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
A10 F1 I1 R1	14	23.9	1506608	98.1%	1477982	76.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	REL606	1,733,297	(CGTATGAA)_1→2	coding (333/1413 nt)	pykF →	pyruvate kinase

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	REL606	1733288 =	1 (0.040)	22 (0.950)	18/146	0.4	93.7%	coding (324/1413 nt)	pykF	pyruvate kinase
*	?	REL606	= 1733295	2 (0.090)	22 (0.950)	18/146	0.4	93.7%	coding (331/1413 nt)	pykF	pyruvate kinase

CCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733361‑1733288

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCTT  <  REL606/1733295‑1733221

CCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCA                                                                           <  1:602629/76‑1

   TACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATAC                                                                        >  1:512691/1‑76

   TACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATAC                                                                        <  1:534082/76‑1

      CGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTT                                                                     <  2:277210/76‑1

           AGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGC                                                                <  2:199253/76‑1

            GACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTATCGaa                                                               <  2:664438/76‑3

             ACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAA                                                              <  1:219576/76‑1

              CCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAAC                                                             >  2:539238/1‑76

                      AACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGC                                                     >  1:415701/1‑76

                         CAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGT                                                  >  1:365564/1‑76

                            TACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGC                                               >  2:750491/1‑76

                                 TGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATA                                          >  1:107315/1‑76

                                     GCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAn                                      <  1:45859/76‑2

                                           AGACAGGTCAGTATTGAACCCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTAT                                <  2:583700/76‑1

                                           AGACAGGTCAGTAGTGAACCCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTAT                                <  2:583704/76‑1

                                               AGGTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGT                            >  2:639748/1‑76

                                                 GTCAGTAGTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGG                          <  2:698252/76‑1

                                                        GTGAAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTCGTGAAAGT                   <  2:484709/76‑1

                                                           AAACCTTCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAA                >  2:597096/1‑76

                                                                 TCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTG          >  2:130396/1‑76

                                                                 TCATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTG          >  2:343484/1‑76

                                                                  CATACGTTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGA         <  2:462127/76‑1

                                                                        TTCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCT   >  1:397491/1‑76

                                                                         TCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCTT  <  2:725548/76‑1

CCATACCGATCAGACCATCGTCAACCAGTACGGTGTTGCCAACAGACAGGTCAGTAGTGAAACCTTCATACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1733361‑1733288

‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttCATACGTTACCGCAACCATTTCGCTGTTGCCGATAACAGATTTATCAGTGGTGAAAGTAAAGGTCTGACCAGCTT  <  REL606/1733295‑1733221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A