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
A13 F1 I1 R1	86	24.1	1002126	98.1%	983085	121.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,312,566	T→C	R142R (AGA→AGG)	alsR ←	d‑allose‑inducible als operon transcriptional repressor, autorepressor, repressor of rpiR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,312,566	0	T	C	100.0%	145.7 / NA	38	R142R (AGA→AGG)	alsR	d‑allose‑inducible als operon transcriptional repressor, autorepressor, repressor of rpiR
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/19); total (19/19)

TAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCA  >  NC_000913/4312434‑4312692

tAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGcc                                                                                                                          >  1:173213/1‑139 (MQ=255)

tAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGcc                                                                                                                          >  1:111859/1‑139 (MQ=255)

      cGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTCGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAg                                                                                                                    >  1:56837/1‑139 (MQ=255)

           cGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGaaaaa                                                                                                               >  1:146537/1‑139 (MQ=255)

           cGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGACACCGTACAAATCCCGCTGCCTGGCCTGATAGaaaaa                                                                                                               >  2:80329/1‑139 (MQ=255)

                        gatgTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACgg                                                                                                  <  1:372578/139‑1 (MQ=255)

                           gtgAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTgg                                                                                               >  1:496470/1‑139 (MQ=255)

                             gAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAt                                                                                             >  2:334462/1‑139 (MQ=255)

                              aGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGc                                                                                                                           >  1:85576/1‑108 (MQ=255)

                              aGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGc                                                                                                                           <  2:85576/108‑1 (MQ=255)

                                 aTCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtca                                                                                         >  1:470356/1‑139 (MQ=255)

                                  tCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGACACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtcat                                                                                        <  1:80329/139‑1 (MQ=255)

                                       aTAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACg                                                                                   <  2:496470/139‑1 (MQ=255)

                                                aCAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATc                                                                          >  1:38374/1‑139 (MQ=255)

                                                aCAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATc                                                                          >  1:436111/1‑139 (MQ=255)

                                                    cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAgcggg                                                                                                          >  2:29899/1‑103 (MQ=255)

                                                    cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAgcggg                                                                                                          <  1:29899/103‑1 (MQ=255)

                                                    cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACt                                                                      >  1:398307/1‑139 (MQ=255)

                                                      tACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGa                                                                    <  1:412859/139‑1 (MQ=255)

                                                      tACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGa                                                                    >  2:270171/1‑139 (MQ=255)

                                                        cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  1:334462/139‑1 (MQ=255)

                                                        cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  2:38374/139‑1 (MQ=255)

                                                        cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  2:113310/139‑1 (MQ=255)

                                                        cGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                  <  1:270171/139‑1 (MQ=255)

                                                                  cAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATg                                                        <  2:420747/139‑1 (MQ=255)

                                                                              cTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTg                                            <  1:346216/139‑1 (MQ=255)

                                                                                gTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGAt                                          <  1:164503/139‑1 (MQ=255)

                                                                                   cATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGtt                                       <  2:111859/139‑1 (MQ=255)

                                                                                         cacaGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              <  2:92961/126‑1 (MQ=255)

                                                                                         cacaGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              >  1:92961/1‑126 (MQ=255)

                                                                                           caGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGATAAATACCt                               >  1:295624/1‑139 (MQ=255)

                                                                                              aTAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTAt                            <  1:222609/139‑1 (MQ=255)

                                                                                                             ccGGCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcg             >  1:304144/1‑139 (MQ=255)

                                                                                                               ggCACCGTACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcggc           <  2:56837/139‑1 (MQ=255)

                                                                                                                      tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              <  2:259821/97‑1 (MQ=255)

                                                                                                                      tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                              >  1:259821/1‑97 (MQ=255)

                                                                                                                      tACAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcat    >  1:178298/1‑139 (MQ=255)

                                                                                                                        cAAATCCCGCTGCCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcatca  <  2:470356/139‑1 (MQ=255)

TAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCA  >  NC_000913/4312434‑4312692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A