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
A12 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,420,793	(G)_6→8	coding (110/423 nt)	ydaT →	Rac prophage; protein YdaT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,420,787	1	.	G	100.0%	117.6 / NA	34	Q35R (CAG→CGG)	ydaT	Rac prophage; protein YdaT
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (14/20); total (14/20)
*	NC_000913	1,420,787	2	.	G	100.0%	116.9 / NA	34	Q35R (CAG→CGG)	ydaT	Rac prophage; protein YdaT
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (14/20); total (14/20)

TTGATCATACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCT  >  NC_000913/1420648‑1420916

||

ttGATCATACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCa                                                                                                                                      <  1:490715/140‑1 (MQ=255)

        aCCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑gggggggg                                                                                                                           >  1:829448/1‑138 (MQ=255)

        aCCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑gggggggg                                                                                                                           >  2:156181/1‑138 (MQ=255)

          cTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑ggggggggcg                                                                                                                         <  1:453390/140‑5 (MQ=255)

             aaaCATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑ggggggggcggcg                                                                                                                      >  1:398033/1‑133 (MQ=255)

             aaaCATCAAGAGGCAAATGATTCATGAAAATCAAGCATCAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑ggggggggcggcg                                                                                                                      >  1:322304/1‑133 (MQ=255)

                   cAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGc                                                                                                                  >  1:412455/1‑140 (MQ=255)

                      gagGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGcccc                                                                                                               <  1:730700/140‑1 (MQ=255)

                      gagGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGcccc                                                                                                               <  1:627055/140‑1 (MQ=255)

                      gagGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGcccc                                                                                                               <  2:860970/140‑1 (MQ=255)

                         gCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTgg                                                                                                            >  1:555981/1‑140 (MQ=255)

                                 ttCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGc                                                                                                    <  1:182509/140‑1 (MQ=255)

                                   cATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCaa                                                                                                  >  1:455501/1‑140 (MQ=255)

                                   cATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCa                                                                                                   <  1:363141/139‑1 (MQ=255)

                                   cATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCa                                                                                                   >  2:363141/1‑139 (MQ=255)

                                      gAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGa                                                                                               <  1:356117/140‑1 (MQ=255)

                                       aaaaTCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGACGAATTGCCCCTGGTTCCAGGCAAGGAc                                                                                              >  2:104185/1‑140 (MQ=255)

                                           tCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGa                                                                                          <  1:327559/140‑1 (MQ=255)

                                           tCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGa                                                                                          <  2:412455/140‑1 (MQ=255)

                                            cAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGaa                                                                                         >  2:65192/1‑140 (MQ=255)

                                                cATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAAt                                                                                     <  1:668105/140‑1 (MQ=255)

                                                 aTGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATc                                                                                    <  2:313826/140‑1 (MQ=255)

                                                     gCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATcagca                                                                                <  1:805122/140‑1 (MQ=255)

                                                     gCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGACGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATcagca                                                                                <  1:104185/140‑1 (MQ=255)

                                                        caTCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGaa                                                                             <  2:398033/140‑1 (MQ=255)

                                                                cAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAat                                                                            <  2:431589/133‑1 (MQ=255)

                                                                cAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAat                                                                            >  1:431589/1‑133 (MQ=255)

                                                                     ttgttTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCgt                                                                <  1:795416/140‑1 (MQ=255)

                                                                             ccTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGaa                                                        >  2:377508/1‑140 (MQ=255)

                                                                                                caggcaTGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCaa                                     >  1:331457/1‑140 (MQ=255)

                                                                                                         gTAGCCAATGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGaaaaa                            >  2:39242/1‑140 (MQ=255)

                                                                                                                 tGCAATTACTGAAGAATATCTGCGCCAGGGGGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGa                     >  1:263466/1‑140 (MQ=255)

                                                                                                                 tGCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGaa                    >  2:15555/1‑140 (MQ=255)

                                                                                                                  gCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAg                   >  2:122156/1‑140 (MQ=255)

                                                                                                                  gCAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAg                   <  1:625527/140‑1 (MQ=255)

                                                                                                                   cAATTACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGc                  >  2:261173/1‑140 (MQ=255)

                                                                                                                       tACTGAAGAATATCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGAt              <  2:434085/140‑1 (MQ=255)

                                                                                                                                 tatCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAAtt    <  1:53646/140‑1 (MQ=255)

                                                                                                                                 tatCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAAtt    <  1:128767/140‑1 (MQ=255)

                                                                                                                                   tCTGCGCCAGG‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCt  <  1:156181/140‑1 (MQ=255)

||

TTGATCATACCTGAAACATCAAGAGGCAAATGATTCATGAAAATCAAGCATGAGCACATCGAATCAGTGTTGTTTGCCCTAGCAGCCGAAAAAGGGCAGGCATGGGTAGCCAATGCAATTACTGAAGAATATCTGCGCCA‑‑‑GGGGGGCGGCGAATTGCCCCTGGTTCCAGGCAAGGACTGGAACAATCAGCAGAATATCTATCACCGTTGGTTGAAAGGTGAAACGAAAACGCAAAGAGAAAAAATTCAGAAGCTGATCCCAGCAATTCT  >  NC_000913/1420648‑1420916

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A