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
A2 F28 I1 R1	116	98.7	3298914	99.2%	3272522	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,529,959	(T)_7→6	coding (38/483 nt)	ydcD →	uncharacterized protein YdcD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,529,953	0	T	.	100.0%	223.4 / NA	50	coding (32/483 nt)	ydcD	uncharacterized protein YdcD
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (12/38); total (12/38)

TGCCAAATGTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTAT  >  NC_000913/1529815‑1530082

tGCCAAATGTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCAtt                                                                                                                                  >  1:919349/1‑140 (MQ=255)

 gCCAAATGTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCAttt                                                                                                                                 <  2:1184142/140‑1 (MQ=255)

 gCCAAATGTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCAttt                                                                                                                                 <  1:573901/140‑1 (MQ=255)

        gTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGACAAACTTGTCAttttttaatt                                                                                                                          <  1:423052/140‑5 (MQ=255)

             gATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCt                                                                                                                    <  1:1631871/140‑1 (MQ=255)

              aTGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCtt                                                                                                                   >  2:927064/1‑140 (MQ=255)

              aTGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCtt                                                                                                                   <  2:677300/140‑1 (MQ=255)

                 cATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGt                                                                                                                >  1:989936/1‑140 (MQ=255)

                 cATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGt                                                                                                                >  1:861716/1‑140 (MQ=255)

                       ttGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTAttt                                                                                                          <  1:330585/140‑1 (MQ=255)

                           aaaaTATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATttgttg                                                                                                      >  2:1383197/1‑140 (MQ=255)

                           aaaaTATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATttgttg                                                                                                      >  1:281465/1‑140 (MQ=255)

                             aaTATAACACTGGTCAACTCTTCGGGTTATATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTgttgtt                                                                                                    <  2:1330230/140‑1 (MQ=255)

                             aaTATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTgttgtt                                                                                                    <  2:498821/140‑1 (MQ=255)

                                  aaCACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCt                                                                                               <  2:1194012/140‑1 (MQ=255)

                                  aaCACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCt                                                                                               <  2:456125/140‑1 (MQ=255)

                                    cacTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTg                                                                                             <  1:288090/140‑1 (MQ=255)

                                    cacTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTg                                                                                             <  2:938146/140‑1 (MQ=255)

                                         ggCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGttt                                                                                        >  2:475032/1‑140 (MQ=255)

                                         ggCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGttt                                                                                        <  1:1076988/140‑1 (MQ=255)

                                            aaCTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGAt                                                                                     <  1:1590693/140‑1 (MQ=255)

                                              ctctTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATaa                                                                                   <  1:54410/140‑1 (MQ=255)

                                              ctctTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATaa                                                                                   >  2:45737/1‑140 (MQ=255)

                                              ctctTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATaa                                                                                   >  2:1368941/1‑140 (MQ=255)

                                                   cGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAAtt                                                                              >  1:1127043/1‑140 (MQ=255)

                                                       ttAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCaaa                                                                          <  2:821252/140‑1 (MQ=255)

                                                           aTGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCt                                                                      >  1:70649/1‑140 (MQ=255)

                                                           aTGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCt                                                                      >  2:1511154/1‑140 (MQ=255)

                                                            tGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTg                                                                     <  2:281465/140‑1 (MQ=255)

                                                              gTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGAc                                                                   <  1:518508/140‑1 (MQ=255)

                                                               tataAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACa                                                                  <  2:1265273/140‑1 (MQ=255)

                                                                   aaaGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGt                                                              <  1:1383197/140‑1 (MQ=255)

                                                                   aaaGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGt                                                              <  2:1127043/140‑1 (MQ=255)

                                                                          aTAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTAt                                                       <  2:989936/140‑1 (MQ=255)

                                                                          aTAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTAt                                                       <  2:919349/140‑1 (MQ=255)

                                                                          aTAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTAt                                                       >  1:1087464/1‑140 (MQ=255)

                                                                          aTAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTAt                                                       <  2:1017923/140‑1 (MQ=255)

                                                                            aaTCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATgg                                                     <  1:1251297/140‑1 (MQ=255)

                                                                            aaTCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATgg                                                     <  2:182951/140‑1 (MQ=255)

                                                                            aaTCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATgg                                                     <  1:927064/140‑1 (MQ=255)

                                                                               ccAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACa                                                  <  1:45737/140‑1 (MQ=255)

                                                                                 aaTAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATa                                                <  1:475032/140‑1 (MQ=255)

                                                                                 aaTAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATa                                                <  2:1065994/140‑1 (MQ=255)

                                                                                  aTAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATaa                                               <  2:962586/140‑1 (MQ=255)

                                                                                    aaaaGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATaaaa                                             <  2:1262822/140‑1 (MQ=255)

                                                                                                aGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCg                                 <  1:835064/140‑1 (MQ=255)

                                                                                                 gggAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGt                                <  2:861716/140‑1 (MQ=255)

                                                                                                 gggAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGt                                <  1:271403/140‑1 (MQ=255)

                                                                                                  ggAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGtt                               <  2:70649/140‑1 (MQ=255)

                                                                                                  ggAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGtt                               <  1:1368941/140‑1 (MQ=255)

                                                                                                   gAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTg                              <  2:408313/140‑1 (MQ=255)

                                                                                                                 cAAATTATTAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCt                <  1:1511154/140‑1 (MQ=255)

                                                                                                                    attattAGAGGCAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGaa             <  2:1461259/140‑1 (MQ=255)

                                                                                                                               cAAACTTGTCA‑TTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAAtattat  <  2:1087464/140‑1 (MQ=255)

TGCCAAATGTAGCGATGCATGTATTGAAAAATATAACACTGGGCAACTCTTCGGGTTAGATGGTATAAAAGCAGATAATCCAATAAAAGCAAAGCAAGGGAGTTCAGATGCTTCAAATTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTAT  >  NC_000913/1529815‑1530082

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A