genome.fa.s7867.2.7.7.80.10.50.1000.16.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

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

This is table  16  of  18  ( 2128 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)
2977061--2977110	20	2.5	20	96	0	91	22	16	14	48	1.81
2977232--2977303	22	3.3	22	96	0	126	16	47	19	16	1.83
2977680--2977745	34	1.9	34	84	0	87	15	16	21	46	1.83
2979249--2979351	42	2.5	42	84	6	129	25	33	15	26	1.95
2979466--2979641	21	8.4	20	70	7	100	19	11	34	34	1.88
2979469--2979588	63	1.9	63	82	3	152	20	11	36	31	1.88
2979532--2979626	42	2.3	43	78	9	115	18	9	34	36	1.84
2979925--2980099	21	8.3	21	84	3	158	21	37	15	25	1.92
2981502--2981537	16	2.2	16	90	0	54	19	0	13	66	1.24
2984204--2984259	24	2.3	24	93	0	94	39	19	16	25	1.91
2984204--2984271	24	2.8	24	86	0	73	38	20	16	25	1.92
2985009--2985046	15	2.4	16	86	4	51	63	2	5	28	1.30
2985187--2985221	18	1.9	18	88	0	52	42	2	20	34	1.66
2985218--2985358	40	3.5	39	77	5	140	34	12	22	29	1.92
2985188--2985354	20	8.4	20	67	12	69	35	10	22	30	1.89
2985188--2985314	60	2.2	58	78	8	132	35	9	24	30	1.87
2985400--2985448	21	2.4	21	96	3	91	32	14	24	28	1.94
2985460--2985508	20	2.5	19	86	6	62	32	12	22	32	1.91
2988650--2988682	16	1.9	18	88	11	52	36	0	3	60	1.12
2994469--2994535	27	2.5	26	80	4	62	44	5	0	49	1.27
2994582--2994675	26	3.6	27	75	20	85	53	0	3	43	1.17
2994583--2994668	24	3.4	24	80	11	75	53	0	3	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2994974--2995036	23	2.6	23	78	17	65	50	1	0	47	1.10
2995060--2995178	31	3.7	31	74	17	86	47	0	1	49	1.17
2995099--2995178	32	2.5	32	82	12	92	50	0	2	47	1.14
2995126--2995172	22	2.1	23	88	4	69	53	0	2	44	1.12
2995134--2995177	22	2.0	22	82	8	54	54	0	2	43	1.12
2996113--2996164	2	26.0	2	100	0	104	50	0	0	50	1.00
2996380--2996415	2	18.0	2	100	0	72	50	0	0	50	1.00
2996885--2996951	33	2.0	33	85	5	91	46	4	1	47	1.31
3009704--3009755	9	5.6	10	75	22	51	7	17	1	73	1.16
3009704--3009755	19	2.8	19	75	13	63	7	17	1	73	1.16
3009688--3009795	28	3.7	27	78	19	94	7	16	0	75	1.08
3014440--3014474	17	2.1	17	100	0	70	17	28	17	37	1.92
3020419--3020443	7	3.6	7	100	0	50	48	16	0	36	1.46
3020786--3020856	21	3.3	21	84	11	74	33	22	16	26	1.96
3020814--3020880	23	2.9	23	90	0	98	29	20	20	28	1.98
3025652--3025690	16	2.4	17	82	8	53	12	15	35	35	1.86
3026069--3026130	32	1.9	32	90	0	97	19	14	22	43	1.87
3026075--3026130	16	3.5	16	77	0	58	21	14	21	42	1.88
3033052--3033090	19	2.0	20	85	14	55	51	2	0	46	1.14
3033100--3033172	15	5.1	15	75	6	55	46	2	6	43	1.44
3033306--3033359	19	2.9	19	84	10	60	44	1	29	24	1.64
3033569--3033736	2	86.0	2	65	17	50	46	4	6	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033891--3033929	2	20.0	2	94	5	71	51	0	0	48	1.00
3034026--3034085	7	8.6	7	72	7	50	45	28	0	26	1.54
3034026--3034086	21	2.9	21	75	0	68	44	27	0	27	1.55
3034191--3034349	37	4.5	36	70	19	102	42	6	7	42	1.60
3034266--3034307	2	21.0	2	81	18	52	45	0	4	50	1.23
3035427--3035494	32	2.1	32	83	5	84	39	14	22	23	1.91
3035444--3035495	16	3.2	16	77	0	59	40	13	25	21	1.89
3043872--3043937	27	2.4	27	97	0	123	56	10	7	25	1.60
3044715--3044785	32	2.2	33	79	2	81	42	2	5	49	1.41
3044647--3045029	197	1.9	197	85	3	529	37	7	10	44	1.67
3047602--3048674	446	2.4	448	90	2	1649	30	13	13	42	1.84
3048849--3048892	19	2.2	20	88	4	63	27	6	11	54	1.61
3050267--3050349	6	13.7	6	82	2	76	59	6	6	28	1.45
3050266--3050341	24	3.2	24	88	0	98	57	6	6	28	1.49
3050267--3050347	30	2.7	30	88	3	119	59	6	6	28	1.46
3050266--3050377	6	18.7	6	79	7	75	55	5	9	29	1.55
3052401--3052466	2	33.0	2	100	0	132	50	0	0	50	1.00
3053251--3054073	199	4.1	200	88	1	1175	32	15	13	38	1.86
3053256--3054790	399	3.9	398	80	9	1640	32	14	12	40	1.84
3053878--3054433	180	3.1	178	85	2	747	31	14	12	41	1.84
3054237--3054827	203	2.9	198	84	5	747	32	15	11	40	1.83
3055609--3055657	19	2.6	19	96	0	89	55	10	2	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3056552--3057206	180	3.6	181	89	2	989	42	14	16	27	1.87
3056552--3057206	182	3.6	182	89	2	1016	42	14	16	27	1.87
3059150--3059204	24	2.4	23	80	11	69	45	0	7	47	1.30
3059492--3059522	15	2.1	15	93	0	53	22	9	54	12	1.67
3059878--3059916	18	2.2	18	95	0	69	56	0	35	7	1.28
3061389--3061428	21	1.9	21	85	10	55	42	5	5	47	1.47
3061417--3061453	15	2.5	15	90	0	56	37	5	0	56	1.22
3068762--3069034	45	6.0	45	85	5	300	39	12	21	26	1.89
3079777--3079845	20	3.5	20	90	4	104	28	17	17	36	1.93
3080145--3080401	47	5.5	47	91	0	390	35	19	17	28	1.94
3080609--3080661	5	11.2	5	84	11	76	39	0	0	60	0.97
3085993--3086073	15	5.5	15	73	2	65	35	6	17	40	1.74
3086187--3086256	24	3.0	24	82	2	97	22	22	24	30	1.99
3086244--3086306	24	2.7	24	85	2	83	23	20	22	33	1.97
3088970--3089009	20	2.0	20	90	0	62	27	22	22	27	1.99
3091094--3091500	82	5.0	82	86	4	493	31	21	10	36	1.88
3091117--3091505	163	2.4	162	87	3	532	31	20	11	36	1.88
3093806--3094193	81	4.7	82	84	3	485	30	22	11	34	1.90
3093806--3094190	163	2.3	163	83	6	477	30	22	11	34	1.90
3094270--3094443	55	3.2	54	83	5	190	32	18	12	36	1.88
3094921--3094963	20	2.1	21	82	4	52	41	11	4	41	1.62
3095551--3095636	44	2.0	44	83	4	111	34	20	4	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095717--3095799	40	2.0	41	86	2	114	21	22	24	31	1.98
3096211--3096291	7	11.9	7	82	8	69	9	14	0	75	1.05
3096211--3096291	14	5.9	14	81	7	78	9	14	0	75	1.05
3096209--3096316	21	5.4	19	78	12	85	7	15	0	75	1.06
3096208--3096320	14	8.5	13	75	15	72	7	15	0	76	1.03
3096264--3096331	25	2.9	24	78	8	68	4	13	1	80	0.92
3096198--3096328	16	8.9	14	69	20	65	7	14	0	77	1.03
3098079--3098127	19	2.7	19	78	9	66	75	0	12	12	1.05
3098262--3098354	40	2.3	41	81	3	100	63	3	4	29	1.29
3098306--3098354	19	2.5	20	80	10	55	59	4	4	32	1.35
3098384--3098498	2	60.0	2	74	14	64	58	1	3	36	1.26
3098389--3098464	25	3.2	24	78	12	68	61	1	3	32	1.22
3099492--3099717	84	2.7	83	80	8	226	24	18	21	35	1.96
3099949--3100147	110	1.8	109	85	4	283	23	18	22	36	1.95
3100816--3100963	67	2.2	69	80	6	176	39	8	17	34	1.81
3101917--3102028	32	3.5	32	83	10	113	36	18	12	32	1.88
3101935--3102028	31	2.9	31	84	10	118	37	20	10	31	1.87
3110126--3110190	10	6.6	9	76	22	51	81	0	16	1	0.77
3110142--3110184	6	6.8	6	79	10	50	81	0	18	0	0.69
3110141--3110186	13	3.5	13	80	14	58	82	0	17	0	0.67
3111096--3111425	122	2.7	123	94	1	583	41	14	19	23	1.89
3111341--3111698	134	2.6	136	83	7	433	39	14	19	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3111978--3112062	27	3.1	27	68	9	73	34	42	8	15	1.77
3120273--3120323	21	2.4	21	96	0	93	45	11	17	25	1.83
3121486--3121566	40	2.0	40	100	0	162	33	14	22	29	1.94
3121804--3121837	12	2.7	13	86	9	52	61	0	26	11	1.30
3153260--3153309	15	3.3	15	80	2	55	42	26	4	28	1.73
3156136--3156162	4	6.8	4	100	0	54	77	0	0	22	0.76
3157911--3158175	130	2.0	130	86	2	363	27	15	30	26	1.96
3158198--3158395	66	3.0	66	77	6	188	36	11	21	29	1.89
3162916--3162975	3	19.3	3	83	6	75	38	0	0	61	0.96
3162917--3162976	25	2.4	25	88	0	93	38	0	0	61	0.96

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