genome.fa.s9617.2.7.7.80.10.50.1000.3.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1887 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)
498867--498915	22	2.2	22	82	7	64	32	30	28	8	1.86
499826--499936	31	3.6	31	88	2	143	20	18	19	41	1.91
499825--499949	62	2.0	62	84	6	164	21	17	20	40	1.92
499827--499949	31	4.0	31	86	4	135	21	17	20	39	1.92
503169--503217	23	2.2	22	82	7	64	32	28	28	10	1.90
504117--504301	31	6.0	31	89	3	277	21	17	22	38	1.93
508918--509025	37	2.9	37	87	0	144	40	13	13	31	1.84
509638--509814	4	42.5	4	69	20	73	22	5	1	70	1.15
509570--509731	37	4.4	36	73	17	102	24	2	3	69	1.15
509567--509713	41	3.6	38	79	13	109	25	2	3	68	1.19
509638--509814	13	13.8	13	70	18	88	22	5	1	70	1.15
509687--509730	22	2.0	23	95	4	81	20	2	0	77	0.88
509567--509735	42	4.0	43	75	13	122	25	2	2	69	1.15
509637--509811	9	19.3	9	65	19	55	22	5	1	70	1.14
509772--509825	28	1.9	29	88	7	85	24	7	0	68	1.15
515583--515640	28	2.1	28	100	0	116	48	13	13	24	1.79
520257--520315	29	2.0	29	100	0	118	49	13	13	23	1.78
529772--530195	21	21.1	21	74	8	265	22	18	23	35	1.96
529847--529956	40	2.8	40	84	0	148	24	16	24	34	1.95
529772--530375	61	10.1	61	76	9	383	22	19	23	35	1.96
529949--530423	40	11.9	40	79	7	412	21	19	23	35	1.96
530142--530248	53	2.0	53	94	0	187	22	20	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530224--530415	21	9.4	20	75	8	158	21	19	23	34	1.96
530002--530354	196	1.8	194	89	2	555	21	20	23	34	1.96
530121--530349	74	3.0	73	72	12	208	21	20	23	34	1.97
529988--530415	61	7.1	61	79	7	394	21	19	23	35	1.96
529818--530423	101	6.1	99	82	5	587	22	19	23	35	1.96
530822--530910	19	4.4	19	68	19	63	31	26	4	37	1.77
530832--530912	41	1.9	43	85	9	114	34	27	4	33	1.78
532949--533010	20	3.1	19	77	9	61	9	16	24	50	1.75
532959--533016	20	2.9	20	84	0	71	12	15	20	51	1.75
534522--534704	42	4.4	42	89	1	242	31	32	18	18	1.95
534884--534937	21	2.6	21	82	11	67	24	11	31	33	1.90
535060--535105	4	11.5	4	80	0	56	26	2	4	67	1.21
535238--535391	21	7.3	21	76	5	71	20	35	16	26	1.94
536980--537043	20	3.2	20	79	0	83	20	20	18	40	1.91
539195--539269	34	2.2	34	97	0	141	29	25	8	37	1.84
540328--540365	16	2.5	15	84	12	51	65	0	5	28	1.14
540503--540590	20	4.5	19	74	14	72	36	11	23	28	1.90
540523--540611	40	2.2	41	85	2	117	34	12	23	29	1.91
540587--540632	21	2.2	21	96	0	83	32	15	26	26	1.95
540657--540698	20	2.1	20	90	0	66	30	9	30	28	1.89
542972--543032	20	3.0	20	80	0	59	59	18	11	11	1.61
545818--545877	26	2.3	26	83	11	70	46	3	5	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545843--546084	33	7.4	33	77	13	259	43	5	7	42	1.56
545844--546084	58	3.8	60	81	14	234	43	5	7	42	1.56
545907--546085	69	2.6	71	85	6	219	43	5	8	43	1.56
546140--546192	20	2.7	20	85	5	63	45	3	7	43	1.50
546161--546280	50	2.4	51	90	1	188	45	5	8	40	1.58
546252--546368	18	6.2	19	71	16	84	41	5	9	43	1.61
546298--546368	18	3.8	18	80	14	90	40	7	9	42	1.65
546347--546436	22	3.7	23	78	20	85	50	3	6	40	1.45
546352--546410	28	2.1	29	90	3	93	50	5	5	38	1.46
546479--546542	22	2.8	22	85	4	83	50	6	1	42	1.37
546712--546763	2	25.5	2	81	11	61	48	1	1	48	1.24
546788--547590	202	3.8	201	87	5	887	29	10	8	51	1.66
550336--550369	16	2.1	16	94	0	59	44	17	17	20	1.87
551963--552007	23	1.9	24	86	4	65	48	2	6	42	1.41
555568--555623	19	2.9	20	76	7	62	32	3	0	64	1.11
555619--555671	26	2.1	25	82	3	61	47	3	3	45	1.39
556885--556919	16	2.2	16	94	0	61	37	0	20	42	1.52
558499--558530	12	2.6	12	95	5	55	18	12	34	34	1.89
559132--559174	18	2.4	18	80	7	52	39	0	0	60	0.97
561487--561536	24	2.0	25	85	11	68	46	8	8	38	1.63
562283--562401	33	3.5	33	86	9	168	10	10	39	38	1.76
562491--562549	2	32.0	2	78	21	67	45	1	0	52	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562493--562549	17	3.5	17	81	15	75	45	1	0	52	1.11
562961--563000	17	2.4	17	87	4	55	30	30	10	30	1.90
563654--563686	7	4.7	7	96	0	57	27	54	15	3	1.55
565437--565484	23	2.1	23	88	0	69	31	22	22	22	1.99
566730--566917	94	2.0	93	98	1	367	22	17	27	32	1.96
569022--569083	25	2.7	23	85	7	81	3	20	16	59	1.50
575322--575392	35	2.0	35	89	10	110	46	15	5	32	1.69
591904--591950	3	15.7	3	100	0	94	31	0	0	68	0.90
594766--594855	40	2.2	40	88	0	135	34	17	18	28	1.94
594786--594855	20	3.5	20	69	7	61	35	18	15	30	1.92
608447--608496	21	2.2	25	86	13	72	38	2	12	48	1.52
608462--608525	8	8.1	8	70	16	53	37	1	10	50	1.47
608489--608830	22	15.3	23	66	22	83	40	1	10	47	1.46
608431--609059	14	46.4	14	67	14	234	41	2	10	46	1.49
608569--608655	8	11.4	8	66	22	53	40	1	10	48	1.45
608586--608698	41	2.8	40	92	4	183	38	2	12	46	1.56
608694--609057	25	14.2	25	67	20	121	41	2	9	46	1.49
608746--609013	8	34.1	8	63	22	54	41	1	9	47	1.45
608625--608831	67	3.0	67	77	15	217	40	1	10	47	1.47
608763--608874	41	2.8	39	88	5	154	41	1	8	47	1.45
608451--609007	176	3.2	177	95	1	998	41	1	10	46	1.48
608935--608984	21	2.2	25	86	13	72	38	2	12	48	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608958--608998	17	2.7	14	82	17	55	39	2	9	48	1.49
608801--609047	135	1.8	138	91	2	419	41	2	9	45	1.51
609046--609101	27	2.1	27	96	0	103	41	1	10	46	1.49
609399--609441	11	3.9	11	79	11	52	44	0	2	53	1.13
609390--609440	18	2.8	18	81	0	57	43	0	3	52	1.19
625217--625245	4	7.2	4	100	0	58	24	0	75	0	0.80
626179--626206	6	4.7	6	100	0	56	71	0	0	28	0.86
626501--626611	33	3.3	32	88	3	150	28	11	20	38	1.88
626517--626611	33	2.9	33	93	0	163	28	9	21	41	1.84
626670--626728	3	19.7	3	83	16	70	69	0	0	30	0.89
626670--626728	29	2.1	28	84	15	77	69	0	0	30	0.89
627078--627338	84	3.2	80	83	6	319	23	19	25	31	1.98
627335--627457	34	3.6	34	92	4	194	27	8	20	43	1.81
627510--628417	36	25.1	36	74	16	651	41	13	18	26	1.87
627683--627874	42	4.9	41	82	11	206	43	14	18	22	1.87
627510--628011	222	2.3	217	89	6	786	42	13	18	25	1.87
627719--628192	175	2.6	174	83	8	540	41	13	18	25	1.88
627452--628455	397	2.5	397	92	2	1615	40	14	18	26	1.88
628080--628271	42	4.8	42	82	6	199	43	13	19	23	1.87
627969--628372	222	1.8	223	86	3	591	41	13	18	26	1.87
628323--628387	21	3.4	21	64	24	61	44	12	18	24	1.84
628321--628442	36	3.4	34	88	5	127	40	13	18	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628597--628723	42	3.0	43	80	6	150	22	16	28	32	1.96
631714--631784	36	2.0	36	91	0	115	26	12	15	45	1.82
633562--633670	33	3.3	33	78	7	114	28	11	21	38	1.89
633581--633672	33	2.8	33	84	0	121	29	9	19	41	1.83
633731--633780	22	2.2	21	82	13	55	72	0	2	26	0.96
635894--635980	33	2.8	31	86	6	115	22	11	26	39	1.88
635894--635964	33	2.2	32	92	5	117	25	12	23	38	1.90
640584--640674	33	2.9	32	88	6	125	23	15	26	35	1.94
648565--648732	25	6.9	22	68	21	63	69	1	4	24	1.18
648651--648777	63	2.0	60	85	7	164	69	1	0	28	1.03

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16