genome.fa.s6691.2.7.7.80.10.50.1000.3.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: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1195339

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 578 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)
525681--525724	15	2.8	15	82	6	52	22	25	34	18	1.96
525713--525768	13	4.3	13	86	0	76	17	19	42	19	1.89
526708--526884	90	2.0	89	93	1	300	44	6	10	37	1.66
540992--541041	26	2.0	24	88	7	73	60	14	2	24	1.45
541909--541975	34	2.0	33	85	2	89	32	1	23	41	1.64
542138--542192	28	2.0	28	85	0	74	45	5	1	47	1.36
542582--542636	11	5.0	11	75	16	60	52	1	1	43	1.22
542582--542647	33	2.0	33	100	0	132	51	3	3	42	1.32
542691--542773	26	3.1	27	80	5	105	48	1	9	40	1.44
542735--542812	38	2.0	38	83	11	97	48	1	7	42	1.40
542862--542905	21	2.1	20	84	16	54	13	9	0	77	0.99
542861--542913	25	2.1	25	82	6	63	15	7	3	73	1.20
542862--542905	20	2.1	21	84	12	56	13	9	0	77	0.99
556094--556150	28	2.1	26	83	9	69	50	3	5	40	1.42
556110--556366	35	7.1	37	81	15	256	44	3	8	42	1.52
556225--556283	27	2.3	26	91	8	86	45	0	10	44	1.37
556198--556318	62	1.9	63	90	6	192	43	2	9	44	1.49
556233--556300	27	2.5	27	88	7	84	45	1	8	44	1.44
556248--556366	37	3.1	36	85	8	139	44	3	8	43	1.51
556361--556408	9	5.8	9	80	9	50	39	0	2	58	1.10
556390--556449	7	8.1	7	77	18	52	26	1	1	70	1.07
556395--556456	20	3.2	19	84	11	72	22	3	1	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556412--556456	19	2.3	20	88	11	67	20	4	0	75	0.97
557955--558009	21	2.7	20	81	10	67	21	21	20	36	1.95
557974--558234	21	12.6	21	75	12	236	20	20	24	34	1.97
557980--558173	42	4.7	42	96	1	347	21	20	23	35	1.96
557980--558234	61	4.1	60	78	11	237	20	20	24	34	1.96
558165--558248	40	2.0	42	95	4	154	20	20	25	34	1.96
558060--558248	103	1.8	105	96	2	355	20	20	24	34	1.97
559614--559733	19	5.9	19	72	14	96	35	20	21	22	1.96
559622--559693	21	3.4	21	78	14	94	37	20	20	20	1.95
559621--559752	42	3.2	42	95	2	232	36	22	19	21	1.95
559643--559758	21	5.6	21	72	11	105	35	24	20	19	1.96
564476--564525	27	1.9	27	88	8	77	38	4	4	54	1.38
564908--564970	22	2.9	21	85	7	72	17	23	34	23	1.96
564907--564970	23	2.9	21	81	11	67	17	23	35	23	1.95
571222--571248	2	13.5	2	100	0	54	48	0	0	51	1.00
573622--573655	15	2.3	15	100	0	68	55	5	0	38	1.24
576010--576098	36	2.5	36	100	0	178	24	15	16	42	1.88
583762--583816	23	2.4	23	84	0	83	29	25	10	34	1.90
588412--588476	23	2.9	23	93	2	105	30	18	13	36	1.90
590310--590355	24	1.9	24	90	0	74	17	30	23	28	1.97
590309--590361	24	2.2	24	82	0	70	16	33	22	26	1.96
595374--595414	18	2.3	18	86	0	55	51	2	17	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600363--600397	18	1.9	18	88	0	52	57	0	14	28	1.38
605253--605287	18	1.9	18	88	0	52	54	0	17	28	1.43
606796--606880	32	2.7	31	76	5	82	15	25	30	28	1.96
607950--608011	2	31.0	2	100	0	124	50	0	0	50	1.00
609827--609880	23	2.3	24	83	3	74	55	0	3	40	1.17
611452--611507	3	18.7	3	85	14	80	64	0	0	35	0.94
611712--611928	122	1.8	116	83	9	285	27	16	16	40	1.89
611888--612376	113	4.3	112	86	5	630	28	19	13	38	1.90
611888--612376	228	2.2	222	87	5	680	28	19	13	38	1.90
612313--612410	40	2.5	39	83	11	121	22	23	9	44	1.81
613175--613782	93	6.5	93	95	0	1092	35	20	14	28	1.93
613144--613782	185	3.4	186	93	1	1104	35	20	15	29	1.93
613133--613782	278	2.3	279	93	2	1121	34	20	14	30	1.93
614636--614768	71	1.9	71	98	0	257	27	27	12	33	1.92
614638--614786	71	2.1	71	91	0	235	27	25	13	33	1.93
622154--622185	15	2.1	15	94	0	55	46	9	18	25	1.79
625491--625537	18	2.5	20	76	16	55	65	2	4	27	1.22
626033--626085	23	2.3	24	83	6	74	54	0	3	41	1.18
627658--627729	3	23.7	3	81	18	87	62	0	0	37	0.95
631405--631471	34	2.0	33	91	2	107	32	0	25	41	1.56
631610--631648	2	20.0	2	85	15	55	46	2	0	51	1.14
633956--633989	17	2.0	17	88	0	50	14	14	8	61	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635185--635218	15	2.3	15	90	10	52	50	5	2	41	1.42
636262--636298	12	2.8	14	80	12	51	67	0	2	29	1.04
637110--637172	23	2.7	23	97	0	117	28	26	23	20	1.99
637724--637764	20	2.2	19	86	8	57	29	19	24	26	1.98
639720--640108	43	9.1	43	91	2	570	30	24	26	18	1.98
646869--646911	20	2.2	20	86	0	59	34	13	18	32	1.90
652673--652756	44	1.9	44	85	0	114	34	21	20	23	1.97
653928--653953	13	2.0	13	100	0	52	46	15	0	38	1.46
662542--662609	29	2.4	29	87	2	93	35	22	25	17	1.95
671999--672032	18	2.0	18	88	11	54	23	0	17	58	1.38
681221--681283	10	6.5	10	75	17	62	69	0	26	3	1.03
681223--681284	19	3.3	19	80	8	74	70	0	25	3	1.02
684638--684680	18	2.4	18	88	0	59	23	4	0	72	1.04
693234--693276	18	2.4	18	92	0	68	20	6	0	72	1.08
693329--693384	18	3.2	17	78	9	58	14	8	0	76	1.00
693319--693378	29	2.1	29	84	6	77	18	6	0	75	1.02
693323--693407	36	2.4	35	84	5	107	23	5	0	70	1.09
698901--698951	5	9.8	5	83	8	66	17	7	0	74	1.05
698896--698951	11	5.3	11	85	8	80	16	8	1	73	1.17
707635--707686	23	2.3	23	80	6	72	21	40	21	17	1.91
707667--707706	21	1.9	21	89	0	62	25	40	25	10	1.86
711130--711226	37	2.8	35	83	13	112	24	5	0	70	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711117--711200	15	5.7	15	68	16	50	19	8	0	72	1.09
711142--711224	36	2.3	37	85	6	107	24	6	0	69	1.10
711584--712098	67	7.7	67	88	1	739	29	18	14	37	1.90
711905--712019	36	3.4	36	65	18	100	30	18	13	38	1.88
712488--712853	139	2.6	138	77	6	380	30	27	15	25	1.96
713209--713288	3	26.7	3	93	0	133	31	1	2	65	1.14
723169--723216	18	2.7	18	77	9	53	43	0	2	54	1.12
723193--723274	37	2.4	31	75	21	83	48	3	0	47	1.19
727158--727210	26	2.1	26	85	3	72	49	22	7	20	1.74
731024--731080	18	3.2	18	84	0	78	21	47	15	15	1.82
734407--734439	15	2.1	16	88	5	50	0	6	18	75	1.00
741567--741616	22	2.3	22	92	0	82	20	16	16	48	1.82
748781--748919	36	3.9	36	93	0	233	43	15	14	26	1.85
754314--754417	19	5.3	19	79	6	127	20	19	18	42	1.90
754293--754417	41	3.1	40	82	6	164	20	19	19	40	1.91
754408--754433	13	2.0	13	100	0	52	30	7	23	38	1.83
754517--754550	12	3.1	11	91	8	52	29	52	17	0	1.45
755045--755116	6	12.5	6	98	1	123	0	16	52	30	1.44
755113--755143	6	5.2	6	100	0	62	32	0	32	35	1.58
755247--755695	41	11.0	41	97	0	835	36	23	20	19	1.95
755684--755761	41	1.9	41	94	0	138	35	24	19	20	1.95
764791--764841	15	3.4	15	78	10	68	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764789--764842	17	3.4	17	72	27	64	53	0	0	46	1.00
764793--764845	13	3.8	13	75	18	52	54	0	0	45	0.99
764787--764854	30	2.3	30	100	0	136	51	0	0	48	1.00
764801--764854	15	3.6	15	78	9	65	53	0	0	46	1.00
768264--768311	2	24.0	2	100	0	96	50	0	0	50	1.00
769979--770003	12	2.1	12	100	0	50	56	16	8	20	1.65
772675--772730	3	18.7	3	96	0	103	32	1	0	66	1.03
778640--778728	23	3.9	23	95	0	151	25	22	31	20	1.98
783346--783392	23	2.0	23	91	0	76	27	21	25	25	1.99
786539--786688	72	2.1	72	97	0	282	30	27	12	30	1.92

Tables:   1   2   3   4   5