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	123	51.0	1731148	99.3%	1719029	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,552,123	T→C	G117G (GGA→GGG)	malP ←	maltodextrin phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,552,123	0	T	C	98.0%	177.4 / ‑5.7	51	G117G (GGA→GGG)	malP	maltodextrin phosphorylase
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (22/28); minor base A (0/1); total (22/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGGTTGTT  >  NC_000913/3551988‑3552245

ccAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCa                                                                                                                        >  1:132006/1‑140 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  1:555459/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  2:776679/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  2:557937/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  1:613485/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  1:458802/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  1:456763/140‑1 (MQ=255)

   gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGac                                                                                                                     <  2:309086/140‑1 (MQ=255)

              cTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTAccc                                                                                                          >  2:317427/1‑140 (MQ=255)

                          tGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCg                                                                                              <  2:738079/140‑1 (MQ=255)

                           gCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGa                                                                                             <  2:671130/140‑1 (MQ=255)

                                  aCAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCtcttc                                                                                      >  2:96506/1‑140 (MQ=255)

                                      aaGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTcc                                                                                  <  1:123807/140‑1 (MQ=255)

                                             gCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCca                                                                                 >  2:277217/1‑134 (MQ=255)

                                             gCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCca                                                                                 <  1:277217/134‑1 (MQ=255)

                                                      aCCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGAt                                                                  >  2:378194/1‑140 (MQ=255)

                                                         atatTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGa                                                               <  2:465027/140‑1 (MQ=255)

                                                                tAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGt                                                                       <  2:125078/125‑1 (MQ=255)

                                                                tAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGt                                                                       >  1:125078/1‑125 (MQ=255)

                                                                tAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATa                                                        >  1:301771/1‑140 (MQ=255)

                                                                  gTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAg                                                      >  1:853862/1‑140 (MQ=255)

                                                                    tCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGcc                                                    >  1:800315/1‑140 (MQ=255)

                                                                     cAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCt                                                   >  1:470329/1‑140 (MQ=255)

                                                                     cAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCt                                                   >  2:277803/1‑140 (MQ=255)

                                                                        aCCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCa                                                >  2:167725/1‑140 (MQ=255)

                                                                         ccGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCaa                                               >  1:126935/1‑140 (MQ=255)

                                                                          cGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAAc                                              <  2:380333/140‑1 (MQ=255)

                                                                            tAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGa                                            >  1:656393/1‑140 (MQ=255)

                                                                              aCCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAAt                                          <  1:317427/140‑1 (MQ=255)

                                                                                    cGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTa                                    <  2:853862/140‑1 (MQ=255)

                                                                                    cGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTa                                    <  1:167725/140‑1 (MQ=255)

                                                                                    cGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTa                                    >  2:659060/1‑140 (MQ=255)

                                                                                    cGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTa                                    <  2:132006/140‑1 (MQ=255)

                                                                                    cGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTa                                    <  1:96506/140‑1 (MQ=255)

                                                                                     gCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTAc                                   <  2:656393/140‑1 (MQ=255)

                                                                                     gCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTAc                                   <  1:277803/140‑1 (MQ=255)

                                                                                            gACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGCCCACCGTTACCCAGAGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGa                            <  2:233222/140‑1 (MQ=255)

                                                                                             atcGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGACCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGAt                           <  2:800315/138‑1 (MQ=255)

                                                                                                   aGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGc                     >  2:389551/1‑140 (MQ=255)

                                                                                                       gCCATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCgag                 >  2:238612/1‑140 (MQ=255)

                                                                                                        ccATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTCCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCgaga                <  2:601324/140‑1 (MQ=255)

                                                                                                         cATTGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGAt               <  1:659060/140‑1 (MQ=255)

                                                                                                            tGAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCa            >  1:387190/1‑140 (MQ=255)

                                                                                                             gAGTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCaa           <  2:470329/140‑1 (MQ=255)

                                                                                                               gTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCGGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACa         <  1:356128/140‑1 (MQ=255)

                                                                                                               gTCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACa         >  2:142963/1‑140 (MQ=255)

                                                                                                                tCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAAc          >  2:244487/1‑138 (MQ=255)

                                                                                                                tCGAGGAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAAc          <  1:244487/138‑1 (MQ=255)

                                                                                                                     gAAGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGgttgt   <  1:389551/140‑1 (MQ=255)

                                                                                                                      aaGCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGgttgtt  >  1:256437/1‑140 (MQ=255)

                                                                                                                        gCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGgttgt   >  2:24224/1‑137 (MQ=255)

                                                                                                                        gCACGCCGCCAGACGCCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGgttgt   <  1:24224/137‑1 (MQ=255)

CCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCAACAGGTTGTT  >  NC_000913/3551988‑3552245

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A