Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	56 [0]	[0] 56	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	50 (1.020)	47/264	0.1	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

ACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTC  >  NC_000913/3815717‑3816000                                                                                                                                              |                                                                                                                                               acacCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACCTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCc                                                                                                                                               <  1:702874‑M1/143‑2 (MQ=255)    ccTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtc                                                                                                                                            <  1:203131‑M1/143‑5 (MQ=255)             tAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcact                                                                                                                                   >  1:33413‑M1/1‑130 (MQ=255)              acgcgcaaATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcactt                                                                                                                                  <  1:755362‑M1/141‑15 (MQ=255)                 cgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaa                                                                                                                               >  2:910766‑M1/1‑126 (MQ=255)                  gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGGCAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcggcccctgcacaccaat                                                                                                                              >  2:664052‑M1/1‑125 (MQ=255)                  gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTGCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaat                                                                                                                              <  2:401109‑M1/143‑19 (MQ=255)                             agcctggCGCGGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgt                                                                                                                   <  1:728914‑M1/140‑30 (MQ=255)                             aaaCTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCCGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgt                                                                                                                   >  1:224552‑M1/1‑114 (MQ=255)                               aCTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtca                                                                                                                 >  1:509775‑M1/1‑112 (MQ=255)                                  ggCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcg                                                                                                              <  1:25964‑M1/143‑35 (MQ=255)                                             ggTTTCATGCCTTCGCTCCTCATATTACTTGTCTTCAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgttgcgcccgtcttcggtcatcactac                                                                                                   <  2:950351‑M1/143‑46 (MQ=255)                                              gTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcctcactacg                                                                                                  >  1:771725‑M1/1‑97 (MQ=255)                                                ttCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGATTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgtg                                                                                                >  2:481199‑M1/1‑95 (MQ=255)                                                ttCATGCCTTCGATCCTCATCTTACTTTTATACAGACAAAAAAAAGGCGACCCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCCTCTGCcgtcccctgcacttccatgatccgcccctcctcggtcctcacgacgtc                                                                                                >  2:681831‑M1/1‑95 (MQ=255)                                                   aTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTAGTCAGCGCCGCCTTCTGCagtaacctccacttcaatgatgcgcccggcttcggtcatcactacgctcat                                                                                             >  2:105483‑M1/1‑92 (MQ=255)                                                            ctcctcATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctc                                                                                    >  2:275052‑M1/1‑83 (MQ=255)                                                                 cATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTGGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcgg                                                                               <  1:660395‑M1/143‑66 (MQ=255)                                                                  aTCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgctgc                                                                              >  2:75202‑M1/1‑77 (MQ=255)                                                                     ttACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcaga                                                                           <  1:721035‑M1/143‑70 (MQ=255)                                                                       aCTTTTCTACAGACAAAAAAAAGGCGACTCATCGGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtgttcggtcatcactacggtcatgtcggcctctgcggcagagt                                                                         >  2:785046‑M1/1‑72 (MQ=255)                                                                           ttCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttc                                                                     <  1:234696‑M1/143‑76 (MQ=255)                                                                              tACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgtgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaac                                                                  >  1:105338‑M1/1‑65 (MQ=255)                                                                              tACAGACAAAAAAAAGGCGACTCATCAGGCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaac                                                                  <  2:758445‑M1/143‑79 (MQ=255)                                                                                     caaaaaaagGCGCCTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattcc                                                           <  1:297832‑M1/142‑86 (MQ=255)                                                                                     aaaaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcataaataagtacttctgggtctctgcggcagagtcttcaacgtattcc                                                           >  1:899950‑M1/1‑58 (MQ=255)                                                                                      tttttaaggcgaCTGATGAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacggtcatgtcggtctctgcggcagagtcttcaacgtcttcca                                                          >  1:229755‑M1/6‑57 (MQ=255)                                                                                         aaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagat                                                       <  2:596619‑M1/143‑90 (MQ=255)                                                                                            aGGCGACTGATGAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgccgcagcgccttcaacggattcccgatcgc                                                    >  2:390668‑M1/1‑51 (MQ=255)                                                                                             ggCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgccactcttcggtcatcactacgttcatgtaggtctctgcgggagagtcctcaacgtattccaaatcgca                                                   >  2:169259‑M1/1‑50 (MQ=255)                                                                                                        aGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagacttcaacgtattccagatcgcaacgcgcttcgc                                        >  2:169337‑M1/1‑39 (MQ=255)                                                                                                           cGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcctcactacgttcatgtcggtctctgcggcagagtcttcaccgtattccagatcgcaaaccgctccgccgt                                     >  1:608973‑M1/1‑36 (MQ=255)                                                                                                           cGCCTCAAAAACCAGTCTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaaggaggcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgt                                     <  1:272535‑M1/143‑108 (MQ=255)                                                                                                            gCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgtt                                    <  1:275052‑M1/143‑109 (MQ=255)                                                                                                             ccTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgtcc                                   >  2:375233‑M1/1‑34 (MQ=255)                                                                                                               ttAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaccccgcttcgcagttcag                                 >  2:226947‑M1/1‑32 (MQ=255)                                                                                                                 aaaaaTCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaa                               >  2:911829‑M1/1‑30 (MQ=255)                                                                                                                    aaTCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattc                            >  1:785854‑M1/1‑27 (MQ=255)                                                                                                                    aaTCAGTCTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattc                            <  1:227661‑M1/143‑117 (MQ=255)                                                                                                                       cAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccga                         <  1:319739‑M1/143‑120 (MQ=255)                                                                                                                        aGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgac                        <  1:872792‑M1/143‑121 (MQ=255)                                                                                                                        aGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcatcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgac                        <  1:910766‑M1/143‑121 (MQ=255)                                                                                                                         gTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttccatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgaca                       <  1:314184‑M1/143‑122 (MQ=255)                                                                                                                         gTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggccgagtctccagcgtattccagatcgcaccccaattctcccttggcaactccgaca                       >  2:871984‑M1/1‑22 (MQ=255)                                                                                                                              ccAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaac                  <  2:609800‑M1/143‑127 (MQ=255)                                                                                                                              ccAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcagcactacgttcatgtcggtctcggcggcagagtcttcaacgtattccagatcgcacaccgctccgccgttcccaagaccgacagacac                  >  2:449496‑M1/1‑17 (MQ=255)                                                                                                                                 gcgcCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgatcatgtcggtctctgcgcaagagtgtacaacgtattacagatagcaaaccgcttcgacgtgcacgattccgacagacactgc               >  2:72829‑M1/1‑14 (MQ=255)                                                                                                                                   gccgccTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgatcatgtcggtctctccggcagagacttcaaagtactccacatagcacaccgcttccccgttcaccattccgccagaaaccgcgc             >  2:152476‑M1/1‑12 (MQ=255)                                                                                                                                   gccgccTTCGGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcgg             <  1:184666‑M1/143‑132 (MQ=255)                                                                                                                                    ccgccTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggc            >  1:849332‑M1/1‑11 (MQ=255)                                                                                                                                        cTTCTGTcgtccccttcacttcaatgatgcgcccgtcttcggtcatcactaccttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctacc        <  2:34247‑M1/143‑137 (MQ=255)                                                                                                                                        cTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctcttcggcagagtcttctacgtattccagatcgcaaaacacttcgccgttcacaattccgaaagaaactgcggctgcc        >  1:485327‑M1/1‑7 (MQ=255)                                                                                                                                        cTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcgactacc        >  1:660058‑M1/1‑7 (MQ=255)                                                                                                                                          tCTGCcgtcccctgcacttccaggctgcgcccgtgttcggtcatcactccgttcctgtcgtcctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctaccat      <  2:408903‑M1/143‑139 (MQ=255)                                                                                                                                           cTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgtcagaaactgcggctaccatc     >  1:347783‑M1/1‑4 (MQ=255)                                                                                                                                              ccgtcccctgctcttcattgatgcgcccgtctttggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctaccatccct  <  2:619207‑M1/143‑143 (MQ=255)                                                                                                                                              |                                                                                                                                               ACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTC  >  NC_000913/3815717‑3816000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑