genome.fa.s8001.2.7.7.80.10.50.1000.14.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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  ( 2081 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)
2919140--2919198	31	1.9	31	89	0	91	40	10	8	40	1.69
2924568--2924613	21	2.1	21	88	4	65	36	0	30	32	1.58
2925495--2925588	48	2.0	48	86	0	134	32	25	19	22	1.97
2925855--2925896	16	2.7	16	82	17	61	38	0	7	54	1.28
2927095--2927122	10	2.8	10	100	0	56	75	0	7	17	1.03
2928110--2928156	11	4.4	10	84	12	58	74	0	0	25	0.82
2928128--2928194	3	21.3	3	81	6	71	62	0	5	31	1.19
2938212--2938268	12	5.0	12	77	12	66	22	43	1	31	1.64
2938216--2938290	33	2.3	33	88	4	107	22	40	4	33	1.73
2945996--2946048	3	17.7	3	100	0	106	32	0	0	67	0.91
2947887--2947917	16	2.0	15	93	6	53	45	0	0	54	0.99
2948787--2949068	146	1.9	146	84	4	379	26	17	7	48	1.74
2951795--2951825	16	1.9	16	100	0	62	45	6	0	48	1.28
2951824--2951863	19	2.1	19	90	0	62	35	22	5	37	1.76
2952058--2952127	20	3.5	20	77	16	65	41	21	14	22	1.89
2952148--2952257	57	1.9	57	92	0	184	27	16	20	36	1.93
2952229--2952274	20	2.3	20	84	0	65	26	15	23	34	1.94
2952173--2952566	77	5.1	77	95	0	707	26	15	22	35	1.94
2952306--2952354	20	2.5	20	89	0	80	24	16	26	32	1.96
2952383--2952428	20	2.3	20	80	0	56	23	15	28	32	1.95
2952460--2952508	20	2.5	20	89	0	80	24	16	26	32	1.96
2952481--2952623	57	2.5	57	87	1	187	26	17	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2954214--2954294	40	2.0	40	95	0	144	46	13	3	35	1.61
2961436--2961509	23	3.2	23	90	0	121	35	10	10	43	1.75
2977203--2977251	22	2.3	22	85	3	64	6	24	30	38	1.80
2980551--2980995	229	1.9	228	94	0	791	44	8	7	39	1.63
2981050--2981108	20	3.0	19	79	16	66	52	15	15	16	1.75
2981231--2981277	20	2.4	19	89	10	76	55	10	17	17	1.69
2981235--2981282	20	2.6	18	84	15	62	56	10	14	18	1.66
2982109--2982636	184	2.9	184	96	0	948	35	14	16	33	1.89
2983133--2983197	25	2.6	25	80	0	85	35	9	13	41	1.77
2983483--2983546	23	2.8	23	87	0	92	35	6	20	37	1.78
2983483--2983555	23	3.2	23	82	7	85	34	5	20	39	1.76
2983823--2983873	25	2.0	25	92	0	84	33	7	19	39	1.81
2984159--2984195	18	2.1	18	89	0	56	32	5	10	51	1.60
2984151--2984197	24	2.0	24	86	0	67	34	4	14	46	1.64
2984452--2984537	39	2.2	39	93	2	147	47	20	13	17	1.82
2984938--2985001	23	2.8	23	87	0	92	35	6	20	37	1.78
2984938--2985010	23	3.2	23	82	7	85	34	5	20	39	1.76
2991493--2991545	26	2.0	26	92	7	90	30	1	11	56	1.45
2993480--2993542	21	2.9	22	79	15	78	63	6	1	28	1.28
2994861--2994909	22	2.3	22	89	3	73	44	30	18	6	1.74
2994861--2994918	21	2.8	21	84	7	73	46	31	15	6	1.72
2995192--2995221	15	2.1	14	93	6	51	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2996526--2996558	2	16.5	2	100	0	66	0	51	0	48	1.00
2997110--2997255	59	2.5	60	79	4	170	36	15	13	34	1.86
2997172--2997299	60	2.1	61	80	5	136	43	15	7	33	1.74
2999767--2999855	44	2.0	44	91	0	142	40	17	25	15	1.90
3000331--3000531	99	2.0	99	90	1	314	29	17	14	37	1.90
3004785--3004893	55	2.0	55	96	0	200	35	17	19	27	1.94
3012176--3012214	15	2.5	16	87	4	53	48	0	0	51	1.00
3014663--3014780	42	2.8	43	82	7	150	39	25	10	24	1.86
3015624--3015701	35	2.2	34	82	8	95	42	20	1	35	1.61
3016765--3016877	35	3.2	35	85	5	147	34	1	21	42	1.63
3030870--3030909	20	1.9	20	85	10	53	37	22	7	32	1.82
3030997--3031034	20	1.9	20	88	0	58	42	21	18	18	1.90
3034101--3034155	24	2.3	24	93	0	92	12	20	38	29	1.89
3036412--3036445	14	2.4	14	90	5	50	50	0	14	35	1.44
3036607--3036728	44	2.8	44	92	2	192	19	17	30	32	1.95
3036637--3036712	26	3.2	25	65	27	67	22	15	27	34	1.95
3036651--3036728	18	3.9	18	70	23	66	17	19	32	30	1.95
3037126--3037173	20	2.4	20	89	0	78	66	0	31	2	1.03
3039587--3039613	14	1.9	14	100	0	54	44	3	7	44	1.49
3043480--3043517	16	2.5	15	84	12	51	65	0	5	28	1.14
3043673--3043783	21	5.6	20	80	9	95	32	9	20	36	1.86
3043693--3043806	21	5.7	19	80	6	75	30	11	21	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3043673--3043964	20	14.6	21	75	14	151	24	13	23	38	1.91
3043774--3043964	20	9.6	20	77	12	164	19	15	25	39	1.91
3043732--3043964	60	3.9	60	77	12	185	21	14	24	39	1.91
3050986--3051025	21	1.9	21	100	0	80	42	15	17	25	1.88
3051298--3051340	20	2.2	20	86	0	59	34	13	18	32	1.90
3053838--3053875	16	2.5	15	84	12	51	65	0	5	28	1.14
3054031--3054141	21	5.6	20	80	9	95	32	9	20	36	1.86
3054051--3054164	21	5.7	19	80	6	75	30	11	21	35	1.89
3054031--3054322	20	14.6	21	75	14	151	24	13	23	38	1.91
3054132--3054322	20	9.6	20	77	12	164	19	15	25	39	1.91
3054090--3054322	60	3.9	60	77	12	185	21	14	24	39	1.91
3061344--3061383	21	1.9	21	100	0	80	42	15	17	25	1.88
3061656--3061698	20	2.2	20	86	0	59	34	13	18	32	1.90
3063964--3064007	20	2.2	20	84	8	54	22	34	11	31	1.90
3063975--3064017	20	2.2	20	83	8	52	23	27	16	32	1.96
3065183--3065226	20	2.2	20	84	8	54	22	34	11	31	1.90
3065194--3065236	20	2.2	20	83	8	52	23	27	16	32	1.96
3068896--3068939	21	2.1	21	100	0	88	29	27	0	43	1.55
3070922--3070958	13	2.8	14	88	12	60	43	0	0	56	0.99
3071461--3071501	22	2.0	20	85	9	55	68	9	21	0	1.18
3085326--3085634	135	2.3	129	82	8	354	27	29	18	24	1.98
3085557--3085660	40	2.5	40	78	4	109	25	31	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3085838--3085875	13	2.9	13	84	7	51	36	2	0	60	1.11
3085840--3085869	10	3.0	10	95	0	51	40	3	0	56	1.16
3086377--3086417	22	2.0	20	85	9	55	68	9	21	0	1.18
3090621--3090691	36	2.0	35	94	2	124	46	15	5	32	1.69
3090630--3090690	21	3.2	21	63	26	53	47	14	4	32	1.66
3100967--3101173	42	4.9	41	82	8	220	32	23	25	19	1.97
3100967--3101176	85	2.5	84	85	8	266	32	22	24	19	1.97
3102101--3102176	29	2.6	29	87	0	107	47	23	3	25	1.69
3108271--3108430	42	3.8	42	79	8	128	34	23	23	19	1.97
3108310--3108476	42	4.0	42	87	1	212	32	22	22	21	1.98
3108310--3108479	84	2.0	83	87	6	245	33	22	22	21	1.97
3109414--3109595	29	6.4	29	69	11	97	46	15	3	34	1.62
3109442--3109600	84	1.9	84	81	2	194	47	15	2	34	1.59
3109622--3109662	17	2.3	18	91	4	66	21	21	39	17	1.93
3112522--3112566	15	2.9	15	93	3	72	51	0	0	48	1.00
3113056--3113135	35	2.3	35	86	4	117	41	25	0	33	1.56
3113056--3113151	35	2.7	35	83	0	102	40	29	0	30	1.57
3113634--3113922	149	1.9	148	92	2	481	47	9	6	37	1.62
3114094--3114173	35	2.3	35	89	4	117	35	0	21	43	1.53
3115993--3116044	24	2.1	26	82	7	63	19	13	15	51	1.75
3122074--3122151	31	2.5	31	85	0	102	26	25	11	35	1.90
3122187--3122259	29	2.6	29	93	2	121	27	6	30	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122187--3122274	29	3.1	29	86	4	81	30	6	27	35	1.83
3123435--3123512	31	2.5	31	89	0	120	34	14	25	25	1.94
3124794--3124835	13	2.9	14	86	13	59	50	2	7	40	1.43
3127280--3127308	2	14.5	2	100	0	58	48	0	51	0	1.00
3128924--3128956	15	2.1	16	88	5	50	75	3	3	18	1.06
3130935--3131141	75	2.8	75	85	4	258	23	30	23	21	1.99
3136958--3136997	21	1.9	21	89	0	62	25	40	25	10	1.86
3139598--3139808	75	2.8	75	84	5	239	26	31	22	20	1.98
3141148--3141187	5	8.0	5	85	0	53	72	2	2	22	1.09
3144148--3144190	18	2.4	18	88	0	59	69	0	6	23	1.12

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