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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,810,304	G→A	160 (TAG→TAA)	coaD →	pantetheine‑phosphate adenylyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,810,304	0	G	A	100.0%	112.5 / NA	36	160 (TAG→TAA)	coaD	pantetheine‑phosphate adenylyltransferase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/16); total (20/16)

TGCCGTCGAAAGAGTGGTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAGCGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGCACACCCGACACGGCTCACCTTTTC  >  NC_000913/3810180‑3810437

tGCCGTCGAAAGAGTGGTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGAt                                                                                                                         <  1:726083/139‑1 (MQ=255)

     tCGAAAGAGTGGTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTAt                                                                                                                    >  2:100893/1‑139 (MQ=255)

              tGGTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCgg                                                                                                           >  1:674670/1‑139 (MQ=255)

                gTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGgcg                                                                                                         <  1:185525/139‑1 (MQ=255)

                 tCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGgcgc                                                                                                        >  1:455415/1‑139 (MQ=255)

                      tATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATg                                                                                                   >  1:184321/1‑139 (MQ=255)

                         ctctTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCACCCGGCGCGCATGAAt                                                                                                <  2:537299/139‑1 (MQ=255)

                             tCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCa                                                                                                     >  2:807648/1‑130 (MQ=255)

                             tCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCa                                                                                                     <  1:807648/130‑1 (MQ=255)

                             tCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACt                                                                                            >  2:183625/1‑139 (MQ=255)

                              cATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACtt                                                                                           >  2:642277/1‑139 (MQ=255)

                               aTCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTc                                                                                          >  2:940937/1‑139 (MQ=255)

                                    tGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCa                                                                                     <  2:184321/139‑1 (MQ=255)

                                         aaaGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGcc                                                                                <  2:789291/139‑1 (MQ=255)

                                           agagGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGTATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGa                                                                              <  2:42940/139‑1 (MQ=255)

                                           agagGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGa                                                                              <  1:889460/139‑1 (MQ=255)

                                                tGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATa                                                                         >  1:195832/1‑139 (MQ=255)

                                                  gcgcgcCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATaaa                                                                       >  2:437527/1‑139 (MQ=255)

                                                             gggCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGc                                                            <  1:780254/139‑1 (MQ=255)

                                                             gggCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGc                                                            <  1:401263/139‑1 (MQ=255)

                                                                  aTGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCCGGCACTGCCGACAATAAAACGTTGCCCGCTgcgc                                                       >  1:244452/1‑139 (MQ=255)

                                                                    gTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCAt                                                     >  2:1002856/1‑139 (MQ=255)

                                                                                   ccGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATg                                                                                                                               >  2:211684/1‑50 (MQ=255)

                                                                                   ccGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATg                                                                                                                               <  1:211684/50‑1 (MQ=255)

                                                                                   ccGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAg                                               >  1:989799/1‑130 (MQ=255)

                                                                                   ccGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAg                                               <  2:989799/130‑1 (MQ=255)

                                                                                      gagaATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCg                                   >  2:265304/1‑139 (MQ=255)

                                                                                              ccATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCg                           <  1:1002856/139‑1 (MQ=255)

                                                                                              ccATCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCg                           <  1:183625/139‑1 (MQ=255)

                                                                                                aTCAGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGca                         >  1:426464/1‑139 (MQ=255)

                                                                                                   aGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCg                                                                                                                            >  2:417386/1‑37 (MQ=255)

                                                                                                   aGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCg                                                                                                                            <  1:417386/37‑1 (MQ=255)

                                                                                                   aGGCGCTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGCacac                      >  2:581734/1‑139 (MQ=255)

                                                                                                       gcTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGc                                 >  1:94216/1‑124 (MQ=255)

                                                                                                       gcTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGc                                 <  2:94216/124‑1 (MQ=255)

                                                                                                       gcTGATGGCGAAGTTAGCGTAACGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGCACACCCGa                  >  1:821135/1‑139 (MQ=255)

                                                                                                                       gcgtaacgtTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCCGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGCACACCCGACACGGCTCACCTTTTc  <  2:244452/139‑1 (MQ=255)

TGCCGTCGAAAGAGTGGTCGTTTATCTCTTCATCGTTGGTGAAAGAGGTGGCGCGCCATCAGGGCGATGTCACCCATTTCCTGCCGGAGAATGTCCATCAGGCGCTGATGGCGAAGTTAGCGTAGCGTTTATGCCGGATGGTATGCCATCCGGCGCGCATGAATTACTTCTGGCACTGCCGACAATAAAACGTTGCCCGCTGCGCATGTTTAGTCGCCACAATCGGCGTACCGCACACCCGACACGGCTCACCTTTTC  >  NC_000913/3810180‑3810437

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A