genome.fa.s8138.2.7.7.80.10.50.1000.14.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

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

This is table  14  of  18  ( 2117 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)
2909922--2910116	26	7.6	26	76	13	181	42	1	9	46	1.43
2909922--2910098	48	3.5	50	80	10	175	44	1	10	44	1.45
2909926--2910145	26	8.4	27	75	16	164	42	0	9	47	1.42
2910084--2910145	30	2.0	31	84	3	81	40	0	6	53	1.27
2914423--2914484	25	2.5	25	100	0	124	33	27	0	38	1.57
2914722--2914769	16	3.0	16	79	8	53	54	25	2	18	1.55
2916727--2916773	23	2.2	21	85	14	62	17	29	29	23	1.97
2916734--2916795	20	2.9	21	85	7	72	17	25	32	24	1.97
2925979--2926262	99	2.9	98	89	2	408	34	18	16	30	1.93
2928721--2929677	237	4.0	237	88	1	1351	31	16	18	33	1.93
2929605--2929719	42	2.7	42	85	5	160	23	21	23	31	1.98
2929382--2929964	269	2.1	275	85	5	792	29	18	20	31	1.96
2929961--2930333	37	10.0	37	76	10	298	35	20	21	22	1.96
2929877--2930328	225	2.0	226	91	3	730	33	21	21	23	1.97
2930652--2930791	26	5.4	26	77	7	151	44	0	10	45	1.42
2930655--2930828	26	7.2	23	74	13	129	44	0	9	45	1.40
2930656--2930791	50	2.6	52	81	4	168	43	0	10	45	1.43
2930775--2930807	2	16.5	2	100	0	66	51	0	0	48	1.00
2930656--2930823	50	3.5	48	75	14	157	44	0	9	45	1.40
2930723--2930865	70	2.1	68	85	6	198	44	0	9	45	1.40
2943439--2943595	43	3.7	43	81	0	152	21	19	24	35	1.96
2944029--2944088	21	2.9	21	74	0	57	5	38	16	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2947869--2947967	40	2.5	41	77	11	98	36	22	15	26	1.93
2956127--2956215	30	3.0	29	77	11	99	37	17	4	40	1.71
2964413--2964473	23	2.7	23	89	0	95	29	27	24	18	1.98
2965953--2966034	24	3.6	24	80	12	102	21	26	19	31	1.97
2966141--2966181	21	2.0	21	95	0	73	34	19	19	26	1.96
2969688--2969732	23	2.0	23	90	0	72	28	26	26	17	1.98
2973028--2973065	20	1.9	20	88	0	58	42	21	13	23	1.88
2973088--2973129	21	2.0	20	90	4	66	50	4	19	26	1.67
2976316--2976394	40	2.0	40	100	0	158	21	17	27	32	1.96
2976499--2976758	44	5.8	45	88	4	366	40	6	20	33	1.77
2976499--2976758	90	2.9	90	88	2	389	40	6	20	33	1.77
2981691--2981995	6	50.8	6	97	0	295	60	0	27	11	1.32
2981995--2982080	3	28.7	3	72	9	59	59	2	2	36	1.23
2983959--2983995	18	2.0	19	89	5	58	0	8	13	78	0.96
2984622--2984676	3	19.0	3	83	7	69	65	0	0	34	0.93
2985247--2985487	104	2.3	104	80	4	263	25	16	23	34	1.95
2985517--2985773	137	1.9	137	82	3	329	24	17	24	33	1.96
2986224--2986412	65	2.9	64	79	7	182	36	12	17	32	1.88
2986115--2986349	101	2.3	103	82	5	298	37	11	19	31	1.88
2986357--2986425	36	1.9	36	90	0	111	40	14	20	24	1.90
2988836--2988879	16	2.9	15	87	9	63	4	15	0	79	0.89
2988839--2988884	14	3.1	15	84	9	58	6	15	0	78	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2990985--2991017	16	2.0	17	88	5	50	21	36	9	33	1.85
2993691--2993724	12	2.8	12	100	0	68	5	17	5	70	1.28
2994097--2994219	18	6.6	18	73	15	79	54	4	4	36	1.41
2994147--2994234	29	3.0	29	75	9	88	54	6	4	34	1.47
2994411--2994694	116	2.5	109	78	9	288	25	19	15	40	1.90
2994411--2994810	106	3.7	105	71	13	254	24	18	16	40	1.90
2995740--2995796	29	2.0	28	83	10	71	10	15	0	73	1.09
3000703--3000751	21	2.3	21	100	0	98	18	12	32	36	1.88
3003945--3004033	31	2.9	31	79	0	115	23	30	26	19	1.98
3008118--3008186	27	2.6	27	86	4	86	30	15	7	46	1.73
3008739--3008801	14	4.4	15	74	9	60	28	19	26	25	1.98
3008741--3008801	28	2.1	29	84	3	79	29	19	26	24	1.99
3012849--3012904	25	2.2	25	90	0	85	37	12	10	39	1.78
3019307--3019361	3	18.3	3	90	0	83	32	1	3	61	1.24
3024371--3024569	108	1.8	108	93	0	344	36	17	22	24	1.95
3026967--3027087	37	3.5	37	68	19	114	28	15	14	41	1.87
3026995--3027369	30	11.8	30	65	21	99	29	17	14	39	1.89
3026966--3027133	67	2.5	66	90	3	255	26	16	14	42	1.86
3027074--3027185	52	2.2	52	90	0	170	29	16	12	41	1.86
3027007--3027257	119	2.1	119	90	0	385	28	17	14	39	1.89
3027126--3027387	67	3.9	67	87	2	375	28	17	14	38	1.90
3027153--3027273	37	3.5	37	67	15	94	28	21	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3026965--3027319	186	1.9	186	91	0	575	27	17	14	41	1.88
3027428--3027770	134	2.6	134	82	4	379	29	28	14	27	1.96
3027411--3027805	134	2.9	134	79	5	345	28	28	15	27	1.96
3028011--3028051	3	13.7	3	84	0	55	31	2	2	63	1.20
3028022--3028063	18	2.3	18	84	8	50	40	4	0	54	1.21
3030554--3030606	23	2.2	23	83	6	61	37	3	1	56	1.28
3033149--3033174	9	2.9	9	100	0	52	53	0	0	46	1.00
3039286--3039356	29	2.4	28	75	13	70	26	11	11	50	1.72
3040839--3040877	2	19.5	2	94	0	69	46	0	2	51	1.14
3041523--3041640	5	23.4	5	81	17	122	22	0	77	0	0.83
3043088--3043167	31	2.5	32	81	4	99	38	3	15	42	1.64
3043105--3043190	31	2.8	31	80	7	77	40	4	13	40	1.66
3043578--3043652	21	3.5	21	83	7	96	17	21	26	34	1.95
3043593--3043670	23	3.5	23	78	7	97	20	21	21	35	1.96
3043577--3043671	44	2.2	44	86	0	145	22	21	22	34	1.97
3043754--3043785	6	5.3	6	100	0	64	34	50	15	0	1.45
3044294--3044325	6	5.5	6	96	3	57	0	15	53	31	1.43
3044464--3044721	21	12.4	21	78	11	255	24	22	22	31	1.99
3044464--3044703	62	3.9	62	96	1	428	24	22	21	31	1.98
3046039--3046156	60	2.0	60	83	6	150	39	17	12	29	1.87
3049079--3049140	28	2.2	30	83	13	78	58	16	1	24	1.47
3049226--3049448	124	1.9	114	87	10	322	35	8	12	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049364--3049519	71	2.2	72	88	6	228	33	9	12	44	1.75
3049561--3049621	30	2.1	30	82	14	74	24	1	19	54	1.54
3052371--3052410	21	1.9	21	90	10	64	57	7	5	30	1.48
3056219--3056280	24	2.7	22	76	9	61	25	30	20	22	1.98
3058227--3058268	14	2.9	15	82	13	52	16	2	26	54	1.54
3058634--3058797	85	1.9	85	81	7	199	32	20	18	28	1.96
3058827--3058879	2	26.5	2	100	0	106	49	0	0	50	1.00
3063121--3063163	17	2.5	17	100	0	86	65	23	6	4	1.37
3063974--3064033	2	30.0	2	100	0	120	50	0	0	50	1.00
3064383--3064682	149	2.0	149	93	0	510	36	14	18	31	1.90
3066282--3066329	24	2.0	24	84	8	62	43	2	0	54	1.12
3066349--3066396	3	15.7	3	83	16	55	70	0	0	29	0.87
3066349--3066399	26	2.0	26	92	7	86	70	0	0	29	0.87
3066352--3066402	9	5.8	9	80	15	54	72	0	0	27	0.85
3068143--3068185	15	2.9	15	96	0	77	37	20	4	37	1.74
3068236--3068581	137	2.5	136	85	6	432	32	14	12	41	1.83
3071048--3071079	2	16.0	2	100	0	64	50	0	50	0	1.00
3071167--3071214	12	3.8	12	88	5	69	39	0	58	2	1.10
3071169--3071209	10	3.9	10	84	12	55	39	0	58	2	1.11
3071275--3071407	60	2.2	60	81	5	144	33	10	15	40	1.82
3071628--3071741	59	1.9	60	87	1	167	34	18	15	31	1.92
3072375--3072506	60	2.2	59	82	5	176	29	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3072393--3072529	60	2.3	60	89	1	204	33	15	16	34	1.91
3072589--3072625	18	2.0	19	89	5	58	29	0	27	43	1.55
3083594--3083645	17	3.2	16	86	10	70	26	25	30	17	1.97
3083579--3083645	32	2.1	32	86	5	91	26	26	29	16	1.97
3083579--3083634	15	3.6	15	84	13	69	26	28	28	16	1.97
3083958--3084020	21	3.0	22	90	6	103	38	36	1	23	1.65
3084040--3084086	25	1.9	24	86	4	67	21	14	0	63	1.30
3089434--3089475	22	2.0	21	90	4	66	38	35	2	23	1.68
3094521--3094563	23	1.9	22	90	4	68	44	4	27	23	1.73
3096826--3096870	18	2.5	18	100	0	90	33	31	13	22	1.92

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