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	4,190,856	T→C	Q338R (CAG→CGG)	thiH ←	2‑iminoacetate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,190,856	0	T	C	100.0%	156.4 / NA	45	Q338R (CAG→CGG)	thiH	2‑iminoacetate synthase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/21); total (24/21)

CATTCCGTCTCATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACTGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGACAGTTCAATCTC  >  NC_000913/4190726‑4190992

cATTCCGTCTCATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACt                                                                                                                                 <  1:41437/140‑1 (MQ=255)

     cGTCTCATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCgggg                                                                                                                            >  1:315235/1‑140 (MQ=255)

     cGTCTCATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCgggg                                                                                                                            <  1:435113/140‑1 (MQ=255)

       tctcATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTg                                                                                                                          >  2:868070/1‑140 (MQ=255)

       tctcATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTg                                                                                                                          >  2:810529/1‑140 (MQ=255)

           aTAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTa                                                                                                                      <  1:615862/140‑1 (MQ=255)

           aTAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGACTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTa                                                                                                                      <  2:69631/140‑1 (MQ=255)

              gTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCg                                                                                                                   <  2:315235/140‑1 (MQ=255)

               tCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCgg                                                                                                                  >  1:858751/1‑140 (MQ=255)

                 tttGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCa                                                                                                                >  2:572280/1‑140 (MQ=255)

                  ttGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCAt                                                                                                               <  1:868070/140‑1 (MQ=255)

                         gcgcGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCg                                                                                                                   <  1:2937/129‑1 (MQ=255)

                         gcgcGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCg                                                                                                                   >  2:2937/1‑129 (MQ=255)

                         gcgcGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGcc                                                                                                           <  2:691441/137‑1 (MQ=255)

                         gcgcGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGcc                                                                                                           >  1:691441/1‑137 (MQ=255)

                              tCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCt                                                                                                   <  1:138566/140‑1 (MQ=255)

                                         tGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCgag                                                                                        >  1:31972/1‑140 (MQ=255)

                                               aGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGgcg                                                                                  <  1:810529/140‑1 (MQ=255)

                                                  cTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTg                                                                               <  2:272455/140‑1 (MQ=255)

                                                   tttCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGa                                                                              <  2:51815/140‑1 (MQ=255)

                                                           ccGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTg                                                                      >  2:668467/1‑140 (MQ=255)

                                                             ggCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGAt                                                                    >  1:25134/1‑140 (MQ=255)

                                                              gCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGt                                                                           >  2:635507/1‑132 (MQ=255)

                                                              gCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGt                                                                           <  1:635507/132‑1 (MQ=255)

                                                              gCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATc                                                                   >  1:411553/1‑140 (MQ=255)

                                                              gCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATc                                                                   >  2:519508/1‑140 (MQ=255)

                                                               cTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGgcgc                                                                                 >  1:296168/1‑125 (MQ=255)

                                                               cTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGgcgc                                                                                 <  2:296168/125‑1 (MQ=255)

                                                               cTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCg                                                                  >  2:455756/1‑140 (MQ=255)

                                                                   aaaCCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAg                                                              <  1:668467/140‑1 (MQ=255)

                                                                          gAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATa                                                       >  2:880254/1‑140 (MQ=255)

                                                                          gAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATa                                                       >  1:76228/1‑140 (MQ=255)

                                                                            gCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGc                                                             <  2:319907/132‑1 (MQ=255)

                                                                            gCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGc                                                             >  1:319907/1‑132 (MQ=255)

                                                                                 tAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGAt                                                >  2:677378/1‑140 (MQ=255)

                                                                                         cagcaACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAAc                                        >  2:418129/1‑140 (MQ=255)

                                                                                                     ccGGTCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGTGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTcc                            <  2:374225/140‑1 (MQ=255)

                                                                                                         tCTGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCcgcg                        <  2:76228/140‑1 (MQ=255)

                                                                                                           tGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTg                      >  2:547332/1‑140 (MQ=255)

                                                                                                           tGCGATCGTCGTGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTg                      <  2:31972/140‑1 (MQ=255)

                                                                                                                   tcgtGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGa              >  2:707996/1‑140 (MQ=255)

                                                                                                                   tcgtGCGGTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGa              >  2:121166/1‑140 (MQ=255)

                                                                                                                          gTGAGAACCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGACAGTTCa       >  1:861081/1‑140 (MQ=255)

                                                                                                                               aaCCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGACAGTTCAAtctc  <  1:121166/140‑1 (MQ=255)

                                                                                                                               aaCCGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGACAGTTCAAtct   <  1:827004/139‑1 (MQ=255)

CATTCCGTCTCATAGTCTTTGCGAGGCGCGTCCCAGATAGCTGTCCCAGTCTTTCCATACCGGCTGCAAACCCTGAGCGGTTAACGCGGCAGCAACCGCTTCCGGTCTGCGATCGTCGTGCGGTGAGAACTGTTCCAACTCGGGGTGATTATCGGCATAGCCACCTGGCTGCGTTTTCGAGAAGGCGCTGACGTTATTGATCGCCAGCGGAATAACGCGATCGCGAAACCACGGTGATTCCCGCGTGGAGAGTGACAGTTCAATCTC  >  NC_000913/4190726‑4190992

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