New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AY305378	= 94337	NA (NA)	29 (1.070)	23/208	0.1	100%	noncoding (1313/1313 nt)	ISAE1	repeat region
	?	AY305378	= 445950	0 (0.000)					intergenic (‑20/+31)	cbbFp/cbbEp	fructose‑1,6‑bisphosphate/ribulose‑5‑phosphate 3‑epimerase

GTTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AY305378/94203‑94337 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAACGGCCTGATTCTCAACGTCGC  <  AY305378/445950‑445827                                                                                                                                                                                                                                                                     GTTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGG                                                                                                                               <  2:771064/134‑1  TTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC                                                                                                                              <  1:147662/134‑1  TTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC                                                                                                                              >  2:567729/1‑134  TTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC                                                                                                                              >  1:334491/1‑134  TTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGG                                                                                                                               >  2:1051147/1‑133  TTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCATTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGG                                                                                                                               >  1:725467/1‑133    GAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCC                                                                                                                             <  1:1071738/133‑1       GTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATC                                                                                                                         >  2:702528/1‑134        TCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCT                                                                                                                        <  2:23558/134‑1                 CGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGAC                                                                                                               <  1:702528/134‑1                                TCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAG                                                                                                <  2:684993/134‑1                                            AGGGCTGCTTCAAACATTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAGCCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGA                                                                                    <  2:449037/134‑1                                                CTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCT                                                                                <  1:237978/134‑1                                                CTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCT                                                                                <  1:567729/134‑1                                                CTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGA                                                                                    >  2:447256/1‑130                                                CTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGA                                                                                    <  1:447256/130‑1                                                  GCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGA                                                                              >  1:295627/1‑134                                                       AAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGG                                                                                                                               >  1:889929/1‑80                                                       AAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGG                                                                                                                               <  2:889929/80‑1                                                                 CTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC                                                                                                                              <  1:812511/71‑1                                                                 CTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC                                                                                                                              >  2:812511/1‑71                                                                  TATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAG                                                                                           <  2:685315/105‑1                                                                  TATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAG                                                                                           >  1:685315/1‑105                                                                               TGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGC                                                 >  2:778965/1‑134                                                                                    CTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGG                                                                                                                   >  2:193358/1‑63                                                                                    CTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGG                                                                                                                   <  1:193358/63‑1                                                                                        TTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAG                                                                                                >  1:753743/1‑78                                                                                        TTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAG                                                                                                <  2:753743/78‑1                                                                                          ACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGC                                      >  1:237424/1‑134                                                                                           CCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCC                                     <  2:295627/134‑1                                                                                              GAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGC                                  >  1:666769/1‑134                                                                                                     GCCACGATACCACCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCT                           <  2:237424/134‑1                                                                                                                 CCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAAC                      >  2:241881/1‑127                                                                                                                 CCCACTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAAC                      <  1:241881/127‑1                                                                                                                     CTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAACGGCCTGATTCT           >  2:914727/1‑134                                                                                                                     CTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCT                                                                                <  2:404306/65‑1                                                                                                                     CTTGAAATTCAAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCT                                                                                >  1:404306/1‑65                                                                                                                               AAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAACGGCCTGATTCTCAACGTCGC  >  2:29034/1‑133                                                                                                                               AAAAGAGGCCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAACGGCCTGATTCTCAACGTCGC  <  2:666769/133‑1                                                                                                                                                                                                                                                                     GTTGAAGTCGACTTCCCGGACGAACCACGGATCGCTTATGCCAAGGGCTGCTTCAAACAGTTTGCTATGCATCGCTCTTGTTGCTCTTTACCTGAAACCCGCCACGATACCACCCACTTGAAATTCAAAAGAGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AY305378/94203‑94337 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcCAATCTATAGGAGACCTGTCATGCCCGAAGTCCAGCGGATGACCCTGACGCAGTTCCTGATCGAGGAACGCCGCCGCTATCCGGACGCCAGCGGTGGCTTCAACGGCCTGATTCTCAACGTCGC  <  AY305378/445950‑445827

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.