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 F28 I1 R1	161	75.5	2581324	99.3%	2563254	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,421,638	(C)_7→8	coding (520/858 nt)	ydaU →	Rac prophage; DUF1376 domain‑containing protein YdaU

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,421,631	1	.	C	100.0%	161.0 / NA	45	D171D (GAT→GAC)	ydaU	Rac prophage; DUF1376 domain‑containing protein YdaU
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (24/21); total (24/21)

GCAGAAAGGAAGCAGATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑CCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGCATTGCGAAAA  >  NC_000913/1421495‑1421760

gCAGAAAGGAAGCAGATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑ccc                                                                                                                                <  2:114267/140‑1 (MQ=255)

    aaaGGAAGCAGATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑ccccccc                                                                                                                            >  1:1057178/1‑140 (MQ=255)

              gATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATcccc                                                                                                                   >  2:914922/1‑140 (MQ=255)

              gATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑ccc                                                                                                                                >  2:583991/1‑126 (MQ=255)

              gATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑ccc                                                                                                                                <  1:583991/126‑1 (MQ=255)

                   tCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCgg                                                                                                              <  1:180021/140‑1 (MQ=255)

                           aacaaGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCg                                                                                                      >  2:958223/1‑140 (MQ=255)

                                   agaAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCa                                                                                              <  1:914922/140‑1 (MQ=255)

                                            aCAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTg                                                                                     <  2:195269/140‑1 (MQ=255)

                                                 tgtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                <  2:247543/140‑1 (MQ=255)

                                                 tgtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                <  1:32291/140‑1 (MQ=255)

                                                 tgtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                >  2:576598/1‑140 (MQ=255)

                                                 tgtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                <  2:1152275/140‑1 (MQ=255)

                                                 tgtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                <  1:183736/140‑1 (MQ=255)

                                                  gtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCctc                                                                               >  1:1226379/1‑140 (MQ=255)

                                                  gtTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCctc                                                                               >  1:162360/1‑140 (MQ=255)

                                                   ttCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCctct                                                                              <  1:533073/140‑1 (MQ=255)

                                                   ttCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                <  1:208476/138‑1 (MQ=255)

                                                   ttCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCct                                                                                >  2:208476/1‑138 (MQ=255)

                                                     cAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTgg                                                                            >  2:912983/1‑140 (MQ=255)

                                                           gATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTg                                                                                     >  2:179713/1‑125 (MQ=255)

                                                           gATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTg                                                                                     <  1:179713/125‑1 (MQ=255)

                                                               ttGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACttt                                                                  >  1:1165757/1‑140 (MQ=255)

                                                                     tggtgTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGaa                                                            <  1:912983/140‑1 (MQ=255)

                                                                      ggtgTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAAc                                                           >  1:163915/1‑140 (MQ=255)

                                                                          tttGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGa                                                       >  1:552278/1‑140 (MQ=255)

                                                                                 atgatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGt                                                >  2:490771/1‑140 (MQ=255)

                                                                                  tgatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGaa                                                            <  1:786418/127‑1 (MQ=255)

                                                                                  tgatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGaa                                                            >  2:786418/1‑127 (MQ=255)

                                                                                  tgatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtc                                               <  2:796516/140‑1 (MQ=255)

                                                                                  tgatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtc                                               >  2:1280642/1‑140 (MQ=255)

                                                                                   gatgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtct                                              >  1:726328/1‑140 (MQ=255)

                                                                                    atgTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtctc                                             >  2:992366/1‑140 (MQ=255)

                                                                                       tCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCt                                          <  2:163915/140‑1 (MQ=255)

                                                                                              aaaGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGt                                   >  2:885203/1‑140 (MQ=255)

                                                                                              aaaGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGt                                   >  1:1034420/1‑140 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCGCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGa                                 >  2:891119/1‑140 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtc                                               >  2:127002/1‑126 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGtc                                               <  1:127002/126‑1 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGa                                 <  2:552278/140‑1 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGa                                 <  2:1165757/140‑1 (MQ=255)

                                                                                                aGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGa                                 >  1:806052/1‑140 (MQ=255)

                                                                                                     aCTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTggg                            <  2:1034420/140‑1 (MQ=255)

                                                                                                     aCTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTggg                            <  2:806052/140‑1 (MQ=255)

                                                                                                      cTAATAAAGATACAGATAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGt                           >  2:581978/1‑140 (MQ=255)

                                                                                                                     aTAAAGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGc            <  1:576598/140‑1 (MQ=255)

                                                                                                                         aGATCTAAAAACAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGCATTg        >  2:1178359/1‑140 (MQ=255)

                                                                                                                               aaaaaCAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGCATTGCGaaaa  <  2:162360/140‑1 (MQ=255)

                                                                                                                               aaaaaCAGATCCCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGCATTGCGaaaa  >  2:1257189/1‑140 (MQ=255)

GCAGAAAGGAAGCAGATGTTCAAACAAAACAAGAGAGAAATTTAACAGGTGTTCAAACAGATGTTGAAGTGGTGTTTGAACATGATGTCAACACAAAGGCAACTAATAAAGATACAGATAAAGATCTAAAAACAGAT‑CCCCCCCTAAATCCCCCCCGGGGGAATCGAGGTGTCAAAAAGTTTGACCCTCTGGATATTACTTTGCCGAACTGGATTTCTGTCTCGCTTTGGCGTGAGTGGGTTGAATTTCGCCAGGCATTGCGAAAA  >  NC_000913/1421495‑1421760

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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