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
A4 F195 I0 R2	483	52.1	1908604	98.1%	1872340	138.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	2,123,625	C→G	10.0%	C299S (TGC→TCC) ‡	cpsB ←	mannose‑1‑phosphate guanyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,123,625	0	C	G	10.0%	125.0 / 5.9	40	C299S (TGC→TCC) ‡	cpsB	mannose‑1‑phosphate guanyltransferase
Reads supporting (aligned to +/- strand): ref base C (14/22); new base G (2/2); total (16/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.01e-01

CCTGTACCGCGTTACGGTCGGCAATCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGACCGCGTAATCCACCGACTCTTCCGGGCAGGC  >  NC_000913/2123482‑2123770

ccTGTACCGCGTTACGGTCGGCAATCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGATTTCAGCTTTGTGATTAATCACATCGCCGTGGCAAACg                                                                                                                                              >  1:26262/1‑149 (MQ=255)

  tGTACCGCGTTACGGTCGGCAATCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGtt                                                                                                                                            <  4:430842/149‑1 (MQ=255)

   gTACCGCGTTACGGTCGGCAATCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTg                                                                                                                                           <  3:429162/149‑1 (MQ=255)

                       aTCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCt                                                                                                                       <  4:118159/149‑1 (MQ=255)

                        tCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTg                                                                                                                      >  3:290387/1‑149 (MQ=255)

                           gCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGAtc                                                                                                                   <  1:114979/149‑1 (MQ=255)

                             aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGAtctc                                                                                                                 <  1:403465/149‑1 (MQ=255)

                                 cATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCAt                                                                                                             <  4:290387/149‑1 (MQ=255)

                                       tGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGaa                                                                                                       <  1:295161/149‑1 (MQ=255)

                                       tGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGaa                                                                                                       <  4:93352/149‑1 (MQ=255)

                                       tGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGaa                                                                                                       <  3:97429/149‑1 (MQ=255)

                                       tGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAAAGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGaa                                                                                                       <  4:276617/149‑1 (MQ=255)

                                          tCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGAc                                                                                                    <  2:26262/149‑1 (MQ=255)

                                                    tACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCaa                                                                                          <  4:39598/149‑1 (MQ=255)

                                                    tACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACACCGCCGAGGGCAACGTTTGCCAcggcgat                                                                                                                                <  4:442261/111‑3 (MQ=37)

                                                      ccAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTccc                                                                                                               <  4:245586/126‑1 (MQ=255)

                                                      ccAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTccc                                                                                                               >  3:245586/1‑126 (MQ=255)

                                                      ccAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACa                                                                                        >  3:282364/1‑149 (MQ=255)

                                                      ccAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACACCGCCGAGGGCAACGTTTGCCAcggcgat                                                                                                                                >  4:46427/1‑107 (MQ=37)

                                                       cAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACAt                                                                                       >  2:219764/1‑149 (MQ=255)

                                                       cAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACAt                                                                                       <  1:190118/149‑1 (MQ=255)

                                                        aGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCa                                                                                           >  1:142385/1‑144 (MQ=255)

                                                        aGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCa                                                                                           <  2:142385/144‑1 (MQ=255)

                                                          aTCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGc                                                                                    >  3:319480/1‑149 (MQ=255)

                                                            cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTc                                                                                  <  3:184544/149‑1 (MQ=255)

                                                                    ccGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACACCGCCGAGGGCAACGTTTGCCACGGCGAtgtgattaa                                                                                                                        >  4:78586/1‑98 (MQ=21)

                                                                    ccGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACACCGCCGAGGGCAACGTTTGCCACGGCGAtgtgattaa                                                                                                                        <  3:78586/103‑6 (MQ=18)

                                                                                       cAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCacaaca                                                       <  1:219764/149‑1 (MQ=255)

                                                                                           ttCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCAt                                                   >  1:370387/1‑149 (MQ=255)

                                                                                                 aTACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTc                                                                                  >  3:348320/1‑112 (MQ=255)

                                                                                                 aTACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTc                                                                                  <  4:348320/112‑1 (MQ=255)

                                                                                                     acaTAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACg                                         >  3:363979/1‑149 (MQ=255)

                                                                                                              ttttCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCacaaca                                                       >  2:467121/1‑126 (MQ=255)

                                                                                                              ttttCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCacaaca                                                       <  1:467121/126‑1 (MQ=255)

                                                                                                                   aGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGACCGCGt                           <  2:187178/149‑1 (MQ=255)

                                                                                                                          tgATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGAcc                               >  4:453187/1‑138 (MQ=255)

                                                                                                                          tgATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGAcc                               <  3:453187/138‑1 (MQ=255)

                                                                                                                          tgATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGACCGCGTAATCCAc                    >  2:35118/1‑149 (MQ=255)

                                                                                                                             ttAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCGAGCCAGCATCCATCGGCACCACAACAGCATCTGCCGTAAGTTCCATGACCGCGTAATACACCGa                 >  4:240142/1‑149 (MQ=255)

                                                                                                                                            tGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGACCGCGTAATCCACCGACTCTTCCGGGCAGGc  <  1:35118/149‑1 (MQ=255)

CCTGTACCGCGTTACGGTCGGCAATCAGCACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGGCGGTGTGGGCGCTGATCTCCCATAATGAAGACCAGGAGCCAACATCGCTCCAGCCCGCATCCATCGGCACCACAACAGCATCTGCCGTACGTTCCATGACCGCGTAATCCACCGACTCTTCCGGGCAGGC  >  NC_000913/2123482‑2123770

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A