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 I1 R1	757	76.1	3598070	93.4%	3360597	108.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,385,339	C→T	P408L (CCG→CTG)	ycjX →	DUF463 family protein, puatative P‑loop NTPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,385,339	0	C	T	100.0%	154.1 / NA	48	P408L (CCG→CTG)	ycjX	DUF463 family protein, puatative P‑loop NTPase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/29); total (19/29)

AAAATGCGGCGTTCGAAGGGATCAGCATGGACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTACCGCATATTCGTCTTGA  >  NC_000913/1385204‑1385474

aaaaTGCGGCGTTCGAAGGGATCAGCATGGACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCt                                                                                                                                      <  1:1046129/139‑1 (MQ=255)

        gcgTTCGAAGGGATCAGCATGGACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGttt                                                                                                                              >  2:1629958/1‑139 (MQ=255)

                         cATGGACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTccc                                                                                                             <  2:1386617/139‑1 (MQ=255)

                            ggACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCa                                                                                                          >  2:1000822/1‑139 (MQ=255)

                              aCTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACg                                                                                                        <  2:1136702/139‑1 (MQ=255)

                              aCTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACg                                                                                                        <  1:59201/139‑1 (MQ=255)

                              aCTGCCTGGGGCTGGCGTCACTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACg                                                                                                        >  1:1055436/1‑139 (MQ=255)

                                  ccTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGt                                                                                                                 >  2:614114/1‑126 (MQ=255)

                                  ccTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGt                                                                                                                 <  1:614114/126‑1 (MQ=255)

                                  ccTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTg                                                                                                    >  2:1784520/1‑139 (MQ=255)

                                       ggCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTgg                                                                                               >  2:116878/1‑139 (MQ=255)

                                           ggCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAg                                                                                           <  2:20338/139‑1 (MQ=255)

                                           ggCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAg                                                                                           <  1:1784520/139‑1 (MQ=255)

                                            gCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAgg                                                                                          >  2:146327/1‑139 (MQ=255)

                                                 aGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCt                                                                                                                                      <  1:1189247/90‑1 (MQ=255)

                                                 aGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCt                                                                                                                                      >  2:1189247/1‑90 (MQ=255)

                                                 aGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTc                                                                                     >  1:860799/1‑139 (MQ=255)

                                                     cAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTggg                                                                                 <  1:1000822/139‑1 (MQ=255)

                                                             caccaGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCaa                                                                         <  2:6581/139‑1 (MQ=255)

                                                             caccaGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCaa                                                                         <  1:757934/139‑1 (MQ=255)

                                                                   cGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTc                                                                   <  1:146327/139‑1 (MQ=255)

                                                                                   aaCGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACg                                                                                                        <  2:774537/86‑1 (MQ=255)

                                                                                   aaCGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACg                                                                                                        >  1:774537/1‑86 (MQ=255)

                                                                                      ggTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTc                                                <  1:1736903/139‑1 (MQ=255)

                                                                                      ggTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTc                                                <  1:855855/139‑1 (MQ=255)

                                                                                        tGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCg                                              <  1:753627/139‑1 (MQ=255)

                                                                                         gagaAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCt                                                                                                                                      >  2:304507/1‑50 (MQ=255)

                                                                                         gagaAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCt                                                                                                                                      <  1:304507/50‑1 (MQ=255)

                                                                                         gagaAAATCCCGGCGCTGCGTGGTAATCGACTTAGCCATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc                                             <  2:1127030/139‑1 (MQ=255)

                                                                                                tCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATc                                                                                                                           >  2:1481488/1‑54 (MQ=255)

                                                                                                tCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATc                                                                                                                           <  1:1481488/54‑1 (MQ=255)

                                                                                                    ggCGCTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatggat                                  <  1:1629958/139‑1 (MQ=255)

                                                                                                      cgcTGCGTGGTAATCGACTTGGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGt                                >  1:1056659/1‑139 (MQ=255)

                                                                                                      cgcTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCa                                                                                                                                    <  2:1790224/39‑1 (MQ=255)

                                                                                                      cgcTGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCa                                                                                                                                    >  1:1790224/1‑39 (MQ=255)

                                                                                                         tGCGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGa                             <  2:1334226/139‑1 (MQ=255)

                                                                                                           cGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTccc                                                                                                             >  2:57609/1‑57 (MQ=255)

                                                                                                           cGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTccc                                                                                                             <  1:57609/57‑1 (MQ=255)

                                                                                                           cGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAg                                                                                           <  1:383092/75‑1 (MQ=255)

                                                                                                           cGTGGTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAg                                                                                           >  2:383092/1‑75 (MQ=255)

                                                                                                              ggTAATCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAAc                        <  2:1043642/139‑1 (MQ=255)

                                                                                                                 aaTCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCAc                     <  2:1662125/139‑1 (MQ=255)

                                                                                                                   tCGACTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCACACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTa                   <  1:662422/139‑1 (MQ=255)

                                                                                                                      aCTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTga                                       <  2:1751940/116‑1 (MQ=255)

                                                                                                                      aCTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTga                                       >  1:1751940/1‑116 (MQ=255)

                                                                                                                      aCTTAGCGATGGCGCACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTACCg                >  1:811427/1‑139 (MQ=255)

                                                                                                                          aGCGATGGCGCACTGCTCACTCTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTACCGCata            <  2:1055436/139‑1 (MQ=255)

                                                                                                                                    cACTGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTACCGCATATTCGTCTTGa  >  2:1008017/1‑139 (MQ=255)

AAAATGCGGCGTTCGAAGGGATCAGCATGGACTGCCTGGGGCTGGCGTCAGTTCAGGCGACCACCAGCGGCATTATTGATGTTAACGGTGAGAAAATCCCGGCGCTGCGTGGTAATCGACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGGATGTCGACAAACCACTACCGCATATTCGTCTTGA  >  NC_000913/1385204‑1385474

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A