genome.fa.s9238.2.7.7.80.10.50.1000.3.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: VEPZ01009238.1 Hibiscus syriacus cultivar Beakdansim tig00112864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1094141

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 547 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)
549170--549214	22	2.0	22	86	4	63	31	33	26	8	1.87
549901--550024	31	4.0	31	77	11	119	30	18	20	30	1.96
550012--550083	30	2.4	30	92	0	117	23	20	25	30	1.99
556686--556775	27	3.4	26	80	4	92	38	3	1	56	1.23
557333--557393	24	2.4	25	81	8	70	47	0	3	49	1.18
560264--560324	31	2.0	31	90	6	97	27	3	8	60	1.41
560566--560982	208	2.0	209	99	0	827	30	23	15	30	1.95
560965--561069	20	5.2	20	90	3	167	36	20	20	22	1.95
560965--561069	41	2.6	40	88	4	158	36	20	20	22	1.95
560965--561077	61	1.9	59	92	3	190	35	19	20	24	1.96
561626--561718	20	4.6	21	81	10	106	50	18	18	12	1.78
561641--561717	19	3.9	19	80	8	91	49	19	19	11	1.78
561641--561718	41	1.9	41	89	2	122	50	19	19	11	1.77
561785--561855	20	3.6	19	80	10	74	14	22	16	46	1.83
563323--563690	94	4.1	93	89	6	535	21	12	19	46	1.82
563781--563817	19	1.9	19	94	0	65	48	21	21	8	1.76
563866--563959	33	2.9	33	88	1	145	9	23	22	44	1.82
563885--563941	14	3.7	14	70	20	51	10	22	21	45	1.82
564456--564522	21	3.2	21	66	6	55	23	35	20	19	1.95
565873--565908	14	2.6	14	95	0	63	33	0	22	44	1.53
566015--566098	14	5.1	17	70	24	72	45	17	23	13	1.84
566015--566141	33	3.8	33	92	2	202	46	21	20	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566111--566156	19	2.4	19	96	0	83	45	26	15	13	1.82
566152--566236	19	4.7	19	74	15	72	12	23	20	43	1.86
566189--566243	20	2.8	19	86	2	65	20	21	20	38	1.94
569663--569715	20	2.7	20	93	0	88	24	20	18	35	1.95
569712--569757	21	2.2	21	88	0	65	36	17	28	17	1.92
571388--571679	156	1.9	156	97	0	557	38	17	18	25	1.92
572407--572451	22	2.0	22	82	0	54	55	4	0	40	1.20
577381--577430	14	3.2	16	72	21	52	40	2	0	58	1.10
577642--577687	21	2.1	22	88	4	67	28	17	4	50	1.65
578327--578374	21	2.3	21	78	7	53	45	0	4	50	1.21
578643--578681	18	2.2	18	86	13	55	51	0	2	46	1.14
579007--579051	13	3.5	13	84	3	56	26	13	15	44	1.83
583359--583399	3	13.7	3	100	0	82	34	0	0	65	0.93
587742--587768	14	1.9	14	100	0	54	25	0	22	51	1.48
590269--590310	21	2.0	21	100	0	84	42	14	9	33	1.78
590406--590474	29	2.2	32	82	12	83	39	14	2	43	1.60
597902--597934	3	11.0	3	100	0	66	33	0	0	66	0.92
601022--601046	13	1.9	13	100	0	50	24	0	0	76	0.80
601690--601719	2	15.0	2	100	0	60	50	0	0	50	1.00
602476--602567	46	2.0	46	89	0	139	40	13	14	32	1.84
611208--611256	19	2.5	20	77	6	57	55	0	0	44	0.99
611217--611261	23	2.0	23	82	8	56	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612520--612550	15	2.1	15	100	0	62	41	12	6	38	1.69
613565--613612	15	3.2	15	78	18	55	39	0	0	60	0.97
614118--614147	3	10.0	3	100	0	60	66	0	0	33	0.92
616723--616758	3	12.0	3	100	0	72	0	33	0	66	0.92
618206--618288	29	2.8	29	92	1	139	43	9	14	32	1.78
620515--620544	15	2.0	15	93	0	51	20	0	23	56	1.42
621834--621916	29	2.8	29	92	1	139	43	9	14	32	1.78
623346--623383	19	2.0	19	85	10	51	28	0	0	71	0.87
625664--625731	35	1.9	35	87	0	100	42	5	2	48	1.42
626409--626459	27	2.0	25	88	7	75	50	3	1	43	1.31
626671--626703	10	3.3	10	84	16	50	81	6	3	9	0.95
635946--636018	36	2.0	36	97	0	137	35	10	6	46	1.66
641115--641157	16	2.7	15	85	7	59	67	2	0	30	1.03
641157--641190	17	1.9	18	94	5	61	64	8	0	26	1.22
642369--642406	16	2.4	16	86	4	51	34	15	7	42	1.76
643198--643222	13	1.9	13	100	0	50	24	16	4	56	1.57
644673--644721	24	2.1	23	81	11	55	51	0	2	46	1.12
648764--648805	17	2.5	17	100	0	84	38	7	9	45	1.64
651270--651326	10	5.9	10	81	8	64	73	0	3	22	0.98
651295--651326	5	6.4	5	100	0	64	81	0	0	18	0.70
651322--651348	14	1.9	14	100	0	54	66	3	0	29	1.09
651318--651363	22	2.2	22	84	7	60	67	2	0	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651403--651438	13	2.8	13	91	4	56	44	5	11	38	1.63
651392--651438	13	3.8	12	83	10	51	46	4	8	40	1.54
651416--651482	35	1.9	34	82	8	82	40	5	10	43	1.63
651416--651685	40	7.3	39	77	15	218	43	5	6	44	1.52
651515--651772	36	7.2	35	76	17	194	44	6	3	45	1.47
651647--651710	25	2.6	25	87	0	92	50	6	3	40	1.43
651610--651746	61	2.2	61	85	6	179	48	5	2	43	1.42
651788--651825	2	20.0	2	84	10	53	50	0	0	50	1.00
652404--653488	165	6.6	165	82	4	1085	25	19	24	30	1.98
652415--653483	330	3.2	329	82	3	1205	25	19	24	30	1.98
652405--653488	249	4.4	248	81	4	1118	25	19	24	30	1.98
652573--653332	414	1.8	411	88	2	1157	25	20	24	30	1.98
654719--654842	54	2.3	54	95	0	221	27	29	18	24	1.98
654719--654859	54	2.6	53	87	4	201	26	29	18	24	1.98
655290--655378	23	3.8	24	80	18	107	19	25	25	29	1.98
668838--668907	10	6.7	10	72	18	54	74	0	8	17	1.06
668872--668916	15	3.1	15	78	18	51	77	0	6	15	0.96
668870--668908	18	2.1	19	85	4	53	76	0	5	17	0.96
668878--668916	13	2.8	13	88	11	60	76	0	7	15	0.99
669992--670079	36	2.5	37	87	7	121	47	6	2	43	1.42
670068--670168	39	2.6	38	87	9	134	38	5	5	49	1.52
670097--670297	76	2.7	76	72	16	172	42	8	5	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670134--670266	38	3.6	38	76	10	123	42	8	6	42	1.61
671751--671852	53	1.9	53	91	0	168	29	13	19	37	1.90
672759--672931	4	44.0	4	68	9	70	26	2	5	64	1.30
672763--672960	19	9.4	19	69	20	99	27	3	6	63	1.32
672759--672942	23	8.2	23	74	11	150	27	3	5	64	1.31
672819--672950	69	1.9	69	89	3	203	25	1	7	65	1.28
673948--674017	34	2.1	32	86	5	95	22	28	17	31	1.96
674412--674471	29	2.0	29	87	6	84	40	16	8	35	1.79
675673--675720	19	2.5	20	82	3	62	29	12	6	52	1.63
676573--676641	34	2.1	32	89	7	104	20	31	15	31	1.94
676925--676966	21	2.0	21	95	0	75	26	28	21	23	1.99
677071--677137	19	3.5	19	87	0	80	34	13	11	40	1.81
677202--677291	30	3.0	30	90	3	137	40	15	7	36	1.76
678057--678089	15	2.2	15	89	10	50	24	45	18	12	1.83
678845--679199	178	2.0	178	100	0	710	29	21	14	33	1.94
681266--681329	31	2.1	31	90	0	101	28	9	12	50	1.71
685290--685340	21	2.4	21	76	0	57	39	11	17	31	1.86
685332--685392	21	2.9	21	69	9	61	24	18	18	39	1.92
685770--685855	19	4.2	19	76	16	73	30	26	5	37	1.80
685860--685935	20	3.8	20	89	1	98	25	22	21	31	1.98
687718--687780	17	3.7	18	70	8	51	17	17	9	55	1.67
687742--687825	17	4.9	17	71	5	62	20	13	9	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688150--688221	31	2.3	31	87	0	99	31	11	5	51	1.60
689869--689906	2	19.0	2	100	0	76	50	0	0	50	1.00
692259--692297	2	19.5	2	100	0	78	48	0	0	51	1.00
693453--693501	3	16.3	3	95	0	89	34	0	2	63	1.06
695129--695182	18	2.9	20	76	13	62	33	3	0	62	1.12
696137--696161	5	5.0	5	100	0	50	60	0	0	40	0.97
703649--703697	25	2.0	25	84	8	64	61	2	8	28	1.36
711381--711442	31	2.0	31	100	0	124	41	6	16	35	1.74
714069--714094	3	8.7	3	100	0	52	30	0	0	69	0.89
714928--715014	38	2.3	38	91	0	138	36	21	21	19	1.95

Tables:   1   2   3   4   5