genome.fa.s8724.2.7.7.80.10.50.1000.13.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  13  of  23  ( 2733 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)
2990739--2990775	19	1.9	19	88	0	56	40	2	8	48	1.47
2991664--2991712	3	16.3	3	100	0	98	67	0	0	32	0.91
2995136--2995195	21	2.9	21	89	0	93	46	6	40	6	1.56
2997133--2997593	226	2.0	226	87	2	667	41	11	14	32	1.82
2997449--2997661	108	2.0	108	85	3	286	41	11	12	34	1.80
2997450--2997713	108	2.4	108	82	3	282	40	11	11	35	1.78
2998058--2998267	75	2.8	74	81	2	251	31	12	14	41	1.83
2998242--2998307	23	2.9	23	83	0	78	33	15	18	33	1.92
2998288--2998471	76	2.4	74	84	5	228	31	15	13	40	1.85
2999473--2999512	4	9.5	4	84	10	53	70	0	2	27	1.01
2999536--2999579	19	2.4	18	84	3	52	40	9	0	50	1.34
2999660--2999863	2	104.0	2	69	24	98	47	5	1	44	1.38
2999725--2999847	46	2.7	46	75	16	121	47	6	1	43	1.38
2999738--2999869	46	3.1	41	77	16	128	48	5	2	43	1.38
2999732--2999869	15	9.4	14	71	18	79	48	5	2	44	1.36
2999722--2999870	29	5.3	29	72	16	93	48	5	2	43	1.37
3005120--3005280	60	2.7	60	92	0	259	36	24	18	21	1.95
3013039--3013123	43	2.0	43	83	0	107	32	17	27	22	1.96
3025151--3025210	23	2.7	22	85	10	77	80	8	10	1	0.99
3028648--3028700	20	2.5	21	76	14	56	33	22	18	24	1.97
3033051--3033110	13	4.6	13	83	8	77	46	16	15	21	1.83
3033442--3033492	3	17.0	3	100	0	102	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3035299--3035329	13	2.4	13	88	0	53	29	0	3	67	1.06
3035423--3035454	5	6.4	5	100	0	64	18	0	0	81	0.70
3035368--3035441	27	2.7	29	76	16	77	22	5	0	71	1.06
3036898--3036937	21	1.9	21	84	0	53	37	17	17	27	1.92
3041596--3041633	20	1.9	20	89	10	60	21	5	0	73	1.02
3041592--3041643	20	2.6	20	74	17	54	23	3	0	73	1.00
3045724--3046196	53	8.9	52	86	4	624	21	27	19	31	1.97
3045724--3046197	159	3.0	158	87	3	691	21	27	19	31	1.98
3046600--3046702	42	2.5	42	93	0	170	33	21	18	26	1.96
3046705--3046956	80	3.2	80	92	0	414	28	21	17	32	1.96
3047079--3047184	42	2.6	41	79	4	115	32	23	19	24	1.98
3046900--3047339	212	2.1	214	90	2	697	32	19	15	32	1.93
3047327--3047440	34	3.1	39	76	13	132	24	20	21	33	1.97
3053128--3053231	45	2.3	45	93	0	172	14	25	12	48	1.79
3053499--3053528	6	5.0	6	95	0	51	46	20	16	16	1.84
3059319--3059374	13	4.3	13	88	0	85	42	16	17	23	1.88
3060637--3060686	26	1.9	26	100	0	100	48	8	18	26	1.75
3061200--3061236	3	12.0	3	88	5	56	37	0	0	62	0.96
3061204--3061244	19	2.2	19	86	0	55	43	0	0	56	0.99
3061201--3061266	22	2.9	21	78	15	53	48	0	0	51	1.00
3062548--3062602	23	2.4	22	79	8	56	27	1	5	65	1.25
3062620--3062674	29	2.0	28	82	13	69	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3062616--3062676	27	2.4	25	76	13	61	47	0	0	52	1.00
3062763--3062807	22	2.0	22	86	8	63	42	0	0	57	0.98
3073862--3073916	10	5.3	10	83	16	58	87	3	9	0	0.66
3073856--3073913	14	4.1	14	78	14	57	84	3	10	1	0.81
3074937--3075245	110	2.7	112	86	7	430	33	14	20	31	1.93
3075970--3076452	113	4.3	112	84	2	535	37	14	18	29	1.91
3075970--3076452	225	2.2	222	81	4	542	37	14	18	29	1.91
3076527--3076592	20	3.3	20	65	23	57	50	7	25	16	1.72
3076504--3076592	40	2.3	39	92	7	148	48	10	23	17	1.78
3076381--3076688	158	2.0	152	84	6	393	42	14	18	24	1.88
3076853--3076882	3	10.0	3	100	0	60	33	0	0	66	0.92
3078054--3078111	28	2.0	29	83	9	75	39	0	0	60	0.97
3079763--3079807	18	2.7	16	89	6	63	35	0	31	33	1.58
3080382--3080476	39	2.5	37	89	6	154	37	40	11	10	1.76
3080647--3080734	38	2.3	38	98	1	169	38	38	11	11	1.77
3080342--3080944	249	2.4	252	86	9	835	35	28	12	23	1.92
3083115--3083228	39	2.9	39	86	0	165	46	14	3	35	1.61
3083115--3083437	136	2.4	133	82	7	355	47	11	5	34	1.64
3083252--3083340	39	2.3	38	82	5	106	52	6	5	34	1.51
3083292--3083556	94	2.8	95	81	5	284	44	10	9	35	1.72
3083481--3083714	39	6.0	38	77	6	202	44	10	5	40	1.62
3083483--3083712	78	3.0	75	80	7	264	43	10	5	40	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083499--3083714	116	1.9	117	85	4	303	43	11	4	41	1.61
3083975--3084121	58	2.5	58	85	6	208	45	9	6	38	1.62
3083879--3084218	159	2.1	159	87	1	484	46	10	5	37	1.62
3084035--3084218	101	1.8	101	85	4	264	46	9	5	38	1.60
3084865--3085085	45	4.8	45	79	7	230	33	9	13	43	1.77
3084993--3085104	45	2.7	40	76	8	109	32	10	16	41	1.82
3085233--3085356	58	2.1	58	83	2	151	39	10	12	37	1.77
3091823--3091920	21	4.8	20	73	10	72	36	21	19	22	1.95
3091888--3092075	20	9.4	20	81	5	193	36	26	18	19	1.94
3092760--3092806	24	2.0	24	86	0	67	27	12	21	38	1.90
3095324--3095579	53	4.9	53	97	1	489	45	17	23	14	1.84
3095575--3095692	54	2.2	52	95	4	218	13	24	17	44	1.85
3095594--3095692	19	5.4	19	84	12	136	14	23	17	45	1.84
3095798--3095834	14	2.6	14	91	0	65	45	21	0	32	1.52
3097728--3097898	19	9.6	19	77	13	141	45	23	20	10	1.82
3097822--3097877	14	3.7	14	78	17	58	42	23	23	10	1.85
3097803--3097893	32	2.8	32	93	1	155	45	21	21	10	1.83
3097894--3097985	19	5.4	18	72	24	83	7	17	28	46	1.75
3097910--3097968	14	3.9	14	76	20	64	6	16	28	47	1.72
3097894--3098001	33	3.3	33	94	0	180	7	18	26	47	1.75
3097943--3097999	14	3.7	14	72	20	51	8	22	24	43	1.81
3097894--3098016	33	3.7	32	90	2	156	8	17	27	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3099921--3099984	20	3.2	20	82	4	92	46	15	25	12	1.81
3099919--3099983	21	3.1	21	82	4	96	47	15	26	10	1.78
3099968--3100024	14	3.7	14	70	20	51	43	21	24	10	1.83
3099919--3100041	33	3.5	33	88	8	156	46	17	24	11	1.81
3099960--3100043	33	2.5	33	98	0	159	46	17	23	11	1.82
3100069--3100142	21	3.5	21	76	7	87	13	21	16	48	1.80
3100222--3100292	33	2.2	33	94	0	124	47	16	23	11	1.79
3100671--3100904	20	11.6	20	81	7	267	18	17	27	36	1.94
3101646--3101690	19	2.4	19	85	7	56	44	2	15	37	1.59
3102595--3102713	30	4.0	29	84	6	148	42	17	36	3	1.66
3102600--3102713	60	1.9	60	87	3	167	43	16	35	3	1.65
3102663--3102704	22	2.0	22	86	13	63	50	19	30	0	1.48
3102658--3102805	51	3.0	51	84	4	169	43	16	33	6	1.74
3102693--3102772	18	4.6	18	65	20	53	45	16	31	7	1.75
3102909--3102946	18	2.1	18	90	0	58	18	23	28	28	1.98
3103552--3103577	2	13.0	2	100	0	52	50	0	0	50	1.00
3104484--3104550	30	2.2	30	83	0	89	34	23	28	13	1.93
3109692--3109761	30	2.2	32	95	5	126	30	18	11	40	1.86
3109748--3110149	194	2.1	194	89	0	608	41	11	13	32	1.82
3110327--3110369	14	3.0	13	90	10	50	37	0	0	62	0.95
3113456--3113583	55	2.3	55	90	0	202	28	17	22	30	1.97
3114164--3114211	21	2.3	21	88	0	69	22	10	29	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3114210--3114254	23	2.0	23	95	0	81	28	28	13	28	1.94
3114216--3114281	23	2.9	23	86	6	82	24	25	19	30	1.98
3114274--3114318	21	2.1	22	84	12	58	26	13	26	33	1.93
3120284--3120339	21	2.7	21	97	0	103	26	16	25	32	1.96
3121749--3121789	16	2.5	16	96	4	73	39	17	24	19	1.92
3130809--3130878	12	5.8	12	71	6	52	50	18	12	18	1.78
3130807--3130915	24	4.5	24	79	2	103	48	16	13	21	1.80
3136688--3136727	17	2.4	17	86	0	62	37	2	5	55	1.35
3136777--3136811	17	2.1	17	88	0	52	37	34	14	14	1.86
3137388--3137438	20	2.6	20	87	3	68	27	27	33	11	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23