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
A11 F1 I2 R1	59	52.6	2411032	94.1%	2268781	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,144,279	T→C	S338S (AGT→AGC)	yegE →	putative diguanylate cyclase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,144,279	0	T	C	100.0%	143.6 / NA	40	S338S (AGT→AGC)	yegE	putative diguanylate cyclase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/25); total (15/25)

CGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGTCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCAA  >  NC_000913/2144145‑2144391

cGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAgg                                                                                                              >  2:1018809/1‑139 (MQ=255)

        caTTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTg                                                                                                      >  1:551632/1‑139 (MQ=255)

           ttCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTgagc                                                                                                   >  2:978825/1‑139 (MQ=255)

                aaaGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACt                                                                                              <  1:835694/139‑1 (MQ=255)

                   gCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCAc                                                                                           <  2:563379/139‑1 (MQ=255)

                   gCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGCCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTTCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCAc                                                                                           >  1:846337/1‑139 (MQ=255)

                      aaaCCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCtt                                                                                        >  2:122518/1‑139 (MQ=255)

                             cTTTCGGAACGCGATGGAATATTCCTCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:755995/139‑1 (MQ=255)

                             cTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:509051/139‑1 (MQ=255)

                                  ggAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGAc                                                                            <  1:122518/139‑1 (MQ=255)

                                  ggAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGAc                                                                            <  2:1138413/139‑1 (MQ=255)

                                       gcgATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGc                                                                       >  2:379178/1‑139 (MQ=255)

                                              aaTATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCggagga                                                                <  2:846337/139‑1 (MQ=255)

                                               atatTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               <  1:251670/139‑1 (MQ=255)

                                                        tATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaaa                                                      >  2:171113/1‑139 (MQ=255)

                                                                        gTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAg                                                                                    >  2:394643/1‑93 (MQ=255)

                                                                        gTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAg                                                                                    <  1:394643/93‑1 (MQ=255)

                                                                           ggCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGaaa                                   >  2:692391/1‑139 (MQ=255)

                                                                             cACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGc                                                                                                        <  1:315229/68‑1 (MQ=255)

                                                                             cACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGc                                                                                                        >  2:315229/1‑68 (MQ=255)

                                                                                  aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaa                                                       <  1:945784/112‑1 (MQ=255)

                                                                                  aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaa                                                       >  2:945784/1‑112 (MQ=255)

                                                                                  aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGAt                            <  2:1066429/139‑1 (MQ=255)

                                                                                  aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGAt                            >  1:37865/1‑139 (MQ=255)

                                                                                       cAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  1:1113887/139‑1 (MQ=255)

                                                                                       cAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  1:1018809/139‑1 (MQ=255)

                                                                                          tGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTg                    <  2:551632/139‑1 (MQ=255)

                                                                                             cTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCCACAGGTTGAAAAGCTGATAAGCGGTGaaa                 >  2:758738/1‑139 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTATAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  1:758738/139‑1 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:278441/139‑1 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:131110/139‑1 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:1149636/139‑1 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:951807/139‑1 (MQ=255)

                                                                                               gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  1:928883/139‑1 (MQ=255)

                                                                                                       acaaAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 >  2:421760/1‑65 (MQ=255)

                                                                                                       acaaAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:421760/65‑1 (MQ=255)

                                                                                                            gcgcTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCaa  <  1:587775/139‑1 (MQ=255)

                                                                                                               ctctGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       >  1:32278/1‑115 (MQ=255)

                                                                                                               ctctGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  2:32278/115‑1 (MQ=255)

                                                                                                                  tGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               <  2:1003507/72‑1 (MQ=255)

                                                                                                                  tGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               >  1:1003507/1‑72 (MQ=255)

CGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGTCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCAA  >  NC_000913/2144145‑2144391

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A