genome.fa.s7926.2.7.7.80.10.50.1000.15.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   40   41   42   

This is table  15  of  42  ( 5024 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)
3175567--3175632	33	1.9	33	85	11	89	27	7	0	65	1.20
3180137--3180179	19	2.3	19	95	0	77	25	11	4	58	1.52
3180815--3181753	84	11.3	84	78	6	853	30	24	19	25	1.98
3180815--3181770	165	5.8	165	80	4	944	30	24	19	25	1.98
3182341--3182629	36	7.6	36	78	10	283	46	2	4	47	1.35
3182464--3182489	11	2.4	11	100	0	52	42	0	7	50	1.31
3182328--3182653	117	2.8	116	83	6	369	46	2	4	46	1.39
3182586--3182669	43	1.9	43	81	11	100	47	2	5	44	1.40
3182747--3182800	21	2.6	20	82	5	63	18	1	1	77	0.95
3182746--3182799	24	2.3	23	81	9	63	18	1	1	77	0.95
3184102--3184144	22	2.0	22	100	0	86	51	13	0	34	1.42
3184104--3184152	22	2.2	22	88	3	71	55	14	0	30	1.40
3184234--3184282	22	2.2	21	79	10	53	51	14	0	34	1.43
3184253--3184788	32	19.4	32	66	27	247	52	11	0	35	1.43
3184285--3184327	22	2.0	22	95	0	77	51	11	0	37	1.39
3184185--3184355	54	3.2	54	95	2	303	51	12	0	35	1.40
3184287--3184335	22	2.2	22	85	3	62	55	12	0	32	1.37
3184413--3184466	14	3.6	14	72	18	54	57	3	1	37	1.27
3184423--3184788	54	6.8	54	80	10	376	52	11	0	35	1.43
3184457--3184505	22	2.2	22	85	3	62	55	12	0	32	1.37
3184509--3184551	22	2.0	22	95	0	77	51	11	0	37	1.39
3184535--3184586	18	3.1	18	68	21	58	55	11	0	32	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3184511--3184559	22	2.2	22	85	3	62	55	12	0	32	1.37
3184514--3184738	80	2.8	81	96	2	418	52	13	0	33	1.40
3184092--3184788	134	5.2	134	79	13	720	52	12	0	34	1.43
3184565--3184639	22	3.2	22	75	14	69	54	16	0	29	1.42
3184674--3184719	22	2.0	22	91	4	74	54	13	0	32	1.39
3184768--3184869	15	6.5	15	78	17	109	51	1	0	46	1.12
3184688--3184856	54	3.4	47	86	9	185	50	5	1	42	1.34
3184714--3184869	69	2.3	64	84	8	188	51	4	1	42	1.30
3185449--3185489	20	2.0	21	85	4	57	17	4	0	78	0.93
3185448--3185489	11	4.0	11	75	12	52	16	4	0	78	0.91
3189474--3189514	16	2.5	17	84	7	50	63	0	2	34	1.08
3190448--3190495	23	2.1	23	84	0	60	37	6	16	39	1.74
3190928--3191383	182	2.5	182	92	1	736	27	15	12	43	1.83
3191254--3191613	111	3.2	112	91	1	587	26	15	12	45	1.82
3191521--3191699	96	1.9	96	91	2	297	26	10	10	51	1.69
3194728--3194778	18	2.8	18	75	16	52	35	1	0	62	1.06
3195629--3195664	2	18.0	2	94	0	63	47	0	2	50	1.15
3195421--3195753	169	2.0	163	94	4	578	40	6	12	40	1.68
3196089--3196130	20	2.1	20	100	0	84	26	28	19	26	1.98
3196303--3196366	22	3.0	22	79	18	73	21	39	14	25	1.91
3196759--3196888	19	6.7	19	91	2	163	13	18	24	43	1.87
3198091--3198168	20	3.9	20	83	6	95	43	25	17	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198091--3198168	40	2.0	40	87	5	113	43	25	17	12	1.85
3198220--3198297	20	3.9	20	93	0	120	24	20	21	33	1.97
3198268--3198550	140	2.0	140	98	1	550	43	14	13	29	1.83
3200890--3200943	24	2.2	24	96	0	99	42	20	16	20	1.89
3200890--3200957	24	2.8	24	88	0	73	39	20	16	23	1.91
3201765--3201803	20	2.0	20	94	0	69	25	23	25	25	2.00
3201772--3201811	20	2.0	20	90	0	62	27	20	25	27	1.99
3201827--3201867	21	2.0	21	85	0	55	36	17	21	24	1.94
3203852--3203891	17	2.4	17	82	0	53	50	2	7	40	1.44
3204282--3204319	2	19.0	2	100	0	76	50	0	0	50	1.00
3204544--3204597	2	27.0	2	100	0	108	50	0	0	50	1.00
3207910--3207978	23	3.0	23	85	6	86	27	23	27	21	1.99
3208569--3208606	20	1.9	20	88	0	58	10	31	34	23	1.89
3209123--3209162	20	2.0	20	95	0	71	45	15	22	17	1.85
3216855--3216915	23	2.7	23	92	0	95	18	22	27	31	1.97
3223057--3223196	64	2.2	64	82	7	160	37	20	16	25	1.93
3223767--3223849	23	3.6	23	93	0	139	18	27	27	26	1.98
3227415--3227464	24	2.1	24	96	0	91	30	0	24	46	1.53
3229572--3229616	20	2.2	20	80	0	54	53	2	4	40	1.33
3229559--3229635	31	2.6	30	85	8	104	49	6	2	41	1.42
3239377--3239459	18	4.7	18	72	19	84	66	3	0	30	1.09
3239378--3239467	8	11.4	8	74	23	59	65	4	0	30	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239378--3239470	26	3.5	26	83	2	132	65	4	0	30	1.12
3239378--3239477	53	1.9	52	97	2	191	67	4	0	29	1.09
3240687--3240760	30	2.5	30	77	16	73	33	5	22	37	1.77
3252107--3252298	38	5.1	38	83	3	244	24	15	23	36	1.94
3252110--3252298	76	2.5	76	87	5	274	24	15	22	36	1.94
3256552--3257065	257	2.0	258	98	0	994	42	10	10	36	1.75
3266227--3266390	60	2.8	57	80	4	166	42	6	21	29	1.77
3273747--3273797	22	2.3	23	79	3	59	50	5	5	37	1.51
3274745--3274832	44	2.0	44	91	4	142	42	27	6	23	1.79
3277659--3277750	46	2.0	46	91	0	148	44	7	21	26	1.79
3278865--3278900	17	2.1	17	89	0	54	25	0	11	63	1.27
3281215--3281293	28	2.8	28	96	0	149	32	30	11	25	1.91
3304595--3304644	7	6.1	8	76	19	50	38	0	2	60	1.09
3304592--3304643	15	3.3	15	75	17	52	36	0	1	61	1.07
3304835--3304887	17	3.1	17	81	13	56	30	0	3	66	1.10
3305337--3305396	29	2.1	29	83	0	75	36	8	13	41	1.74
3305478--3305537	29	2.1	29	93	0	102	46	6	6	40	1.56
3305730--3305827	20	4.8	20	77	3	88	36	23	18	21	1.95
3305671--3305827	41	3.9	41	70	11	126	38	25	17	18	1.93
3305814--3305984	20	8.6	20	84	5	107	35	26	18	20	1.95
3305794--3306003	60	3.5	58	80	7	208	37	25	17	20	1.94
3305848--3306003	20	7.8	20	87	4	174	35	25	17	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305814--3306003	40	4.8	40	86	5	208	36	25	17	20	1.94
3306686--3306732	24	2.0	24	87	8	69	25	14	21	38	1.92
3306906--3306930	12	2.1	12	100	0	50	72	0	28	0	0.86
3309214--3309487	19	15.4	19	82	15	363	47	17	21	13	1.83
3309214--3309509	33	8.5	34	87	10	315	46	17	21	13	1.83
3309447--3309501	14	3.6	14	76	21	56	47	20	21	10	1.80
3309242--3309509	52	5.0	52	90	8	384	46	16	22	14	1.83
3309516--3309617	19	5.6	19	85	12	151	14	23	17	44	1.86
3309724--3309760	14	2.6	14	91	0	65	45	21	0	32	1.52
3310857--3310946	14	5.7	14	72	23	72	43	23	24	8	1.82
3310849--3310963	33	3.5	33	96	0	212	46	20	22	9	1.79
3310871--3310968	19	5.7	19	70	22	81	44	22	22	10	1.82
3310980--3311036	14	3.7	14	75	20	60	8	24	22	43	1.81
3310994--3311082	19	4.9	19	72	15	80	11	23	21	43	1.84
3310964--3311082	33	3.4	33	88	6	157	10	22	22	44	1.82
3311174--3311244	33	2.2	33	94	0	124	47	16	23	11	1.79
3311426--3311480	22	2.5	22	81	0	74	20	16	40	23	1.91
3311627--3311820	20	9.6	20	78	5	194	20	20	24	35	1.96
3311627--3311820	60	3.2	60	82	0	235	20	20	24	35	1.96
3311807--3311888	21	4.0	21	73	9	78	28	17	21	32	1.96
3311807--3311884	41	1.9	41	84	5	104	25	17	21	34	1.96
3325525--3325557	16	2.1	16	100	0	66	33	18	12	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333106--3333137	16	1.9	17	93	6	57	59	15	12	12	1.61
3343728--3343883	82	1.9	84	90	4	253	35	14	14	35	1.87
3345251--3345291	16	2.4	18	84	8	50	7	26	0	65	1.18
3345666--3346013	189	1.8	189	93	1	608	33	11	16	38	1.85
3350013--3350046	17	1.9	18	88	5	52	29	23	2	44	1.68
3350800--3350914	51	2.3	51	87	0	158	50	8	3	37	1.50
3356455--3356536	36	2.4	31	73	24	76	46	1	3	48	1.27
3356451--3356536	37	2.3	38	77	18	99	44	1	3	51	1.26
3357534--3357559	5	5.2	5	100	0	52	57	0	0	42	0.98
3370395--3370455	21	3.0	21	95	2	106	34	11	13	40	1.80

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   40   41   42