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
A1 F1 I1 R1	26	102.0	3326124	78.0%	2594376	98.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP002094	637,425	(A)_7→6	coding (297/1164 nt)	LLNZ_03315 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP002094	637,419	0	A	.	100.0%	392.9 / NA	81	coding (303/1164 nt)	LLNZ_03315	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (44/37); total (44/37)

CTGGTGTAGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCAAAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATA  >  CP002094/637321‑637513

cTGGTGTAGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCa                                                                                                >  1:1636585/1‑99 (MQ=255)

       aGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCaaaaaacc                                                                                         <  1:406224/99‑3 (MQ=255)

         gCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCaaaaaaccta                                                                                       >  2:261778/1‑95 (MQ=255)

         gCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCaaaaaaccta                                                                                       <  1:1387465/99‑5 (MQ=255)

          cTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCtaa                                                                                     <  2:410005/99‑1 (MQ=255)

            aaaaaTAATGTTAATATTTCTATAAATATTTTAAATTAAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAATCCtaata                                                                                   <  1:250027/95‑1 (MQ=255)

             cTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCtaataa                                                                                  >  1:340689/1‑99 (MQ=255)

               gATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATg                                                                                <  1:1192140/99‑1 (MQ=255)

                aTAATGTTGAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGt                                                                               <  2:1107610/99‑1 (MQ=255)

                aTAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGt                                                                               <  1:1424279/99‑1 (MQ=255)

                 tAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTc                                                                              >  1:1300419/1‑99 (MQ=255)

                 tAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTc                                                                              >  2:645438/1‑99 (MQ=255)

                     gTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCgaga                                                                          >  2:1458554/1‑99 (MQ=255)

                     gTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCgaga                                                                          >  2:260258/1‑99 (MQ=255)

                      ttAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGagag                                                                         >  1:861298/1‑99 (MQ=255)

                        aaGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGa                                                                       <  2:817169/99‑1 (MQ=255)

                         aGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGAt                                                                      >  1:734073/1‑99 (MQ=255)

                           cTTTCTTAAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATta                                                                    <  1:669323/99‑1 (MQ=255)

                           cTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATta                                                                    <  1:538532/99‑1 (MQ=255)

                           cTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATta                                                                    <  2:730291/99‑1 (MQ=255)

                             ttCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATtata                                                                  >  1:1559630/1‑99 (MQ=255)

                              tctcTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAc                                                                 <  2:125017/99‑1 (MQ=255)

                              tctcTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAc                                                                 <  1:737952/99‑1 (MQ=255)

                              tctcTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAc                                                                 >  1:1091658/1‑99 (MQ=255)

                              tctcTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAc                                                                 <  2:693640/99‑1 (MQ=255)

                               ctctAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACt                                                                >  1:1185222/1‑99 (MQ=255)

                                tctAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACtt                                                               <  1:381548/99‑1 (MQ=255)

                                 ctAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTa                                                              >  1:935270/1‑99 (MQ=255)

                                   aaaGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTaaa                                                            <  2:373774/99‑1 (MQ=255)

                                    aaGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAAc                                                           >  2:526833/1‑99 (MQ=255)

                                     aGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACt                                                          >  2:1076247/1‑99 (MQ=255)

                                      gATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACtt                                                         >  1:656396/1‑99 (MQ=255)

                                       aTTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTg                                                        >  2:1579106/1‑99 (MQ=255)

                                        ttttAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGc                                                       >  2:1227256/1‑99 (MQ=255)

                                        ttttAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGc                                                       <  2:1573484/99‑1 (MQ=255)

                                         tttAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCt                                                      <  1:1403501/99‑1 (MQ=255)

                                         tttAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCt                                                      <  1:75333/99‑1 (MQ=255)

                                          ttAAATTTCGATTTTGAGACATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAACCCTAATAATGTCGAGAGGATTATACTTAAACTTGCtg                                                     <  2:1254509/99‑2 (MQ=255)

                                          ttAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTa                                                     >  1:77285/1‑99 (MQ=255)

                                              aTTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGa                                                 >  2:160403/1‑99 (MQ=255)

                                              aTTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGa                                                 >  2:1414523/1‑99 (MQ=255)

                                               tttAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGAc                                                >  1:1603980/1‑99 (MQ=255)

                                                ttAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACa                                               <  1:410503/99‑1 (MQ=255)

                                                 tAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAg                                              >  2:1324958/1‑99 (MQ=255)

                                                 tAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAg                                              <  1:1360607/99‑1 (MQ=255)

                                                   gATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGt                                            >  2:79561/1‑99 (MQ=255)

                                                   gATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGt                                            >  2:88661/1‑99 (MQ=255)

                                                    aTTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTg                                           >  1:1275938/1‑99 (MQ=255)

                                                     ttttGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGc                                          <  2:190824/99‑1 (MQ=255)

                                                     ttttGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGc                                          >  2:1620026/1‑99 (MQ=255)

                                                     ttttGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGc                                          >  2:899622/1‑99 (MQ=255)

                                                     ttttGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGc                                          <  1:845877/99‑1 (MQ=255)

                                                        tGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGa                                       <  1:430180/99‑1 (MQ=255)

                                                          aTAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACt                                     >  2:604384/1‑99 (MQ=255)

                                                           tAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACtt                                    <  1:137388/99‑1 (MQ=255)

                                                           tAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACtt                                    >  2:154572/1‑99 (MQ=255)

                                                           tAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTCATACTGAGAGGTGACGACtt                                    >  1:759938/1‑99 (MQ=255)

                                                             aaTCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTcc                                  >  1:51894/1‑99 (MQ=255)

                                                             aaTCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTcc                                  <  2:317550/99‑1 (MQ=255)

                                                             aaTCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTcc                                  >  1:162595/1‑99 (MQ=255)

                                                              aTCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCa                                 >  1:416721/1‑99 (MQ=255)

                                                               tCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAg                                <  1:1227256/99‑1 (MQ=255)

                                                               tCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAg                                <  2:1612121/99‑1 (MQ=255)

                                                                  caGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTaa                             >  2:1150325/1‑99 (MQ=255)

                                                                   aGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTaaa                            <  1:188636/99‑1 (MQ=255)

                                                                   aGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTaaa                            >  1:757918/1‑99 (MQ=255)

                                                                   aGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTaaa                            <  1:1150418/99‑1 (MQ=255)

                                                                    gCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAAt                           >  1:983854/1‑99 (MQ=255)

                                                                     cTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATg                          >  1:610508/1‑99 (MQ=255)

                                                                        ttCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCaa                       <  1:753688/99‑1 (MQ=255)

                                                                         tCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAAt                      <  1:1039214/99‑1 (MQ=255)

                                                                         tCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAAt                      >  1:985143/1‑99 (MQ=255)

                                                                           tttAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAAttt                    >  2:1001531/1‑99 (MQ=255)

                                                                                   aaTCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGt            >  2:772587/1‑99 (MQ=255)

                                                                                   aaTCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGt            <  2:1113817/99‑1 (MQ=255)

                                                                                    aTCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGtt           >  2:1318867/1‑99 (MQ=255)

                                                                                       cATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAg        >  1:623882/1‑99 (MQ=255)

                                                                                       cATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAg        <  2:840657/99‑1 (MQ=255)

                                                                                           aGAAACC‑AAAAAACCTAATAATGTCGAGATGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCaaa    <  1:1291544/99‑1 (MQ=255)

                                                                                           aGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCaaa    <  2:1554092/99‑1 (MQ=255)

                                                                                           aGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCaaa    >  1:1459454/1‑99 (MQ=255)

                                                                                           aGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAATTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCaaa    <  1:1461597/99‑1 (MQ=255)

                                                                                            gAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAt   >  1:786390/1‑99 (MQ=255)

                                                                                            gAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAt   >  1:1358298/1‑99 (MQ=255)

                                                                                             aaaCC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATa  <  2:1013903/99‑1 (MQ=255)

CTGGTGTAGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCAAAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATA  >  CP002094/637321‑637513

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

BRESEQ :: bam2aln output

AGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCAAAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATAAAAAAATAACC  >  CP002094/637328‑637524

AGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCT                                                                                                  <  SRR7892090.410187/100‑1 (MQ=60)

  GCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAA                                                                                                <  SRR7892090.1395539/100‑1 (MQ=60)

     aaaaATAATGTTAATATTTCTATAAATATTTTAAATTAAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAATCCTAATAA                                                                                             <  SRR7892090.252425/96‑1 (MQ=60)

     ACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAA                                                                                             >  SRR7892090.344017/1‑100 (MQ=60)

        GATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGT                                                                                          <  SRR7892090.1199829/100‑1 (MQ=60)

         ATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTC                                                                                         <  SRR7892090.1432510/100‑1 (MQ=60)

         ATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTC                                                                                         >  SRR7892090.1308325/1‑100 (MQ=60)

              GTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAG                                                                                    >  SRR7892090.867977/1‑100 (MQ=60)

                 AAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGAT                                                                                 >  SRR7892090.740125/1‑100 (MQ=60)

                    CTTTCTTAAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTAT                                                                              <  SRR7892090.675008/100‑1 (MQ=60)

                    CTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTAT                                                                              <  SRR7892090.543404/100‑1 (MQ=60)

                     TTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATA                                                                             >  SRR7892090.1569233/1‑100 (MQ=60)

                      TTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAC                                                                            >  SRR7892090.1099075/1‑100 (MQ=60)

                       TCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACT                                                                           <  SRR7892090.744014/100‑1 (MQ=60)

                       TCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACT                                                                           >  SRR7892090.1192881/1‑100 (MQ=60)

                         TCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTA                                                                         <  SRR7892090.385293/100‑1 (MQ=60)

                         TCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTA                                                                         >  SRR7892090.942238/1‑100 (MQ=60)

                              AGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTT                                                                    >  SRR7892090.661946/1‑100 (MQ=60)

                                  TTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTA                                                                <  SRR7892090.75992/100‑1 (MQ=60)

                                  TTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTA                                                                >  SRR7892090.77962/1‑100 (MQ=60)

                                  TTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTA                                                                <  SRR7892090.1411602/100‑1 (MQ=60)

                                    ccagtacctgagttatttccagtagagcccgtcgtattgcccgagcctgatccaccAAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTAC                                                               <  SRR7892090.1008456/44‑1 (MQ=60)

                                       tttatttgttaaaaaaccacaagtTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGAC                                                           <  SRR7892090.1545840/76‑1 (MQ=60)

                                       ATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGAC                                                           >  SRR7892090.1614030/1‑100 (MQ=60)

                                         TTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAG                                                         <  SRR7892090.414503/100‑1 (MQ=60)

                                          TAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGG                                                        <  SRR7892090.1368641/100‑1 (MQ=60)

                                            GATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTG                                                      >  SRR7892090.1283799/1‑100 (MQ=60)

                                              TTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCC                                                    <  SRR7892090.852486/100‑1 (MQ=60)

                                                 TGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGAC                                                 <  SRR7892090.434276/100‑1 (MQ=60)

                                                   ATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTCATACTGAGAGGTGACGACTT                                               >  SRR7892090.766062/1‑100 (MQ=60)

                                                    TAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTC                                              <  SRR7892090.138598/100‑1 (MQ=60)

                                                     AAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCC                                             >  SRR7892090.52368/1‑100 (MQ=60)

                                                     AAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCC                                             >  SRR7892090.164026/1‑100 (MQ=60)

                                                      AATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCA                                            >  SRR7892090.420773/1‑100 (MQ=60)

                                                        TCACAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGT                                          <  SRR7892090.1235018/100‑1 (MQ=60)

                                                           CAGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAA                                       >  SRR7892090.764039/1‑100 (MQ=60)

                                                            AGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAAT                                      <  SRR7892090.190371/100‑1 (MQ=60)

                                                            AGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAAT                                      >  SRR7892090.990930/1‑100 (MQ=60)

                                                            AGCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAAT                                      <  SRR7892090.1157973/100‑1 (MQ=60)

                                                             GCTTTTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATG                                     >  SRR7892090.615820/1‑100 (MQ=60)

                                                                 TTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAAT                                 >  SRR7892090.992220/1‑100 (MQ=60)

                                                                 TTCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAAT                                 <  SRR7892090.759797/100‑1 (MQ=60)

                                                                  TCTTTAAGTAAATCCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATT                                <  SRR7892090.1046458/100‑1 (MQ=60)

                                                                               CCATAAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAG                   >  SRR7892090.629263/1‑100 (MQ=60)

                                                                                   AAGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAA               >  SRR7892090.1468086/1‑100 (MQ=60)

                                                                                    AGAAACC‑AAAAAACCTAATAATGTCGAGATGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAT              <  SRR7892090.1299429/100‑1 (MQ=60)

                                                                                    AGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAT              >  SRR7892090.792639/1‑100 (MQ=60)

                                                                                    AGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAT              >  SRR7892090.1366328/1‑100 (MQ=60)

                                                                                    AGAAACC‑AAAAAACCTAATAATGTCGAGAGGATTATAATTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAAT              <  SRR7892090.1470247/100‑1 (MQ=60)

                                                                                       AACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATACAATTTGAGAATGgtttgtaaaaaaa           >  SRR7892090.1217144/1‑87 (MQ=60)

                                                                                        ACC‑AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGCGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATAAAA          >  SRR7892090.848532/1‑100 (MQ=60)

                                                                                            AAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATAAAAAAA       <  SRR7892090.974307/100‑1 (MQ=60)

                                                                                                 ACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGCGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATAAAAAAATAACA  >  SRR7892090.729085/1‑100 (MQ=60)

AGGCTACTGATAATGTTAAGCTTTCTCTAAAGATTTTAAATTTAGATTTTGATAAATCACAGCTTTTCTTTAAGTAAATCCATAAGAAACCAAAAAAACCTAATAATGTCGAGAGGATTATACTTAAACTTGCTACTGACAGGTGCCGACTTCCAGTAAATGCAATTTGAGAATGTTTAGCAAATAAAAAAATAACC  >  CP002094/637328‑637524

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`