genome.fa.s8124.2.7.7.80.10.50.1000.17.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

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

This is table  17  of  19  ( 2165 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)
2941501--2941617	20	5.7	20	75	12	78	38	23	17	20	1.93
2941585--2941794	20	10.5	20	83	5	228	36	25	18	20	1.95
2942469--2942514	24	1.9	24	86	8	67	26	15	21	36	1.93
2944769--2944946	68	2.7	65	90	8	302	44	19	21	14	1.86
2944783--2945068	33	8.2	34	76	15	221	45	18	21	14	1.84
2944783--2945172	19	22.4	19	74	22	367	45	17	22	14	1.84
2944783--2945194	105	4.0	104	88	7	522	45	17	22	14	1.84
2944937--2945194	33	7.5	33	82	14	308	45	17	23	13	1.84
2945061--2945115	14	3.6	14	73	21	56	45	20	23	10	1.82
2944783--2945194	52	7.9	52	83	9	522	45	17	22	14	1.84
2945219--2945297	19	4.4	19	80	16	105	13	22	17	45	1.84
2945404--2945439	13	2.6	14	86	4	56	47	22	0	30	1.52
2947346--2947411	19	3.4	20	83	6	82	45	25	16	12	1.82
2947362--2947480	19	6.8	19	76	18	123	47	21	20	10	1.81
2947402--2947458	14	3.7	14	77	20	60	45	22	21	10	1.82
2947383--2947475	33	2.8	33	95	0	168	47	21	20	10	1.80
2947346--2947480	52	2.5	54	76	18	140	45	22	19	11	1.83
2947476--2947604	19	7.3	19	75	17	125	8	17	28	45	1.77
2947476--2947567	33	2.8	33	93	3	150	7	18	28	45	1.76
2947652--2948025	92	4.1	93	98	1	718	45	19	12	21	1.83
2949704--2949791	14	5.7	14	73	19	77	44	23	23	7	1.80
2949749--2949804	19	3.2	19	71	23	68	46	21	21	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2949696--2949804	33	3.4	33	92	5	195	46	21	22	9	1.79
2949825--2949880	14	3.7	14	73	17	58	8	25	23	42	1.82
2949809--2949888	32	2.5	33	93	2	135	8	22	22	46	1.79
2949864--2949941	41	1.9	41	97	0	147	12	25	16	44	1.83
2949865--2949940	21	3.7	21	83	3	109	11	25	17	46	1.82
2950019--2950089	33	2.2	33	89	0	106	49	18	21	11	1.78
2950267--2950321	22	2.5	22	81	0	74	20	16	40	23	1.91
2950468--2950662	20	9.6	20	81	6	214	18	19	25	35	1.95
2950468--2950662	60	3.2	60	82	1	246	18	19	25	35	1.95
2950649--2950731	21	4.0	21	71	6	69	25	15	24	34	1.95
2958911--2958960	15	3.5	15	83	5	68	20	18	32	30	1.96
2962061--2962108	21	2.2	22	77	11	53	50	6	0	43	1.27
2962029--2962199	68	2.6	68	82	12	187	43	9	1	45	1.43
2962071--2962232	23	6.9	23	76	13	143	42	9	1	46	1.43
2962139--2962262	53	2.4	53	94	2	216	43	8	1	45	1.44
2962217--2962324	41	2.8	39	79	13	109	44	3	0	50	1.25
2962247--2962319	8	8.7	9	71	18	50	42	2	0	54	1.14
2962286--2962319	13	2.4	15	90	9	54	44	2	0	52	1.16
2962900--2962932	16	2.1	16	94	0	57	39	15	18	27	1.90
2964110--2964161	21	2.3	23	87	6	72	36	9	0	53	1.34
2964708--2964846	64	2.2	64	85	2	190	25	17	28	27	1.98
2965894--2965920	13	2.1	13	100	0	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2966470--2966514	23	1.9	24	95	4	83	51	4	2	42	1.34
2966602--2966660	21	2.8	21	71	0	55	52	25	0	22	1.47
2967027--2967063	15	2.4	15	95	4	65	51	5	2	40	1.39
2965928--2967828	548	3.5	548	92	3	3062	43	12	8	35	1.74
2967576--2967605	13	2.3	13	100	0	60	53	6	0	40	1.27
2967686--2967750	14	4.7	14	76	3	69	49	24	0	26	1.51
2967693--2967745	27	1.9	28	84	3	72	50	22	0	26	1.49
2968150--2968190	16	2.6	16	96	0	73	39	14	9	36	1.79
2968192--2968242	16	3.2	16	88	0	75	45	13	19	21	1.85
2971601--2971680	28	2.9	28	81	9	110	47	21	0	31	1.51
2971961--2972234	135	2.0	135	97	2	523	31	9	8	49	1.66
2978239--2978297	29	2.0	29	96	0	109	25	13	13	47	1.79
2982869--2982938	29	2.4	29	86	9	81	30	14	8	47	1.74
2982882--2982940	29	2.0	29	93	6	102	23	13	10	52	1.71
2986393--2986504	3	36.7	3	87	3	161	36	0	0	62	1.02
2987887--2987957	18	4.0	17	70	12	54	33	0	2	63	1.09
2987901--2987973	18	4.0	18	77	11	60	34	0	1	64	1.02
2994552--2994793	86	2.8	89	87	5	343	27	15	22	34	1.94
2997824--2997907	31	2.8	31	94	3	145	21	19	23	35	1.96
2997855--2998184	76	4.2	76	88	9	507	23	20	20	35	1.96
2998006--2998177	88	2.0	88	96	0	317	24	19	20	35	1.96
2998126--2998239	45	2.5	45	88	2	174	21	22	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998171--2998837	76	8.8	76	96	0	1201	22	20	21	35	1.96
2998171--2998837	227	2.9	229	96	0	1203	22	20	21	35	1.96
2998171--2998837	153	4.4	152	96	0	1201	22	20	21	35	1.96
2998966--2999068	3	33.7	3	86	3	143	36	0	0	62	1.02
3000464--3000522	18	3.3	18	75	13	59	35	0	1	62	1.05
3000475--3000537	24	2.6	24	75	12	58	36	0	1	61	1.05
3000650--3000683	16	2.1	17	89	10	54	29	5	0	64	1.17
3005190--3005229	17	2.4	17	86	0	53	57	7	2	32	1.40
3013278--3013317	21	1.9	21	89	0	62	10	25	40	25	1.86
3013298--3013360	20	2.9	21	79	9	65	15	25	34	23	1.95
3017708--3017742	18	1.9	18	88	11	54	11	5	5	77	1.12
3018107--3018165	9	6.6	9	74	5	57	16	1	1	79	0.89
3018112--3018159	17	2.8	17	93	3	78	18	2	2	77	0.97
3024812--3024882	28	2.5	28	83	4	97	45	15	14	25	1.84
3025150--3025205	24	2.3	24	78	3	58	57	1	1	39	1.20
3025339--3025370	17	1.9	17	93	6	57	31	0	3	65	1.08
3030264--3030293	15	1.9	16	93	6	53	53	0	10	36	1.35
3031613--3032009	35	11.2	35	81	5	424	41	11	4	43	1.59
3031613--3032009	72	5.6	71	85	4	466	41	11	4	43	1.59
3031609--3032009	107	3.8	107	83	4	456	41	11	3	43	1.59
3032588--3032622	13	2.8	13	95	4	63	31	17	37	14	1.89
3032616--3032649	11	3.1	11	95	0	59	38	23	17	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3032649--3032728	22	3.4	22	73	18	79	33	18	38	8	1.82
3032677--3032842	28	5.6	28	78	13	188	33	19	35	10	1.87
3032651--3032876	61	4.1	51	76	21	213	34	19	35	10	1.86
3032671--3032861	61	3.1	61	96	0	346	34	20	34	10	1.87
3032875--3032983	29	3.8	29	95	2	184	14	31	32	22	1.94
3033033--3033106	37	2.0	37	97	2	141	16	45	13	24	1.83
3033111--3033145	18	1.9	18	100	0	70	28	17	25	28	1.97
3033235--3033279	23	2.0	23	100	0	90	48	4	35	11	1.59
3033283--3033341	21	2.9	21	92	2	93	61	0	37	1	1.07
3033476--3033564	41	2.2	41	78	8	92	42	1	10	46	1.45
3033545--3033636	46	2.0	48	87	8	136	42	0	11	45	1.41
3036010--3036052	14	3.2	13	80	9	50	48	4	4	41	1.44
3035992--3036042	17	3.2	17	75	16	63	43	9	5	41	1.62
3036030--3036336	26	12.4	25	74	16	198	45	9	1	42	1.48
3036027--3036104	11	6.5	12	73	15	54	50	5	1	43	1.32
3036065--3036313	98	2.5	98	96	1	464	44	10	2	43	1.49
3036146--3036394	124	2.0	124	96	1	464	43	10	2	44	1.51
3039218--3039276	26	2.3	24	78	16	64	40	3	8	47	1.51
3040083--3040136	27	2.0	27	92	3	92	55	12	0	31	1.38
3040113--3040161	21	2.3	21	85	3	71	53	16	0	30	1.43
3040652--3040709	25	2.3	25	79	5	64	24	43	15	17	1.87
3040767--3040846	29	2.8	29	98	0	151	16	30	33	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041447--3041700	56	4.5	56	97	0	481	25	13	18	41	1.88
3049433--3049533	2	50.5	2	100	0	202	49	0	0	50	1.00
3053268--3053323	15	3.7	15	92	0	85	57	12	21	8	1.62
3059400--3059622	85	2.6	84	85	5	281	32	17	20	29	1.96
3059518--3059575	28	2.0	29	83	6	73	31	15	17	36	1.91
3064898--3064922	3	8.3	3	100	0	50	68	0	0	32	0.90
3069303--3069372	20	3.5	20	100	0	140	38	20	10	31	1.85
3072588--3072615	2	14.0	2	100	0	56	50	0	0	50	1.00
3075254--3075296	22	2.0	22	85	0	59	51	2	2	44	1.27
3075697--3075761	29	2.2	29	78	13	69	43	3	1	52	1.26

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