Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A2 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,442,524	C→T	A254V (GCG→GTG)	mnmC →	fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,442,524	0	C	T	97.2%	133.7 / ‑4.0	36	A254V (GCG→GTG)	mnmC	fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (18/17); total (19/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

ACGCTGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGCGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCAGGTAACGCTTTATTGCGCGGATGAGGCCCCCGCACTGGG  >  NC_000913/2442379‑2442668

aCGCTGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGt                                                                                                                                             >  1:520013/1‑151 (MQ=255)

 cGCTGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTccgtgccgtg                                                                                                                                            <  1:146887/151‑1 (MQ=255)

  gCTGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTgg                                                                                                                                           >  2:324863/1‑151 (MQ=255)

    tGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGtt                                                                                                                                         >  1:52680/1‑151 (MQ=255)

       cGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTaa                                                                                                                                      <  2:58938/151‑1 (MQ=255)

                cGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACggg                                                                                                                             <  2:297727/151‑1 (MQ=255)

                      ccGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGgcagcag                                                                                                                       <  2:539190/151‑1 (MQ=255)

                      ccGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGgcagcag                                                                                                                       <  2:100371/151‑1 (MQ=255)

                           tttGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAAc                                                                                                                  >  1:101816/1‑151 (MQ=255)

                              gTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACggg                                                                                                               >  1:572831/1‑151 (MQ=255)

                                 cgccgcGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGa                                                                                                              >  1:17598/1‑149 (MQ=255)

                                  gccgcGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAgc                                                                                                           <  1:41782/151‑1 (MQ=255)

                                    cgcgGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAgcg                                                                                                          <  2:300636/150‑1 (MQ=255)

                                         tttGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGAt                                                                                                     <  1:429378/150‑1 (MQ=255)

                                             cAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATcg                                                                                                <  2:173067/151‑1 (MQ=255)

                                                 aCGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATcggcgg                                                                                            >  2:233646/1‑151 (MQ=255)

                                                  cGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATcggcgg                                                                                            >  1:581717/1‑150 (MQ=255)

                                                   gCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATcggcgg                                                                                            >  2:171118/1‑149 (MQ=255)

                                                        aTTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTAtt                                                                                     >  1:530735/1‑151 (MQ=255)

                                                        aTTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTAtt                                                                                     <  1:115813/151‑1 (MQ=255)

                                                          tCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGGAtt                                                                                     >  1:299658/1‑149 (MQ=255)

                                                           taCGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGCGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATcggcggagttg                                                                                       >  2:424911/2‑141 (MQ=255)

                                                                   aaaaaCGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGCGGGATTTGCcgcgcggt                                                                          >  2:522206/1‑149 (MQ=255)

                                                                             gggCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGCGGGATTGGCAGCGCGTtgttgtt                                                                    >  2:176963/1‑146 (MQ=255)

                                                                                      gcgcAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCATCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTa                                                       <  1:569574/151‑1 (MQ=255)

                                                                                       cgcAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTAc                                                      <  1:321598/151‑1 (MQ=255)

                                                                                                gAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCt                                             <  2:350944/151‑1 (MQ=255)

                                                                                                   aTGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGc                                          <  1:419793/151‑1 (MQ=255)

                                                                                                     gCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCa                                         <  1:552047/150‑1 (MQ=255)

                                                                                                     gCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCAg                                        <  1:213861/151‑1 (MQ=255)

                                                                                                        ttGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCAgg                                       <  2:508851/149‑1 (MQ=255)

                                                                                                            ggggTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGGATTGCCCGCGCGGTGTTGTCGCTGGCGCTATTTCGGCGCGGGTGGGAGGGaa                                    >  2:613724/1‑148 (MQ=255)

                                                                                                               gTGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGGATTGCCAGCGCGGTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGGAGGGAAAGCttt                              >  1:10148/1‑151 (MQ=255)

                                                                                                                tGATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGGATTGTCCGCGCGTTGTTTTCGCTGGCGCTATTAACGCGCGGGTGGGAGGGAACGCtt                               >  1:579219/1‑149 (MQ=255)

                                                                                                                 gATGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCAGGTAACGCTTTAt                            <  1:195960/151‑1 (MQ=255)

                                                                                                                  aTGGAACAGACATTACCGCTCCCCTGCTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTTTCAGCGCGTTGTTGTCGCTGGGGCTATTAAGGCGCGGCCTGCCGGGAACGCCTtttt                           >  1:196465/1‑151 (MQ=255)

                                                                                                                                            cTCCGTGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGGATTGCCCGCGCGGTGTTGTTGCCGGGGCTATTACGGCGCGGGCGGGCGGGAAAGCCTTTTTTCGCGGGGGAGGgcccccccccggg  >  2:210905/1‑142 (MQ=255)

ACGCTGGCGACATTTACGTCTGCCGGTTTTGTCCGCCGCGGTTTGCAGGACGCCGGATTCACGATGCAAAAACGTAAGGGCTTTGGGCGCAAACGGGAAATGCTTTGCGGGGTGATGGAACAGACATTACCGCTCCCCTGCTCCGCGCCGTGGTTTAACCGCACGGGCAGCAGCAAACGGGAAGCGGCGATTATCGGCGGTGGTATTGCCAGCGCGTTGTTGTCGCTGGCGCTATTACGGCGCGGCTGGCAGGTAACGCTTTATTGCGCGGATGAGGCCCCCGCACTGGG  >  NC_000913/2442379‑2442668

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A