATCACGAAAGCACAGTA 60.378 41.667 0.00 0.00 38.14 2.74
2441 2703 3.610114 GCAATTCATCACGAAAGCACAGT 60.610 43.478 0.00 0.00 38.14 3.55
2442 2704 2.912967 GCAATTCATCACGAAAGCACAG 59.087 45.455 0.00 0.00 38.14 3.66
2443 2705 2.553602 AGCAATTCATCACGAAAGCACA 59.446 40.909 0.00 0.00 39.74 4.57
2444 2706 2.912967 CAGCAATTCATCACGAAAGCAC 59.087 45.455 0.00 0.00 39.74 4.40
2445 2707 2.095110 CCAGCAATTCATCACGAAAGCA 60.095 45.455 0.00 0.00 39.74 3.91
2446 2708 2.523015 CCAGCAATTCATCACGAAAGC 58.477 47.619 0.00 0.00 37.12 3.51
2447 2709 2.489329 ACCCAGCAATTCATCACGAAAG 59.511 45.455 0.00 0.00 37.12 2.62
2448 2710 2.228582 CACCCAGCAATTCATCACGAAA 59.771 45.455 0.00 0.00 37.12 3.46
2449 2711 1.811965 CACCCAGCAATTCATCACGAA 59.188 47.619 0.00 0.00 38.22 3.85
2450 2712 1.452110 CACCCAGCAATTCATCACGA 58.548 50.000 0.00 0.00 0.00 4.35
2451 2713 0.452987 CCACCCAGCAATTCATCACG 59.547 55.000 0.00 0.00 0.00 4.35
2452 2714 1.549203 ACCACCCAGCAATTCATCAC 58.451 50.000 0.00 0.00 0.00 3.06
2515 2777 3.821841 CAGGTGCGACTCAAATTAAACC 58.178 45.455 0.00 0.00 0.00 3.27
2548 2837 3.064900 ACCTTCATCTTGCCTCAGTTC 57.935 47.619 0.00 0.00 0.00 3.01
2586 2875 1.844497 ACCCACAAGTTATAGGGGAGC 59.156 52.381 1.34 0.00 45.83 4.70
2601 2890 2.500098 TGTGCTGATAACTAGGACCCAC 59.500 50.000 0.00 0.00 35.87 4.61
2607 2896 7.798596 AATTCTCAATGTGCTGATAACTAGG 57.201 36.000 0.00 0.00 0.00 3.02
2645 2934 9.125026 GGTGATCAAATCCTACTTGTCATTATT 57.875 33.333 0.00 0.00 0.00 1.40
2646 2935 7.721399 GGGTGATCAAATCCTACTTGTCATTAT 59.279 37.037 0.00 0.00 0.00 1.28
2647 2936 7.054124 GGGTGATCAAATCCTACTTGTCATTA 58.946 38.462 0.00 0.00 0.00 1.90
2648 2937 5.888161 GGGTGATCAAATCCTACTTGTCATT 59.112 40.000 0.00 0.00 0.00 2.57
2649 2938 5.440610 GGGTGATCAAATCCTACTTGTCAT 58.559 41.667 0.00 0.00 0.00 3.06
2650 2939 4.622933 CGGGTGATCAAATCCTACTTGTCA 60.623 45.833 0.00 0.00 0.00 3.58
2651 2940 3.871594 CGGGTGATCAAATCCTACTTGTC 59.128 47.826 0.00 0.00 0.00 3.18
2652 2941 3.873910 CGGGTGATCAAATCCTACTTGT 58.126 45.455 0.00 0.00 0.00 3.16
2653 2942 2.614057 GCGGGTGATCAAATCCTACTTG 59.386 50.000 0.00 0.00 0.00 3.16
2654 2943 2.741878 CGCGGGTGATCAAATCCTACTT 60.742 50.000 0.00 0.00 0.00 2.24
2655 2944 1.202533 CGCGGGTGATCAAATCCTACT 60.203 52.381 0.00 0.00 0.00 2.57
2656 2945 1.202486 TCGCGGGTGATCAAATCCTAC 60.202 52.381 6.13 0.00 0.00 3.18
2657 2946 1.068588 CTCGCGGGTGATCAAATCCTA 59.931 52.381 6.13 0.00 0.00 2.94
2674 2963 3.125316 AGAAGCAAAAATAGGTTCGCTCG 59.875 43.478 0.00 0.00 45.42 5.03
2706 2995 6.015603 ACAGGTCCTAGTTTACAGTAACAGAC 60.016 42.308 0.00 0.00 0.00 3.51
2709 2998 6.736110 AACAGGTCCTAGTTTACAGTAACA 57.264 37.500 0.00 0.00 0.00 2.41
2745 3036 7.877097 TGCTGCCAACTTTGATTTTGTTATAAT 59.123 29.630 0.00 0.00 0.00 1.28
2767 3058 4.082274 TCTTGCATTTACGTTGATGCTG 57.918 40.909 26.01 20.47 46.68 4.41
2771 3062 4.943705 ACAGGATCTTGCATTTACGTTGAT 59.056 37.500 4.46 0.00 0.00 2.57
2773 3064 4.154015 TGACAGGATCTTGCATTTACGTTG 59.846 41.667 4.46 0.00 0.00 4.10
2774 3065 4.323417 TGACAGGATCTTGCATTTACGTT 58.677 39.130 4.46 0.00 0.00 3.99
2775 3066 3.937814 TGACAGGATCTTGCATTTACGT 58.062 40.909 4.46 0.00 0.00 3.57
2776 3067 4.944962 TTGACAGGATCTTGCATTTACG 57.055 40.909 4.46 0.00 0.00 3.18
2778 3069 7.663081 GGAGATATTGACAGGATCTTGCATTTA 59.337 37.037 4.46 1.21 30.01 1.40
2779 3070 6.489361 GGAGATATTGACAGGATCTTGCATTT 59.511 38.462 4.46 0.00 30.01 2.32
2810 3121 2.695585 AGACCAGGTGAAAGAGTCCTT 58.304 47.619 0.00 0.00 0.00 3.36
2836 3147 2.019249 GCATTGATACCTGCTTGCTCA 58.981 47.619 0.00 0.00 35.49 4.26
2838 3149 1.747355 GTGCATTGATACCTGCTTGCT 59.253 47.619 0.00 0.00 39.16 3.91
2853 3164 1.911357 TCAGTCCCTTGATCTGTGCAT 59.089 47.619 0.00 0.00 0.00 3.96
2879 3190 6.238648 TGGATTTCAAGGTCTTCTAAGGAAC 58.761 40.000 0.00 0.00 0.00 3.62
2912 3223 8.752005 TCCATAGAAGCTAATAATTTTGCACT 57.248 30.769 0.00 0.00 36.25 4.40
2963 3274 3.916359 TCGGTTGGGTGATGCTAATTA 57.084 42.857 0.00 0.00 0.00 1.40
3028 3340 5.502079 TGTTTTCAAGTGTGTTCCTAGGAA 58.498 37.500 20.72 20.72 0.00 3.36
3061 3373 7.419204 CAACAAATGTTTTGGCTGAATGAAAT 58.581 30.769 5.11 0.00 35.83 2.17
3062 3374 6.183360 CCAACAAATGTTTTGGCTGAATGAAA 60.183 34.615 5.11 0.00 36.10 2.69
3063 3375 5.296283 CCAACAAATGTTTTGGCTGAATGAA 59.704 36.000 5.11 0.00 36.10 2.57
3064 3376 4.815308 CCAACAAATGTTTTGGCTGAATGA 59.185 37.500 5.11 0.00 36.10 2.57
3065 3377 4.023878 CCCAACAAATGTTTTGGCTGAATG 60.024 41.667 0.00 0.00 40.97 2.67
3066 3378 4.136051 CCCAACAAATGTTTTGGCTGAAT 58.864 39.130 0.00 0.00 40.97 2.57
3067 3379 3.539604 CCCAACAAATGTTTTGGCTGAA 58.460 40.909 0.00 0.00 40.97 3.02
3068 3380 2.744494 GCCCAACAAATGTTTTGGCTGA 60.744 45.455 21.04 0.00 44.09 4.26
3069 3381 1.603326 GCCCAACAAATGTTTTGGCTG 59.397 47.619 21.04 7.17 44.09 4.85
3070 3382 1.211457 TGCCCAACAAATGTTTTGGCT 59.789 42.857 25.25 0.18 45.99 4.75
3071 3383 1.333308 GTGCCCAACAAATGTTTTGGC 59.667 47.619 21.33 21.33 46.00 4.52
3072 3384 2.354199 GTGTGCCCAACAAATGTTTTGG 59.646 45.455 5.11 2.08 41.57 3.28
3073 3385 3.005554 TGTGTGCCCAACAAATGTTTTG 58.994 40.909 0.00 0.00 41.57 2.44
3074 3386 3.340814 TGTGTGCCCAACAAATGTTTT 57.659 38.095 0.00 0.00 41.57 2.43
3075 3387 3.340814 TTGTGTGCCCAACAAATGTTT 57.659 38.095 0.00 0.00 41.57 2.83
3076 3388 3.557228 ATTGTGTGCCCAACAAATGTT 57.443 38.095 0.00 0.00 41.57 2.71
3077 3389 3.554752 GCTATTGTGTGCCCAACAAATGT 60.555 43.478 0.77 0.00 41.57 2.71
3078 3390 2.995258 GCTATTGTGTGCCCAACAAATG 59.005 45.455 0.77 0.00 41.57 2.32
3084 3396 0.323360 GGGAGCTATTGTGTGCCCAA 60.323 55.000 0.00 0.00 35.63 4.12
3102 3414 0.749454 GTCAAGCTATGTGGGGCAGG 60.749 60.000 0.00 0.00 0.00 4.85
3103 3415 0.254178 AGTCAAGCTATGTGGGGCAG 59.746 55.000 0.00 0.00 0.00 4.85
3104 3416 0.253044 GAGTCAAGCTATGTGGGGCA 59.747 55.000 0.00 0.00 0.00 5.36
3105 3417 0.811616 CGAGTCAAGCTATGTGGGGC 60.812 60.000 0.00 0.00 0.00 5.80
3106 3418 0.824109 TCGAGTCAAGCTATGTGGGG 59.176 55.000 0.00 0.00 0.00 4.96
3107 3419 2.672961 TTCGAGTCAAGCTATGTGGG 57.327 50.000 0.00 0.00 0.00 4.61
3108 3420 6.851222 AAATATTCGAGTCAAGCTATGTGG 57.149 37.500 0.00 0.00 0.00 4.17
3109 3421 8.695284 GTCTAAATATTCGAGTCAAGCTATGTG 58.305 37.037 0.00 0.00 0.00 3.21
3110 3422 8.414003 TGTCTAAATATTCGAGTCAAGCTATGT 58.586 33.333 0.00 0.00 0.00 2.29
3111 3423 8.695284 GTGTCTAAATATTCGAGTCAAGCTATG 58.305 37.037 0.00 0.00 0.00 2.23
3112 3424 8.414003 TGTGTCTAAATATTCGAGTCAAGCTAT 58.586 33.333 0.00 0.00 0.00 2.97
3114 3426 6.631016 TGTGTCTAAATATTCGAGTCAAGCT 58.369 36.000 0.00 0.00 0.00 3.74
3115 3427 6.887376 TGTGTCTAAATATTCGAGTCAAGC 57.113 37.500 0.00 0.00 0.00 4.01
3116 3428 7.384124 CGTTGTGTCTAAATATTCGAGTCAAG 58.616 38.462 0.00 0.00 0.00 3.02
3117 3429 6.309494 CCGTTGTGTCTAAATATTCGAGTCAA 59.691 38.462 0.00 0.00 0.00 3.18
3121 3433 5.107133 ACCCGTTGTGTCTAAATATTCGAG 58.893 41.667 0.00 0.00 0.00 4.04
3123 3435 5.051240 GCTACCCGTTGTGTCTAAATATTCG 60.051 44.000 0.00 0.00 0.00 3.34
3124 3436 5.813672 TGCTACCCGTTGTGTCTAAATATTC 59.186 40.000 0.00 0.00 0.00 1.75
3125 3437 5.736813 TGCTACCCGTTGTGTCTAAATATT 58.263 37.500 0.00 0.00 0.00 1.28
3126 3438 5.347620 TGCTACCCGTTGTGTCTAAATAT 57.652 39.130 0.00 0.00 0.00 1.28
3127 3439 4.751060 CTGCTACCCGTTGTGTCTAAATA 58.249 43.478 0.00 0.00 0.00 1.40
3128 3440 3.596214 CTGCTACCCGTTGTGTCTAAAT 58.404 45.455 0.00 0.00 0.00 1.40
3129 3441 2.868839 GCTGCTACCCGTTGTGTCTAAA 60.869 50.000 0.00 0.00 0.00 1.85
3136 3448 2.554370 TAAAAGCTGCTACCCGTTGT 57.446 45.000 0.90 0.00 0.00 3.32
3140 3452 4.814234 TGACAATATAAAAGCTGCTACCCG 59.186 41.667 0.90 0.00 0.00 5.28
3149 3461 4.574828 TCCTTCGGCTGACAATATAAAAGC 59.425 41.667 0.00 0.00 0.00 3.51
3160 3472 3.748568 GGATATCAATTCCTTCGGCTGAC 59.251 47.826 4.83 0.00 0.00 3.51
3174 3508 7.679783 TGAGACTTCACTTTCTTGGATATCAA 58.320 34.615 4.83 0.00 0.00 2.57
3188 3522 2.235898 GGAAGGCAGATGAGACTTCACT 59.764 50.000 11.27 0.00 40.72 3.41
3192 3526 1.561643 TCGGAAGGCAGATGAGACTT 58.438 50.000 0.00 0.00 0.00 3.01
3204 3538 5.801947 GTCAATGTTTCAATGATTCGGAAGG 59.198 40.000 0.00 0.00 0.00 3.46
3208 3542 6.558009 AGATGTCAATGTTTCAATGATTCGG 58.442 36.000 0.00 0.00 0.00 4.30
3209 3543 7.219535 GGAAGATGTCAATGTTTCAATGATTCG 59.780 37.037 0.00 0.00 0.00 3.34
3210 3544 8.030692 TGGAAGATGTCAATGTTTCAATGATTC 58.969 33.333 0.00 0.00 0.00 2.52
3212 3546 7.470935 TGGAAGATGTCAATGTTTCAATGAT 57.529 32.000 0.00 0.00 0.00 2.45
3213 3547 6.897706 TGGAAGATGTCAATGTTTCAATGA 57.102 33.333 0.00 0.00 0.00 2.57
3232 3566 4.283212 GGGTTTTTGACATTGGAGATGGAA 59.717 41.667 0.00 0.00 0.00 3.53
3233 3567 3.831911 GGGTTTTTGACATTGGAGATGGA 59.168 43.478 0.00 0.00 0.00 3.41
3234 3568 3.577848 TGGGTTTTTGACATTGGAGATGG 59.422 43.478 0.00 0.00 0.00 3.51
3235 3569 4.281688 AGTGGGTTTTTGACATTGGAGATG 59.718 41.667 0.00 0.00 0.00 2.90
3236 3570 4.281688 CAGTGGGTTTTTGACATTGGAGAT 59.718 41.667 0.00 0.00 0.00 2.75
3237 3571 3.636300 CAGTGGGTTTTTGACATTGGAGA 59.364 43.478 0.00 0.00 0.00 3.71
3238 3572 3.636300 TCAGTGGGTTTTTGACATTGGAG 59.364 43.478 0.00 0.00 0.00 3.86
3239 3573 3.636300 CTCAGTGGGTTTTTGACATTGGA 59.364 43.478 0.00 0.00 0.00 3.53
3249 3583 1.761784 TGCATTTGCTCAGTGGGTTTT 59.238 42.857 3.94 0.00 42.66 2.43
3281 3615 2.391724 AATTGACGCCACAGTCCCGT 62.392 55.000 0.00 0.00 40.26 5.28
3290 3624 0.036388 GGTCTCCTGAATTGACGCCA 60.036 55.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.