genome.fa.s8185.2.7.7.80.10.50.1000.14.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  14  of  16  ( 1911 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)
2910259--2910287	12	2.3	13	94	5	51	13	24	44	17	1.85
2910245--2910315	18	3.9	17	89	9	88	16	21	45	16	1.86
2910330--2910381	9	5.3	10	84	11	72	36	30	19	13	1.90
2911154--2911244	40	2.3	40	80	3	112	34	9	19	36	1.85
2913444--2913544	23	4.3	23	85	1	103	30	23	21	23	1.99
2913551--2913768	103	2.1	103	94	0	382	37	23	12	26	1.91
2919449--2919531	23	3.6	23	93	0	139	25	24	27	22	2.00
2919426--2919534	23	4.7	23	88	0	137	26	24	25	22	2.00
2919555--2919768	103	2.1	103	94	0	374	36	23	12	27	1.91
2921431--2921511	31	2.6	31	88	0	99	39	24	18	17	1.92
2923775--2923842	11	6.3	10	75	14	64	72	0	2	25	0.99
2924136--2924166	2	15.5	2	93	0	53	51	3	0	45	1.17
2925474--2926507	106	9.9	106	89	3	1533	23	18	24	33	1.97
2925830--2926450	200	3.0	200	90	2	954	23	18	24	33	1.96
2926150--2926450	94	3.1	94	84	10	422	23	17	24	33	1.96
2927378--2927429	22	2.4	21	87	9	77	19	13	30	36	1.90
2928033--2928095	22	2.9	22	72	27	62	4	11	7	76	1.15
2932596--2932676	19	4.2	18	75	12	54	67	7	9	14	1.40
2932825--2932901	22	3.3	22	80	14	75	66	0	3	29	1.10
2932811--2932901	22	4.1	21	76	18	69	67	0	4	28	1.10
2937492--2937585	31	3.0	31	87	3	127	38	22	18	21	1.93
2938905--2938979	35	2.1	35	92	0	123	33	29	28	9	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2939057--2939137	23	3.5	24	84	5	112	34	20	19	24	1.96
2939040--2939164	47	2.6	48	73	13	116	40	18	16	24	1.91
2940291--2940326	18	2.0	18	88	0	54	30	16	0	52	1.44
2941622--2941660	7	5.3	7	88	11	60	25	25	35	12	1.92
2941621--2941660	15	2.7	15	100	0	80	25	25	37	12	1.91
2941602--2941676	8	9.5	8	79	19	79	22	24	37	16	1.93
2941650--2941725	13	5.5	13	79	14	80	15	21	46	17	1.84
2941644--2941698	18	2.9	18	89	8	74	14	21	45	18	1.85
2941650--2941711	31	2.0	31	93	0	106	14	20	46	17	1.83
2943764--2943838	35	2.1	35	92	0	123	33	29	28	9	1.88
2943916--2943996	23	3.5	24	84	5	112	34	20	19	24	1.96
2943899--2944023	47	2.6	48	73	13	116	40	18	16	24	1.91
2945150--2945185	18	2.0	18	88	0	54	30	16	0	52	1.44
2946481--2946519	7	5.3	7	88	11	60	25	25	35	12	1.92
2946480--2946519	15	2.7	15	100	0	80	25	25	37	12	1.91
2946461--2946535	8	9.5	8	79	19	79	22	24	37	16	1.93
2946509--2946584	13	5.5	13	79	14	80	15	21	46	17	1.84
2946503--2946557	18	2.9	18	89	8	74	14	21	45	18	1.85
2946509--2946570	31	2.0	31	93	0	106	14	20	46	17	1.83
2961379--2961973	293	2.0	294	98	0	1147	40	12	10	37	1.77
2965758--2965782	12	2.1	12	100	0	50	48	0	8	44	1.32
2968263--2968292	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2977152--2977182	15	2.1	15	93	0	53	35	6	29	29	1.82
2982434--2982503	31	2.3	31	82	5	79	42	28	11	17	1.83
2993688--2993736	25	2.0	25	95	0	89	36	12	20	30	1.89
3007671--3007722	21	2.5	21	81	3	61	38	19	25	17	1.93
3007708--3007839	61	2.2	61	85	0	174	35	25	15	23	1.94
3007712--3007825	20	5.7	20	80	6	95	31	26	17	24	1.97
3008013--3008056	22	2.0	22	95	0	79	20	45	15	18	1.85
3009676--3009720	18	2.5	18	81	0	54	28	42	13	15	1.85
3010202--3010268	20	3.4	20	81	2	73	38	23	22	14	1.92
3010257--3010314	14	3.9	14	79	16	71	48	24	17	10	1.78
3010241--3010331	32	2.8	33	94	3	166	47	21	18	12	1.81
3010348--3010405	14	3.9	14	79	16	71	10	17	24	48	1.78
3010343--3010421	32	2.4	33	95	2	142	11	18	22	46	1.81
3010406--3010461	20	2.8	19	86	7	76	16	25	23	35	1.94
3012311--3012346	14	2.6	14	90	0	54	30	0	22	47	1.52
3012473--3012526	14	3.5	14	77	22	63	48	20	20	11	1.80
3012807--3012844	20	1.9	20	100	0	76	28	21	23	26	1.99
3013628--3013681	24	2.2	24	90	0	81	22	16	20	40	1.91
3013856--3013880	12	2.1	12	100	0	50	72	0	28	0	0.86
3016173--3016264	19	5.4	19	63	24	69	43	17	20	18	1.88
3016173--3016284	33	3.4	33	85	4	163	41	17	23	16	1.89
3016279--3016369	33	2.8	33	93	0	146	13	21	19	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016309--3016369	19	3.5	19	72	21	69	11	22	21	44	1.84
3016295--3016351	14	3.7	14	72	20	51	8	24	21	45	1.80
3016476--3016512	14	2.6	14	91	0	65	45	24	0	29	1.53
3023814--3023854	21	2.0	21	90	0	64	29	36	24	9	1.87
3027510--3027671	42	3.9	42	82	0	207	23	18	36	21	1.95
3027505--3027674	84	2.0	84	97	0	322	24	18	36	21	1.95
3027893--3028077	91	2.0	90	89	6	282	47	17	12	22	1.81
3029766--3029828	20	3.2	20	80	8	74	44	17	22	15	1.86
3029789--3029885	33	2.9	33	89	1	149	40	22	24	12	1.89
3029886--3029951	18	3.5	19	83	4	80	10	16	25	46	1.79
3029897--3029948	19	2.7	19	88	5	70	11	19	25	44	1.84
3030448--3030500	20	2.7	20	93	0	88	26	20	28	24	1.99
3030509--3030562	20	2.7	20	91	0	90	27	18	22	31	1.97
3030449--3030583	61	2.2	61	80	2	146	23	20	23	32	1.98
3030633--3030673	21	2.0	21	85	0	55	34	31	17	17	1.93
3031097--3031121	3	8.3	3	100	0	50	32	0	0	68	0.90
3039356--3039381	13	2.0	13	100	0	52	61	0	0	38	0.96
3042585--3042640	26	2.2	26	86	0	76	19	25	46	8	1.79
3044346--3044389	22	2.0	22	86	8	63	54	0	0	45	0.99
3044346--3044392	23	2.0	23	88	8	69	55	0	0	44	0.99
3049025--3049058	10	3.4	10	91	0	50	58	0	0	41	0.98
3049060--3049116	20	3.0	19	78	16	64	52	3	0	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049061--3049116	10	5.8	9	78	18	51	51	3	0	44	1.18
3052878--3052908	2	15.5	2	93	0	53	48	0	51	0	1.00
3054443--3054692	84	3.0	83	85	2	313	24	20	23	30	1.98
3054363--3054694	84	4.0	84	79	6	300	25	20	24	30	1.99
3054747--3054815	21	3.6	21	68	22	69	31	14	27	26	1.95
3054697--3054818	36	3.4	36	88	3	174	35	16	23	24	1.95
3055199--3056301	105	10.5	105	94	0	1839	22	18	25	32	1.97
3055199--3056301	316	3.5	315	93	0	1848	22	18	25	32	1.97
3055199--3056301	421	2.6	420	94	0	1936	22	18	25	32	1.97
3060249--3060279	2	15.5	2	93	0	53	48	0	51	0	1.00
3065873--3065956	37	2.3	37	82	8	102	30	2	5	60	1.33
3068188--3068761	150	3.8	149	76	5	496	28	20	18	32	1.96
3075458--3075763	152	2.0	152	92	0	513	25	23	16	35	1.95
3079960--3079995	18	2.0	18	94	0	63	55	25	2	16	1.55
3080211--3080255	20	2.2	20	92	0	72	20	17	24	37	1.93
3080314--3080463	64	2.3	65	93	3	250	52	16	1	30	1.53
3081765--3081856	21	4.4	21	81	2	105	20	19	36	22	1.95
3081765--3081886	42	2.9	42	83	0	154	24	18	33	22	1.97
3084013--3084079	20	3.4	20	85	2	91	52	20	17	8	1.72
3084445--3084495	22	2.3	22	96	0	93	19	11	45	23	1.83
3084650--3084698	20	2.5	20	89	0	71	22	8	22	46	1.77
3084689--3084758	20	3.5	20	88	0	86	25	15	22	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3089904--3089943	2	20.0	2	100	0	80	50	0	0	50	1.00
3095465--3096128	331	2.0	331	98	0	1274	31	15	16	36	1.91
3102670--3102725	28	2.0	28	96	0	103	17	26	3	51	1.62
3102670--3102717	15	3.3	15	71	11	55	16	29	4	50	1.64
3117931--3117994	26	2.5	26	100	0	128	31	17	28	23	1.97
3120589--3120748	78	2.1	78	100	0	320	29	21	28	20	1.98
3125459--3125499	19	2.2	19	90	0	64	24	17	7	51	1.70
3125795--3126447	327	2.0	327	96	0	1198	28	14	31	25	1.95
3129428--3129452	13	1.9	13	100	0	50	44	8	8	40	1.63
3129576--3129625	5	9.4	5	84	6	55	24	0	0	76	0.80

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