genome.fa.s8041.2.7.7.80.10.50.1000.13.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

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

This is table  13  of  21  ( 2430 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)
2861911--2862184	44	6.4	44	80	10	318	41	10	21	25	1.85
2865010--2865052	13	3.2	13	90	3	59	27	18	20	32	1.96
2873056--2873121	23	3.0	21	70	12	60	24	19	6	50	1.70
2872985--2873275	45	6.4	45	85	4	343	26	17	7	48	1.73
2872995--2873256	135	1.9	137	87	1	384	26	17	6	48	1.72
2873294--2873832	68	7.9	68	90	0	826	30	25	13	30	1.94
2874199--2874655	59	7.8	59	90	1	679	31	22	13	32	1.92
2874199--2874655	233	1.9	234	88	2	693	31	22	13	32	1.92
2875114--2875150	18	2.1	18	89	0	56	27	21	13	37	1.91
2875001--2875199	94	2.1	95	89	2	303	25	22	16	36	1.94
2880959--2880983	12	2.1	12	100	0	50	56	16	0	28	1.41
2881819--2881868	26	1.9	26	91	0	82	36	24	8	32	1.84
2884494--2884562	19	3.6	19	96	0	120	31	11	26	30	1.91
2884494--2884571	38	2.0	39	90	2	122	32	10	25	32	1.89
2884908--2884954	18	2.6	18	82	0	67	31	46	10	10	1.73
2885798--2885882	32	2.7	30	74	13	82	12	29	29	28	1.94
2894377--2894417	19	2.2	19	100	0	82	26	12	14	46	1.80
2896588--2896657	26	2.7	25	77	12	70	52	1	1	44	1.18
2896920--2896956	15	2.4	16	82	13	51	64	0	0	35	0.94
2898277--2898345	3	23.3	3	74	14	63	59	0	0	40	0.97
2898266--2898345	21	3.9	22	80	16	93	57	0	0	42	0.98
2898521--2899127	75	8.0	76	96	1	1123	34	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2898522--2899126	151	4.0	151	97	0	1149	34	23	20	21	1.96
2899069--2899161	47	2.0	47	97	0	177	30	22	23	23	1.99
2900004--2900058	22	2.5	22	93	0	101	40	14	10	34	1.81
2900425--2900582	54	3.0	54	78	6	173	27	21	14	36	1.92
2901636--2901702	35	1.9	35	85	11	93	32	22	11	32	1.90
2902664--2903060	110	3.6	110	92	3	659	31	19	15	34	1.93
2902614--2903060	225	2.0	224	92	0	741	30	19	15	34	1.93
2905114--2905166	26	2.1	26	92	3	90	5	15	11	67	1.38
2907999--2908038	21	1.9	21	94	0	53	55	10	12	22	1.67
2910967--2911022	16	3.2	16	71	28	51	67	1	3	26	1.16
2912307--2912387	25	2.9	29	77	19	91	55	0	0	44	0.99
2912361--2912385	13	1.9	13	100	0	50	48	0	0	52	1.00
2912318--2912370	3	18.3	3	81	14	67	60	0	0	39	0.97
2913407--2913487	37	2.2	38	78	13	87	49	4	1	44	1.32
2922337--2922456	31	3.9	31	73	10	93	15	25	30	29	1.96
2932816--2932864	23	2.0	24	88	7	73	46	8	0	44	1.33
2936431--2936573	65	2.2	64	80	9	166	29	23	16	30	1.97
2943775--2943805	2	15.5	2	93	0	53	48	0	0	51	1.00
2943962--2943991	13	2.3	13	94	0	51	33	6	20	40	1.78
2953546--2953586	20	2.0	21	90	9	68	34	21	14	29	1.93
2957119--2957161	21	2.0	21	90	0	68	41	11	20	25	1.86
2985478--2985531	17	3.2	17	97	0	99	25	31	16	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2985506--2985585	23	3.5	22	72	6	61	30	27	17	25	1.97
2988133--2988202	7	10.3	7	89	3	99	48	35	0	15	1.46
2988133--2988199	20	3.3	19	86	12	89	49	35	0	14	1.44
2988280--2988309	14	2.1	14	93	0	51	43	0	6	50	1.28
2989709--2989739	16	2.0	15	93	6	53	45	12	9	32	1.75
2995984--2996040	22	2.6	22	94	0	96	28	24	14	33	1.94
2996015--2996748	81	9.1	81	89	1	1071	31	21	10	36	1.88
2996876--2996992	55	2.2	53	83	6	153	36	16	8	38	1.79
3000193--3000363	90	1.9	92	88	3	265	38	10	7	43	1.68
3003505--3003916	81	5.1	80	87	2	540	31	21	11	36	1.88
3004504--3004562	22	2.7	22	94	0	100	32	18	15	33	1.92
3009233--3009805	81	7.1	81	87	0	799	31	21	10	36	1.87
3009233--3009805	161	3.5	162	87	0	799	31	21	10	36	1.87
3009287--3009805	242	2.1	242	90	0	815	32	21	10	36	1.86
3010492--3010546	21	2.6	21	97	0	101	30	23	10	34	1.89
3015071--3015650	81	7.1	81	87	0	784	30	20	10	38	1.86
3019219--3019335	39	3.1	37	72	19	96	53	9	35	0	1.39
3021244--3021322	4	19.8	4	89	0	95	44	2	0	53	1.14
3021244--3021322	6	13.2	6	83	0	95	44	2	0	53	1.14
3021244--3021322	10	7.9	10	85	0	95	44	2	0	53	1.14
3021411--3021604	85	2.3	85	94	0	352	30	16	21	31	1.95
3021411--3021637	85	2.7	85	88	2	287	32	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3021627--3021660	13	2.6	13	95	0	59	29	20	23	26	1.99
3023263--3023319	24	2.3	25	82	11	73	36	21	21	21	1.95
3027372--3027397	13	2.0	13	100	0	52	38	30	7	23	1.83
3032592--3033160	54	10.5	54	90	1	775	29	19	17	33	1.95
3034275--3034496	36	6.3	36	79	5	231	47	11	13	27	1.77
3034297--3034508	70	3.0	70	79	6	232	47	12	13	27	1.78
3034331--3034393	17	3.7	16	75	12	54	50	9	15	23	1.73
3034342--3034430	17	5.1	17	67	15	65	46	14	16	22	1.84
3036191--3036224	11	3.0	11	91	8	59	52	26	0	20	1.46
3038423--3038462	21	1.9	21	89	0	62	10	25	40	25	1.86
3042311--3042350	21	1.9	21	85	10	55	35	10	2	52	1.48
3044929--3044954	3	8.7	3	100	0	52	65	0	0	34	0.93
3064605--3064637	15	2.1	17	88	11	52	24	15	6	54	1.63
3078090--3078579	244	2.0	244	100	0	980	24	20	21	33	1.97
3079579--3079615	15	2.6	14	91	8	65	67	0	5	27	1.12
3079581--3079613	15	2.2	15	100	0	66	69	0	6	24	1.10
3079792--3079835	2	22.0	2	81	9	54	47	0	6	45	1.29
3088772--3089260	49	10.0	47	80	6	358	35	14	20	30	1.92
3088795--3089260	147	3.2	144	83	2	511	34	14	20	30	1.93
3088810--3089260	98	4.6	98	84	3	536	35	14	20	29	1.92
3090168--3090192	12	2.1	12	100	0	50	24	8	8	60	1.52
3093637--3093762	47	2.8	45	83	5	155	40	7	23	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095100--3095182	3	28.0	3	84	7	107	63	2	31	2	1.20
3101473--3101631	64	2.5	62	78	8	160	28	15	25	30	1.96
3101578--3101628	19	2.7	19	85	8	70	25	15	35	23	1.94
3101642--3101681	21	1.9	21	89	0	62	22	12	30	35	1.91
3104215--3104294	24	3.5	23	74	20	87	28	23	25	22	1.99
3110062--3110110	19	2.7	17	84	9	53	26	18	30	24	1.98
3110079--3110185	45	2.4	46	82	7	139	30	14	23	30	1.95
3110169--3110219	19	2.7	19	85	8	70	25	15	35	23	1.94
3110127--3110271	64	2.2	66	82	10	174	26	16	24	32	1.96
3110233--3110272	21	1.9	21	100	0	80	25	15	27	32	1.95
3113746--3113962	115	1.9	115	91	0	353	34	21	5	39	1.75
3114515--3114582	27	2.5	27	90	0	109	48	20	10	20	1.78
3115746--3115837	47	2.0	47	88	0	139	19	16	6	57	1.60
3116277--3116386	41	2.7	41	88	1	157	21	15	15	47	1.82
3116581--3116616	17	2.1	17	94	0	63	50	0	0	50	1.00
3116737--3116781	23	2.0	23	81	0	54	51	2	2	44	1.26
3116889--3116944	20	2.7	21	97	2	105	55	0	0	44	0.99
3116894--3116968	37	2.0	39	84	10	102	50	0	2	46	1.15
3117134--3117206	30	2.5	30	93	2	121	31	19	8	41	1.81
3117134--3117206	15	4.9	15	77	3	85	31	19	8	41	1.81
3129654--3130160	252	2.0	252	92	0	852	35	16	22	25	1.94
3130680--3130814	42	3.2	42	88	0	189	45	12	22	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3141732--3141804	18	4.0	18	92	1	119	52	5	10	31	1.59
3141830--3142308	250	2.0	238	93	6	809	39	16	8	35	1.79
3150342--3150377	18	2.0	18	94	0	63	52	5	11	30	1.59
3154617--3154651	4	8.5	4	90	3	52	71	2	2	22	1.13
3159034--3159068	17	2.0	18	88	5	54	28	5	11	54	1.59
3159259--3159303	2	22.5	2	90	0	63	0	6	48	44	1.29
3159259--3159302	12	3.7	12	90	0	70	0	6	50	43	1.29
3159757--3159830	38	1.9	38	91	0	121	37	12	13	36	1.82
3171980--3172294	157	2.0	159	95	3	577	20	12	41	25	1.87
3174532--3174566	18	2.0	18	94	5	63	60	17	5	17	1.55

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