genome.fa.s8319.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2487 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529381--529954	112	5.1	112	92	1	880	47	13	13	25	1.79
529378--529954	225	2.6	225	91	1	924	47	13	13	25	1.79
529825--530280	182	2.5	182	90	0	716	44	12	15	27	1.82
531163--531205	21	2.0	21	95	0	77	27	27	20	23	1.99
531322--531402	34	2.4	34	95	2	144	19	27	32	20	1.97
531334--531427	20	5.0	20	74	18	87	17	27	35	20	1.94
531768--531800	13	2.5	14	85	14	52	27	36	0	36	1.57
532863--532910	19	2.5	20	82	3	62	29	12	6	52	1.63
534326--534372	19	2.4	20	85	3	60	19	27	34	19	1.96
534326--534384	20	3.0	20	85	2	75	16	28	32	22	1.96
534977--535024	23	2.1	23	84	0	60	41	18	4	35	1.70
536365--536426	18	3.2	20	78	19	62	61	0	1	37	1.06
536391--536556	63	2.6	59	82	15	163	55	1	0	42	1.12
536441--536525	36	2.2	40	82	15	108	56	1	0	42	1.07
536421--536556	63	2.1	64	97	2	256	55	1	0	42	1.08
536487--536580	24	3.8	24	84	8	118	57	1	0	41	1.06
536421--536604	12	14.8	12	68	22	96	57	1	0	40	1.08
536538--536612	12	6.3	12	71	17	59	64	1	0	34	1.02
536413--536607	87	2.2	91	83	8	269	57	1	0	40	1.12
540469--540540	37	2.1	36	82	12	89	48	0	5	45	1.25
540525--540560	14	2.5	15	95	4	65	41	0	0	58	0.98
540538--540637	32	3.5	31	73	25	101	37	0	9	54	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540563--540605	22	2.0	22	90	0	68	37	0	9	53	1.33
540540--540941	54	7.4	54	77	13	389	34	0	12	52	1.39
540608--540655	22	2.4	18	73	23	51	33	0	14	52	1.42
540585--540814	80	2.9	80	98	0	442	32	0	14	52	1.42
540744--540909	32	5.7	32	71	23	168	34	0	13	51	1.41
540777--540819	22	2.0	22	95	0	77	37	0	11	51	1.39
540585--540877	160	1.8	159	85	10	418	33	0	14	52	1.42
540540--540941	112	3.7	111	78	13	474	34	0	12	52	1.39
540956--541014	31	1.9	31	96	0	109	42	8	6	42	1.61
540956--541021	31	2.3	28	85	12	82	40	7	6	45	1.57
542519--542559	21	1.9	22	85	5	57	34	4	9	51	1.56
553466--553505	16	2.5	16	88	8	55	32	7	5	55	1.50
554644--554707	32	2.0	32	96	0	119	51	18	15	14	1.76
557826--557867	20	2.2	20	82	4	50	66	14	4	14	1.40
559999--560048	20	2.5	20	80	0	64	56	0	2	42	1.11
559992--560383	186	2.1	186	91	0	633	43	3	7	45	1.50
562324--562374	21	2.4	21	100	0	102	21	23	31	23	1.98
563488--563547	20	2.8	20	80	10	66	31	20	23	25	1.98
564528--564593	23	2.9	23	81	4	80	18	25	22	33	1.97
568919--568981	23	2.7	23	80	0	81	19	23	23	33	1.97
569836--569875	21	1.9	21	84	0	53	50	7	7	35	1.59
571013--571062	19	2.6	19	96	0	91	36	20	2	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572158--572223	23	2.9	23	86	0	87	30	24	22	22	1.99
573822--573864	21	2.0	21	82	8	52	16	23	27	32	1.96
577428--577496	23	3.0	23	73	12	70	31	26	21	20	1.98
581418--581478	22	2.7	23	94	2	106	21	19	36	22	1.95
586103--586147	18	2.5	19	82	10	58	57	2	13	26	1.48
586802--586844	3	14.3	3	100	0	86	34	0	0	65	0.93
593077--593125	19	2.7	18	78	6	53	46	4	2	46	1.33
595269--595328	23	2.6	22	78	5	57	41	8	16	33	1.78
595355--595414	23	2.6	23	81	0	57	43	6	15	35	1.72
595250--595485	86	2.7	87	90	1	368	44	10	13	31	1.78
595542--595614	14	5.3	14	69	8	51	47	1	1	49	1.18
595542--595610	28	2.5	28	74	6	70	49	1	1	47	1.19
595629--595697	24	2.9	25	75	18	67	44	1	2	50	1.25
596051--596118	20	3.4	20	93	0	118	64	16	13	5	1.46
596093--596304	92	2.3	92	92	0	352	44	14	12	28	1.81
596282--596324	20	2.2	20	95	0	77	62	11	13	11	1.54
596393--596437	20	2.2	20	100	0	90	62	13	13	11	1.55
596185--596605	112	3.8	112	88	0	565	46	13	12	27	1.79
599161--599901	199	3.7	200	95	1	1235	32	17	14	35	1.90
599161--600323	200	5.9	199	90	5	1727	31	17	14	35	1.91
599710--600074	179	2.0	179	95	0	649	32	18	14	34	1.91
599161--600280	379	2.9	379	91	4	1773	32	17	14	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600553--600601	19	2.6	19	93	0	80	57	10	2	30	1.43
601179--601203	4	6.2	4	100	0	50	48	28	0	24	1.52
602399--602464	33	2.0	33	90	0	105	22	45	0	31	1.53
602498--602562	21	3.1	21	88	0	94	16	29	10	43	1.82
604824--604866	20	2.2	20	83	8	52	20	11	9	58	1.61
604783--605436	181	3.6	181	92	0	1029	27	16	13	42	1.86
605178--605236	20	3.0	19	78	9	64	20	16	10	52	1.72
609172--609215	22	2.0	23	95	4	81	22	29	2	45	1.65
610180--610318	64	2.2	64	80	13	153	33	23	15	28	1.95
611603--611666	24	2.8	24	73	21	66	31	18	28	21	1.97
620933--621142	103	2.0	103	94	0	366	43	12	11	32	1.78
621830--621854	13	1.9	13	100	0	50	44	8	8	40	1.63
623294--623518	64	3.5	64	82	6	226	32	20	20	27	1.97
623814--623863	12	4.2	12	82	7	66	32	6	24	38	1.79
624008--624054	15	3.1	15	100	0	94	14	19	31	34	1.92
630255--630476	64	3.5	64	81	6	211	31	19	20	27	1.97
630775--630824	12	4.2	12	82	7	66	32	6	24	38	1.79
630969--631000	15	2.1	15	100	0	64	15	18	31	34	1.93
633411--633456	24	2.0	24	86	4	67	26	8	6	58	1.52
636679--636761	23	3.8	21	80	10	78	24	30	24	21	1.99
636680--636745	23	2.9	22	86	6	87	22	30	24	22	1.99
643713--643765	28	1.9	27	84	3	70	41	1	3	52	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643788--643834	11	4.2	11	78	13	51	38	2	2	57	1.23
644171--644198	2	14.0	2	100	0	56	50	0	0	50	1.00
663440--663487	10	4.5	11	82	7	55	2	6	8	83	0.88
665399--665443	2	22.5	2	100	0	90	48	0	0	51	1.00
669823--669959	60	2.3	60	80	7	145	37	4	25	32	1.76
669821--670008	60	3.1	58	72	12	139	38	6	23	31	1.80
670033--670092	31	1.9	32	86	3	86	43	3	1	51	1.28
670079--670138	13	4.6	13	95	0	102	43	0	0	56	0.99
676581--676666	33	2.6	33	96	0	154	38	20	25	15	1.92
678434--678458	2	12.5	2	100	0	50	52	0	0	48	1.00
678481--678510	14	2.1	14	93	0	51	36	10	10	43	1.72
678695--678756	2	31.0	2	100	0	124	50	0	0	50	1.00
678756--678785	2	15.0	2	100	0	60	50	0	50	0	1.00
681704--681771	27	2.6	27	90	2	93	16	38	0	45	1.47
681712--681771	27	2.3	27	94	2	104	18	38	0	43	1.50
681986--682037	25	2.0	25	88	3	77	44	1	0	53	1.11
684202--684320	21	5.8	20	76	3	103	18	17	27	36	1.94
684198--684275	41	1.9	41	94	0	138	19	17	26	35	1.94
684392--684423	6	5.3	6	96	0	55	34	43	21	0	1.53
684414--684446	5	6.6	5	93	6	50	36	24	39	0	1.56
684930--685004	6	12.5	6	100	0	150	0	16	50	33	1.45
685082--685174	41	2.3	40	88	1	132	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685085--685174	19	4.5	19	78	10	90	41	20	18	20	1.91
685098--685279	41	4.4	41	84	5	185	40	21	19	18	1.91
685162--685283	20	6.0	20	73	3	109	40	21	20	17	1.91
685189--685259	21	3.4	21	72	3	81	33	25	19	21	1.97
687571--689563	182	10.9	182	86	3	2695	27	15	13	43	1.84
687572--689563	363	5.5	364	91	1	3183	27	15	13	43	1.84
692401--692513	60	1.9	59	85	5	156	43	2	23	30	1.67
693214--693252	21	1.9	20	89	5	60	41	0	17	41	1.50
696965--697004	17	2.4	17	91	8	64	45	5	12	37	1.64
696965--697012	17	2.9	16	87	6	51	41	6	10	41	1.64

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21