genome.fa.s8426.2.7.7.80.10.50.1000.13.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: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  13  of  18  ( 2101 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)
2729076--2729132	29	2.0	29	82	6	71	21	15	29	33	1.94
2729038--2729168	65	2.0	65	82	8	160	20	19	25	34	1.96
2728931--2729262	173	1.9	171	86	2	468	20	19	25	34	1.96
2730284--2730509	125	1.8	125	85	3	321	25	26	15	32	1.95
2733762--2734547	393	2.0	393	99	0	1554	31	20	14	32	1.93
2736349--2736492	56	2.6	55	80	7	166	25	22	11	41	1.86
2740148--2740183	15	2.4	16	90	9	58	55	0	0	44	0.99
2741091--2741139	24	2.0	25	84	4	64	38	8	10	42	1.68
2748688--2748721	17	1.9	18	94	5	61	47	8	14	29	1.75
2749031--2749084	23	2.3	23	96	0	99	33	22	16	27	1.95
2749396--2749442	22	2.1	23	88	4	69	38	2	12	46	1.54
2749612--2749743	61	2.2	61	80	0	147	29	21	25	23	1.99
2751369--2751507	69	2.0	69	94	0	242	43	11	15	29	1.82
2757282--2757315	16	2.1	17	88	5	52	64	0	0	35	0.94
2758693--2758764	32	2.2	32	100	0	144	43	0	5	51	1.25
2759419--2759453	16	2.2	16	89	0	52	45	14	2	37	1.59
2759550--2759613	24	2.7	24	90	0	92	9	21	15	53	1.70
2759619--2759679	31	2.0	30	87	3	86	49	8	13	29	1.70
2759965--2759989	13	1.9	13	100	0	50	32	12	16	40	1.84
2762152--2762221	36	1.9	36	94	0	122	32	27	17	22	1.96
2763992--2764042	25	2.0	27	88	7	79	17	7	25	49	1.74
2767079--2767196	57	2.1	58	91	4	195	43	11	6	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2775877--2775940	33	1.9	33	84	6	85	23	20	37	18	1.94
2785273--2785445	49	3.6	49	84	1	224	26	20	16	36	1.93
2785426--2785464	19	2.1	19	100	0	78	25	28	15	30	1.96
2792100--2792242	49	2.9	48	85	6	171	26	20	9	42	1.83
2792237--2792262	4	6.5	4	100	0	52	23	23	0	53	1.46
2797126--2797202	22	3.5	22	72	19	70	33	19	15	31	1.93
2807831--2807890	22	2.7	22	78	14	61	36	21	13	28	1.91
2810471--2810496	13	2.0	13	100	0	52	30	0	15	53	1.42
2825340--2825411	35	2.1	35	92	5	119	25	8	19	47	1.77
2828945--2828987	20	2.3	19	88	8	61	69	0	2	27	1.00
2841339--2841515	85	2.1	85	94	1	311	42	11	22	23	1.85
2841987--2842488	54	9.3	54	88	0	700	32	14	16	36	1.89
2845599--2846176	81	7.1	81	89	1	800	35	11	20	32	1.88
2851368--2851866	54	9.3	54	90	1	698	32	14	15	37	1.88
2859515--2859557	19	2.3	19	87	0	59	18	23	18	39	1.92
2864470--2864759	145	2.0	146	93	0	501	33	26	13	25	1.93
2872257--2873024	59	13.1	59	81	1	774	37	11	20	30	1.88
2872256--2873024	118	6.5	118	86	3	978	37	11	20	30	1.88
2872256--2873024	235	3.3	233	86	2	997	37	11	20	30	1.88
2879041--2879083	19	2.3	19	87	0	59	16	25	18	39	1.91
2880445--2880493	2	25.0	2	91	4	82	48	48	0	2	1.12
2880496--2882596	4	540.0	4	88	7	2944	24	0	25	49	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2891661--2892373	59	12.1	59	83	3	810	37	11	20	30	1.88
2891661--2892373	118	6.1	118	87	1	903	37	11	20	30	1.88
2896086--2896146	20	2.9	21	87	7	79	18	26	34	21	1.96
2906010--2906064	22	2.7	20	75	10	56	30	16	21	30	1.95
2906451--2907219	59	13.1	59	82	3	847	36	11	19	31	1.88
2906450--2907219	117	6.6	118	87	2	1023	36	11	19	31	1.88
2906451--2907218	293	2.6	295	82	4	887	36	11	19	31	1.88
2915499--2915546	23	2.1	23	84	7	62	22	20	27	29	1.99
2921586--2921638	24	2.2	24	89	0	79	22	24	22	30	1.99
2932633--2932706	23	3.2	23	79	5	78	32	17	27	22	1.97
2937307--2937374	23	3.0	23	84	4	84	26	23	27	22	1.99
2937475--2937597	44	2.8	44	93	0	201	30	18	13	36	1.90
2943912--2943945	14	2.4	14	100	0	68	14	17	5	61	1.52
2947598--2947667	17	4.1	17	86	0	104	40	5	11	42	1.65
2947601--2947677	17	4.5	17	83	3	75	40	6	9	44	1.62
2947601--2947677	34	2.3	34	84	4	93	40	6	9	44	1.62
2950613--2950665	15	3.5	15	77	12	54	49	3	15	32	1.62
2970203--2970235	15	2.2	15	94	0	57	6	15	69	9	1.34
2970548--2970596	25	1.9	26	87	4	73	61	0	2	36	1.08
2984435--2984747	85	3.7	85	90	1	466	32	16	21	30	1.95
2984435--2984783	171	2.0	171	84	2	450	31	16	21	30	1.95
2985378--2985494	53	2.2	53	78	6	121	35	19	17	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2987382--2987431	26	1.9	26	84	8	66	6	8	12	74	1.22
2996346--2996376	16	1.9	16	93	0	53	38	41	0	19	1.51
2998179--2998204	9	2.9	9	100	0	52	23	11	0	65	1.25
3012211--3012236	11	2.4	11	100	0	52	26	11	15	46	1.80
3014955--3015071	43	2.7	43	82	5	146	31	28	17	23	1.96
3017260--3017296	14	2.6	15	79	12	51	21	8	0	70	1.13
3017366--3017397	12	2.6	13	85	14	50	6	6	3	84	0.86
3017559--3017590	16	2.0	16	93	0	55	21	15	0	62	1.32
3035682--3035725	22	2.0	22	86	0	61	34	6	20	38	1.79
3036388--3036456	18	3.9	17	75	9	68	40	7	14	37	1.74
3038850--3039194	45	7.7	44	84	4	343	32	17	8	41	1.79
3038839--3039194	135	2.6	135	84	4	434	33	17	8	41	1.79
3039622--3039656	17	2.1	16	94	5	61	28	22	11	37	1.89
3039821--3039875	21	2.6	21	83	8	67	20	38	16	25	1.92
3044670--3044733	31	2.1	31	85	5	85	3	26	6	64	1.33
3044715--3044769	8	6.9	8	74	13	51	9	18	0	72	1.10
3046650--3046706	22	2.6	22	86	5	80	19	43	12	24	1.85
3048777--3048841	31	2.1	31	94	0	112	35	15	27	21	1.94
3050472--3050525	5	10.6	5	80	11	65	20	3	0	75	0.95
3050453--3050525	35	2.1	36	82	7	87	24	4	0	71	1.04
3065107--3065132	12	2.2	12	100	0	52	38	26	0	34	1.57
3077128--3077172	17	2.7	17	86	10	58	35	15	15	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3077809--3077845	17	2.2	17	95	0	65	43	16	16	24	1.87
3079415--3079446	15	2.1	15	94	0	55	25	21	15	37	1.93
3081815--3081869	24	2.3	24	93	0	92	43	18	7	30	1.77
3102234--3102281	15	2.9	16	74	17	53	72	2	20	4	1.11
3103251--3103898	139	4.6	138	85	1	792	30	27	16	25	1.97
3110562--3110597	18	2.0	18	88	0	54	22	0	13	63	1.29
3119902--3119962	23	2.9	21	80	11	54	22	31	27	18	1.97
3120667--3120706	21	1.9	21	89	0	62	37	35	0	27	1.57
3121551--3121585	17	2.1	17	88	0	52	14	17	5	62	1.49
3129207--3129278	23	3.0	23	82	11	83	16	1	27	54	1.51
3129228--3129293	25	2.6	27	75	20	79	18	0	28	53	1.45
3131063--3131098	2	18.0	2	100	0	72	50	0	0	50	1.00
3131368--3131402	17	2.1	17	100	0	70	11	0	5	82	0.82
3131371--3131409	17	2.3	17	90	0	60	15	2	5	76	1.06
3134595--3134640	22	2.0	24	83	12	60	63	4	2	30	1.26
3135463--3135504	21	2.0	21	81	9	50	35	9	14	40	1.78
3136389--3136438	15	3.3	15	79	17	50	56	2	0	42	1.11
3136741--3136786	22	2.1	22	95	0	83	19	17	13	50	1.78
3136865--3137357	248	2.0	248	87	1	720	35	11	12	40	1.79
3140670--3140791	59	2.1	59	84	0	154	29	17	24	28	1.97
3145217--3145245	14	2.1	14	100	0	58	31	13	34	20	1.92
3148250--3148319	20	3.5	20	100	0	140	22	38	18	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148320--3148353	13	2.6	13	90	0	50	23	23	20	32	1.98
3156055--3156174	42	2.9	42	97	0	222	16	20	19	44	1.87
3156363--3156409	21	2.3	20	85	7	60	46	0	0	53	1.00
3156374--3156499	29	4.4	29	71	20	88	44	0	0	53	1.11
3156363--3156420	19	2.9	20	84	5	64	46	0	0	53	1.00
3156688--3156757	20	3.5	20	96	0	131	35	14	10	40	1.79
3156688--3156766	40	2.0	40	89	0	122	35	15	8	40	1.78
3156740--3156821	15	5.5	15	88	2	121	35	19	7	37	1.80
3156740--3156821	30	2.8	30	94	1	139	35	19	7	37	1.80
3156740--3156826	45	2.0	44	93	2	147	33	19	6	40	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18