genome.fa.s8716.2.7.7.80.10.50.1000.12.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  12  of  24  ( 2813 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)
3048267--3048353	20	4.3	20	91	2	122	22	18	21	36	1.95
3048833--3048940	21	5.2	20	68	16	58	21	36	18	24	1.95
3048864--3048944	42	1.9	42	82	5	101	22	37	18	22	1.95
3050529--3050595	20	3.7	19	75	20	72	11	19	19	49	1.79
3050533--3050628	33	2.9	34	87	3	140	13	21	19	44	1.85
3050600--3050673	20	3.7	20	82	10	98	18	21	24	35	1.96
3053556--3053642	23	3.7	23	76	14	88	26	26	26	20	1.99
3065025--3065060	16	2.2	16	90	0	54	61	8	11	19	1.54
3068261--3068310	24	2.1	24	85	10	68	78	8	4	10	1.09
3068261--3068310	23	2.1	23	85	10	66	78	8	4	10	1.09
3068790--3068827	2	19.0	2	88	0	58	44	0	55	0	0.99
3073083--3073124	15	2.9	15	78	3	50	30	0	2	66	1.04
3074130--3074473	75	4.6	75	77	12	296	43	11	11	33	1.77
3074131--3074487	144	2.4	144	82	8	396	42	11	11	33	1.77
3074469--3074520	23	2.3	23	83	6	61	46	11	5	36	1.64
3078616--3078651	2	18.0	2	100	0	72	50	0	0	50	1.00
3087368--3087449	29	2.8	29	83	0	92	39	15	19	25	1.91
3087397--3087453	29	2.0	29	92	0	96	38	15	19	26	1.92
3088018--3088059	21	2.0	20	86	4	57	45	21	11	21	1.84
3093806--3093855	23	2.2	24	85	10	77	42	8	14	36	1.74
3093877--3093901	12	2.1	12	100	0	50	36	8	16	40	1.77
3094332--3094734	178	2.3	178	92	1	650	29	15	12	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3094615--3094890	111	2.5	110	92	1	455	25	16	14	43	1.85
3094789--3094973	90	2.0	91	91	3	302	24	14	12	47	1.80
3094880--3095160	108	2.6	111	90	5	464	24	13	14	47	1.80
3100808--3100836	3	9.7	3	100	0	58	0	31	0	68	0.89
3101324--3101420	44	2.2	44	84	1	131	45	1	12	41	1.49
3101324--3101396	20	3.2	25	72	20	77	46	0	12	41	1.41
3101337--3101415	20	3.8	20	73	18	70	49	0	11	39	1.39
3102828--3102953	60	2.1	58	78	10	130	37	14	14	34	1.86
3104909--3104956	21	2.3	20	79	10	60	22	27	16	33	1.96
3104938--3104984	20	2.3	21	81	7	60	31	23	19	25	1.98
3105837--3105890	24	2.2	24	90	0	81	20	16	20	42	1.89
3108402--3108510	33	3.3	33	85	2	155	44	20	22	11	1.84
3108424--3108514	14	5.3	19	71	25	85	47	19	21	10	1.80
3108520--3108599	33	2.4	33	91	0	124	13	18	18	48	1.80
3108541--3108599	19	3.4	19	73	22	74	15	18	16	49	1.80
3108549--3108599	14	3.1	17	69	25	54	15	19	15	49	1.80
3108706--3108742	14	2.6	14	91	0	65	45	21	0	32	1.52
3110541--3110773	93	2.5	95	93	2	407	45	18	13	21	1.84
3112292--3112359	24	2.6	27	73	17	72	58	16	7	17	1.59
3112425--3112480	20	2.8	20	81	10	78	39	19	25	16	1.91
3112416--3112506	33	2.5	35	75	15	96	42	18	24	14	1.87
3112536--3112600	19	3.4	19	89	6	96	15	15	24	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113132--3113325	20	9.6	20	79	7	194	19	18	24	38	1.93
3113132--3113325	41	4.8	40	83	8	205	19	18	24	38	1.93
3113129--3113348	41	5.4	39	78	10	194	20	18	24	37	1.94
3113334--3113386	20	2.7	20	80	13	65	13	18	22	45	1.84
3114743--3114822	22	3.6	23	85	12	89	30	25	23	21	1.99
3114743--3114821	23	3.6	22	85	11	83	30	24	24	21	1.99
3115794--3115827	2	17.0	2	100	0	68	50	0	0	50	1.00
3119718--3119776	22	2.7	22	82	10	84	27	28	28	15	1.96
3127586--3127629	20	2.1	21	91	4	72	34	27	22	15	1.95
3128214--3128257	22	2.0	22	86	4	63	45	0	22	31	1.53
3128996--3129291	146	2.0	144	96	2	540	27	17	20	34	1.95
3134537--3134577	18	2.4	17	88	11	66	51	0	2	46	1.14
3136700--3136762	30	2.1	29	85	2	81	36	17	11	34	1.85
3138707--3138752	20	2.3	19	89	10	74	54	10	17	17	1.70
3138871--3138917	20	2.4	19	89	10	76	55	10	17	17	1.69
3138875--3138922	20	2.6	18	84	15	62	56	10	14	18	1.66
3141074--3141138	21	3.1	21	80	6	69	40	15	27	16	1.89
3141172--3141236	33	2.0	33	90	3	105	29	0	47	23	1.52
3142419--3142447	4	7.2	4	100	0	58	24	0	27	48	1.51
3143019--3143067	19	2.6	19	93	0	80	30	2	10	57	1.43
3143186--3144351	197	5.9	199	96	1	2150	36	15	16	30	1.90
3145811--3145872	18	3.4	18	79	0	79	37	9	35	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3145811--3145902	6	15.3	6	79	0	67	36	7	34	20	1.81
3145826--3145906	3	27.0	3	75	0	72	35	6	34	23	1.80
3145814--3145890	36	2.1	36	90	0	118	35	9	35	20	1.85
3145814--3145902	12	7.4	12	84	0	88	35	7	34	21	1.82
3145811--3145902	18	5.1	18	77	0	76	36	7	34	20	1.81
3147364--3147887	183	2.9	183	94	0	917	35	14	16	33	1.89
3150746--3150808	23	2.8	23	85	2	83	34	6	20	38	1.78
3150746--3150817	23	3.2	23	80	9	76	33	5	20	40	1.76
3151174--3151237	23	2.8	23	87	0	92	35	6	20	37	1.78
3151174--3151246	23	3.2	23	82	7	85	34	5	20	39	1.76
3150544--3151475	429	2.2	425	97	1	1744	40	7	12	39	1.72
3151510--3151560	25	2.0	25	92	0	84	33	7	19	39	1.81
3151948--3151984	18	2.1	18	89	0	56	32	5	10	51	1.60
3151940--3151986	24	2.0	24	86	0	67	34	4	14	46	1.64
3152242--3152328	39	2.2	39	95	0	156	48	20	13	17	1.81
3152727--3152799	23	3.2	23	88	0	101	34	4	21	39	1.73
3159005--3159037	2	16.5	2	100	0	66	48	0	0	51	1.00
3159862--3159911	23	2.1	24	81	3	57	22	10	6	62	1.48
3164275--3164375	46	2.2	45	82	7	114	49	14	12	22	1.78
3169633--3169667	18	1.9	18	88	0	52	28	17	0	54	1.43
3170819--3170901	19	4.6	19	82	14	113	18	34	28	18	1.94
3170843--3170909	14	4.4	14	77	17	71	19	35	28	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3170825--3170909	33	2.6	33	92	0	143	20	35	28	16	1.94
3174641--3174675	18	1.9	18	88	0	52	28	17	0	54	1.43
3175828--3175910	19	4.6	19	82	14	113	18	34	28	18	1.94
3175852--3175918	14	4.4	14	77	17	71	19	35	28	16	1.93
3175834--3175918	33	2.6	33	92	0	143	20	35	28	16	1.94
3177789--3177901	60	1.9	60	83	3	147	39	12	12	35	1.81
3200362--3200408	22	2.1	23	88	4	69	44	2	0	53	1.12
3200376--3200466	27	3.4	26	71	13	78	50	1	0	48	1.08
3200374--3200584	53	4.1	50	72	16	139	50	1	0	46	1.16
3200468--3200559	26	3.4	26	70	18	71	50	1	2	46	1.20
3200455--3200590	53	2.6	54	77	12	147	52	1	2	44	1.22
3200579--3200623	23	2.0	23	86	0	63	53	2	2	42	1.25
3200571--3200645	35	2.1	34	81	13	82	49	4	1	45	1.29
3201247--3201278	7	4.4	7	92	7	55	43	0	0	56	0.99
3210034--3210071	20	1.9	20	88	0	58	65	2	5	26	1.27
3211921--3211968	20	2.4	20	92	0	78	52	18	16	12	1.75
3211986--3212216	20	11.4	20	87	2	291	36	16	24	21	1.94
3212392--3212430	6	6.5	6	100	0	78	33	51	15	0	1.44
3213116--3213180	6	11.5	6	95	4	102	0	16	49	33	1.47
3213368--3213492	63	2.0	63	96	0	232	36	14	14	34	1.87
3216634--3216671	2	19.0	2	100	0	76	50	0	0	50	1.00
3218817--3218853	18	2.1	18	89	0	56	29	0	2	67	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223066--3223146	33	2.5	33	88	8	128	41	28	9	19	1.83
3233098--3233258	63	2.5	64	81	8	186	34	21	19	25	1.96
3233971--3234065	20	4.9	20	69	20	76	22	32	28	16	1.96
3233994--3234063	37	1.9	37	88	11	110	21	31	28	18	1.97
3234504--3234573	34	2.1	32	86	5	95	31	15	28	24	1.96
3235557--3235596	19	2.0	20	85	4	55	55	5	15	25	1.60
3237056--3237136	21	3.9	21	86	3	119	19	33	29	17	1.95
3237566--3237640	34	2.2	34	95	0	132	32	14	29	24	1.95
3238653--3238692	19	2.0	20	85	4	55	55	5	15	25	1.60
3240152--3240231	21	3.9	21	85	6	110	20	32	30	17	1.95

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