genome.fa.s9592.2.7.7.80.10.50.1000.32.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  32  of  39  ( 4673 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)
6367219--6367257	19	2.1	19	95	0	69	33	2	10	53	1.48
6367383--6368735	197	6.9	198	95	2	2461	36	16	16	30	1.91
6367383--6368735	587	2.3	586	96	2	2436	36	16	16	30	1.91
6370194--6370265	3	24.0	3	78	0	63	34	6	34	23	1.82
6370179--6370265	12	7.0	12	73	7	57	35	8	34	21	1.83
6371536--6371850	162	2.0	160	98	1	603	34	14	17	33	1.91
6371934--6371975	22	1.9	22	85	9	59	30	11	11	45	1.77
6375075--6375136	20	2.8	23	85	9	85	35	4	20	38	1.74
6375514--6375562	22	2.2	22	85	7	64	36	2	20	40	1.64
6374977--6376242	419	3.0	424	94	4	2229	39	8	13	38	1.74
6375916--6375972	23	2.5	23	91	5	89	35	5	19	40	1.74
6377581--6377614	18	2.0	17	88	11	52	41	23	11	23	1.87
6378868--6378900	16	2.0	17	88	5	50	27	3	6	63	1.32
6379363--6379610	130	1.9	130	93	1	426	35	12	14	36	1.85
6380007--6380082	35	2.2	35	92	0	125	35	1	23	39	1.63
6384189--6384280	29	3.1	29	66	17	71	42	14	11	31	1.82
6384189--6384305	60	2.0	60	86	3	164	44	15	9	30	1.78
6384189--6384321	60	2.2	60	84	6	162	43	15	10	30	1.80
6384557--6384619	30	2.1	31	84	3	83	25	7	6	60	1.48
6386761--6386828	35	1.9	35	90	0	109	36	17	4	41	1.70
6387128--6387196	36	1.9	36	90	0	111	36	17	4	42	1.69
6387128--6387211	36	2.4	36	85	2	107	38	16	3	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6389004--6389028	13	1.9	13	100	0	50	8	24	0	68	1.16
6414009--6414039	14	2.2	14	94	0	53	38	9	6	45	1.63
6414696--6414811	20	5.8	20	86	4	153	42	21	18	18	1.90
6414696--6414811	60	1.9	60	87	3	171	42	21	18	18	1.90
6414657--6414809	40	3.8	40	83	4	168	39	24	16	18	1.92
6415220--6415310	19	4.6	20	84	5	105	17	17	26	38	1.92
6416959--6416983	8	3.1	8	100	0	50	40	12	24	24	1.88
6421156--6421560	199	2.0	199	84	1	526	40	12	12	34	1.81
6421452--6421708	130	2.0	128	85	5	347	44	12	10	31	1.77
6422695--6422764	20	3.3	21	70	16	63	44	1	4	50	1.30
6430953--6431005	23	2.3	23	86	0	70	16	24	24	33	1.96
6434923--6434974	19	2.7	19	100	0	104	30	17	28	23	1.97
6434961--6435016	20	2.6	20	80	11	58	32	17	23	26	1.97
6436556--6436624	23	3.0	23	83	8	86	18	21	24	34	1.96
6444701--6444813	35	3.2	34	88	5	163	42	23	0	33	1.60
6445872--6445983	35	3.2	34	88	2	152	34	1	21	41	1.64
6450377--6450408	16	2.0	16	100	0	64	25	25	25	25	2.00
6460802--6461265	232	2.0	232	98	1	905	37	11	14	35	1.83
6467573--6467633	26	2.4	25	83	8	70	27	19	4	47	1.70
6468930--6468960	13	2.5	13	94	5	55	48	16	0	35	1.46
6472511--6472560	21	2.4	21	93	0	82	26	10	26	38	1.87
6474481--6474506	11	2.4	11	100	0	52	7	7	0	84	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6476246--6476276	16	1.9	16	93	0	53	41	9	0	48	1.36
6476395--6476429	2	17.5	2	100	0	70	48	0	0	51	1.00
6476541--6476570	3	10.0	3	100	0	60	33	0	0	66	0.92
6476593--6476646	2	28.0	2	78	14	60	44	0	5	50	1.25
6489632--6489665	7	5.0	7	89	3	52	61	0	23	14	1.33
6489630--6489658	14	2.1	14	100	0	58	62	0	20	17	1.33
6496250--6496278	14	2.1	14	100	0	58	79	0	0	20	0.74
6496246--6496270	10	2.5	10	100	0	50	80	0	0	20	0.72
6500857--6500892	17	2.1	17	94	0	63	33	8	8	50	1.63
6500917--6500955	2	20.0	2	94	5	71	48	0	0	51	1.00
6500916--6500954	19	2.1	19	100	0	78	46	0	0	53	1.00
6500919--6500952	17	2.0	17	100	0	68	47	0	0	52	1.00
6501890--6501968	2	41.5	2	90	9	130	50	0	0	49	1.00
6504306--6504622	158	2.0	158	100	0	634	43	10	5	41	1.62
6506849--6506885	20	1.9	19	89	10	58	45	10	24	18	1.81
6507001--6507048	18	2.7	18	80	9	62	41	0	4	54	1.20
6511778--6512013	130	1.8	130	90	1	384	39	16	11	32	1.84
6512471--6512521	26	2.0	26	85	11	70	66	13	5	13	1.42
6514103--6514205	15	6.5	15	78	15	109	45	0	2	51	1.16
6514185--6514282	32	3.4	32	73	26	126	36	0	10	53	1.35
6514103--6514260	69	2.3	67	84	6	203	43	0	5	51	1.25
6514185--6514465	54	5.1	54	70	21	226	32	0	13	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6514234--6514505	80	3.3	80	87	8	420	31	0	14	53	1.47
6514309--6514448	32	4.7	32	77	16	174	32	1	13	52	1.49
6514342--6514384	22	2.0	22	90	0	68	32	2	13	51	1.54
6514485--6514511	14	1.9	14	100	0	54	40	0	0	59	0.98
6514907--6514932	3	8.7	3	100	0	52	69	0	0	30	0.89
6515180--6515257	41	1.9	41	81	5	95	32	21	21	24	1.98
6515848--6515957	42	2.7	41	81	2	139	29	24	21	24	1.99
6516347--6516461	42	2.8	42	80	7	112	26	22	23	26	2.00
6515781--6516729	259	3.7	254	83	5	1127	33	16	17	32	1.92
6518311--6518344	2	17.5	2	93	6	61	47	0	0	52	1.00
6518543--6518577	3	11.7	3	100	0	70	65	0	0	34	0.93
6524515--6524540	13	2.0	13	100	0	52	38	0	15	46	1.46
6525485--6525673	90	2.1	94	82	4	233	49	8	12	29	1.70
6525889--6525998	48	2.2	49	93	4	186	36	13	34	15	1.87
6526823--6526859	17	2.2	17	90	9	58	40	0	0	59	0.97
6527413--6527439	2	13.5	2	100	0	54	51	0	0	48	1.00
6527849--6527877	15	1.9	15	100	0	58	62	0	0	37	0.96
6527959--6528365	204	2.0	204	100	0	814	34	13	16	36	1.87
6531119--6531172	12	4.2	12	76	9	54	1	44	1	51	1.22
6531132--6531172	15	2.7	15	96	0	73	2	46	2	48	1.28
6531126--6531169	18	2.4	18	84	0	61	2	43	2	52	1.26
6532064--6532094	13	2.5	13	94	5	55	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6533493--6533568	30	2.5	30	95	0	134	27	15	26	30	1.96
6536867--6537246	107	3.6	106	83	4	478	39	16	17	25	1.91
6538578--6538642	33	2.0	33	90	0	103	44	6	16	32	1.73
6538920--6538973	28	1.9	28	88	0	81	44	7	0	48	1.31
6540709--6540891	64	2.9	64	85	7	264	33	10	18	37	1.85
6548790--6548817	2	14.0	2	100	0	56	50	0	0	50	1.00
6549367--6549394	2	14.0	2	100	0	56	50	0	0	50	1.00
6549273--6549476	110	1.9	108	89	4	320	29	11	12	45	1.78
6551207--6551265	28	2.1	28	90	6	93	59	8	10	22	1.56
6557150--6557215	30	2.2	29	84	7	80	39	28	6	25	1.80
6557768--6557831	29	2.2	29	91	0	101	45	9	9	35	1.69
6557773--6558001	127	1.8	122	85	4	323	43	9	10	36	1.72
6558025--6558094	29	2.4	29	82	2	95	47	12	10	30	1.75
6558274--6558321	17	2.8	17	100	0	96	45	4	6	43	1.48
6560533--6560594	29	2.1	29	88	5	90	64	1	9	24	1.33
6560827--6560984	21	7.8	20	72	7	86	38	25	17	18	1.92
6560951--6561200	20	12.5	20	87	1	268	38	24	18	18	1.93
6561876--6561922	24	2.0	24	87	8	69	25	14	21	38	1.92
6564453--6564531	19	4.4	19	80	16	105	13	22	17	45	1.84
6564590--6564738	33	4.3	33	73	18	133	44	18	23	13	1.84
6564590--6564719	19	7.3	19	79	17	163	46	17	22	13	1.83
6564590--6564738	52	2.8	52	97	1	280	44	18	23	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6564734--6565000	33	7.7	33	67	18	168	15	23	17	43	1.87
6564728--6565000	52	5.2	52	91	1	456	16	23	17	42	1.88
6564747--6565000	105	2.4	104	94	1	427	15	23	17	42	1.88
6565059--6565156	19	5.4	19	83	14	143	45	17	22	14	1.84
6565059--6565175	33	3.4	33	84	13	171	44	17	23	13	1.85
6565165--6565299	19	7.6	19	77	18	157	15	24	17	42	1.87
6565165--6565299	52	2.6	52	92	3	227	15	24	17	42	1.87
6565403--6565439	14	2.6	14	91	0	65	45	21	0	32	1.52
6566833--6566893	21	3.0	20	73	7	68	19	16	37	26	1.93
6567353--6567398	20	2.4	19	88	3	65	45	30	13	10	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39