genome.fa.s8128.2.7.7.80.10.50.1000.13.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

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

This is table  13  of  20  ( 2387 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)
2966561--2966711	76	2.0	77	86	7	215	28	0	11	59	1.36
2966635--2966755	63	1.9	63	91	6	201	29	0	14	55	1.40
2967332--2967384	17	3.1	17	80	2	61	18	5	1	73	1.12
2970852--2971125	58	4.7	58	85	4	365	42	12	8	36	1.73
2974050--2974470	123	3.4	123	88	1	641	40	15	18	25	1.89
2974324--2974605	142	2.0	142	94	0	492	40	16	19	23	1.91
2974444--2974489	19	2.4	19	96	0	83	50	13	23	13	1.76
2974463--2975262	123	6.5	123	87	1	1102	39	16	19	25	1.91
2974050--2975262	246	4.9	246	84	5	1540	39	15	18	25	1.91
2974050--2975263	369	3.2	369	85	6	1643	39	15	18	25	1.91
2975617--2975695	3	26.7	3	76	2	70	41	1	1	55	1.16
2975619--2975658	20	2.0	20	90	0	62	35	2	2	60	1.24
2977006--2977064	30	2.0	30	83	12	77	35	10	1	52	1.45
2978633--2978680	22	2.2	22	81	7	53	50	2	2	45	1.25
2979483--2979515	6	5.5	6	96	0	57	30	54	15	0	1.41
2980095--2980163	19	3.5	19	77	13	68	40	20	20	18	1.92
2980099--2980184	40	2.1	42	86	4	122	38	22	19	19	1.94
2986915--2987088	90	2.0	89	91	2	287	44	7	10	37	1.67
2988316--2988364	18	2.6	19	83	6	64	24	20	24	30	1.98
2999165--2999220	29	2.0	28	82	10	69	28	17	8	44	1.79
3002594--3002626	14	2.5	13	90	9	50	15	0	0	84	0.61
3003553--3003627	39	1.9	39	97	0	141	46	20	6	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3003566--3003629	18	3.4	18	71	12	65	46	17	6	29	1.72
3003747--3003799	19	2.8	19	85	2	63	33	16	3	45	1.66
3009512--3009844	81	4.1	81	89	3	490	30	21	10	36	1.88
3016324--3016656	81	4.1	81	88	3	492	30	22	10	36	1.88
3018853--3018941	44	2.0	45	91	2	144	35	15	3	44	1.63
3018937--3018996	13	4.7	13	79	4	68	23	25	0	51	1.48
3018937--3019016	25	3.0	26	83	10	92	23	25	1	50	1.57
3020386--3020419	17	1.9	18	88	5	52	47	17	5	29	1.71
3021104--3021173	30	2.3	31	82	7	90	35	24	4	35	1.75
3022915--3023469	289	2.0	279	92	4	923	41	14	12	31	1.84
3027510--3027534	13	1.9	13	100	0	50	40	16	8	36	1.77
3037276--3037357	36	2.3	36	100	0	164	37	15	26	19	1.92
3041761--3041796	18	2.0	18	100	0	72	27	33	5	33	1.80
3047485--3047519	16	2.2	16	90	10	54	82	2	5	8	0.91
3050790--3050824	16	2.2	16	90	10	54	82	2	5	8	0.91
3052479--3052513	16	2.2	16	90	10	54	82	2	5	8	0.91
3053918--3053951	6	5.7	6	100	0	68	70	0	0	29	0.87
3055864--3055898	16	2.2	16	90	10	54	82	2	5	8	0.91
3057365--3057410	21	2.2	21	100	0	92	54	17	0	28	1.43
3060700--3060726	6	4.5	6	100	0	54	70	0	0	29	0.88
3062387--3062419	6	5.5	6	96	0	57	66	0	3	30	1.06
3062453--3062498	21	2.2	21	100	0	92	54	17	0	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3069823--3069860	20	1.9	20	88	0	58	23	34	31	10	1.89
3070453--3070521	23	3.0	23	79	8	86	21	26	24	27	1.99
3070987--3071017	2	15.5	2	100	0	62	0	0	48	51	1.00
3076650--3076687	20	1.9	20	88	0	58	23	34	31	10	1.89
3077281--3077348	23	3.0	23	88	0	91	22	27	25	25	1.99
3077792--3077824	2	16.5	2	93	0	57	48	3	0	48	1.17
3084687--3084849	53	3.1	53	97	0	299	33	19	17	28	1.95
3092175--3092733	218	2.5	221	84	3	723	30	13	22	33	1.93
3092203--3092733	111	4.8	110	87	2	701	30	13	22	32	1.93
3100758--3100799	21	2.0	21	95	0	75	35	14	21	28	1.92
3101688--3101735	23	2.1	22	85	11	62	12	22	4	60	1.49
3104460--3104489	15	2.0	15	100	0	60	46	33	6	13	1.69
3106502--3106578	36	2.1	36	85	7	102	48	1	3	46	1.28
3106554--3106601	18	2.7	18	80	9	62	54	4	0	41	1.20
3108385--3108421	3	12.3	3	100	0	74	64	0	0	35	0.94
3109274--3109485	106	2.0	106	100	0	424	46	8	13	32	1.73
3112266--3112356	3	30.7	3	86	2	130	61	0	3	35	1.12
3115693--3115729	18	2.0	19	89	5	58	51	32	10	5	1.60
3115694--3115757	18	3.6	18	71	23	53	53	26	12	7	1.66
3115705--3115761	19	3.1	19	71	19	57	50	26	14	8	1.71
3117424--3117483	25	2.4	25	94	0	102	41	21	23	13	1.88
3124570--3124628	27	2.3	26	77	11	68	23	15	15	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127465--3127614	76	2.0	76	90	2	239	30	14	16	39	1.88
3127465--3127593	38	3.4	38	97	1	240	28	14	17	38	1.90
3127713--3127751	17	2.2	18	86	4	53	41	2	0	56	1.13
3127765--3127936	94	1.8	94	92	0	290	37	16	23	22	1.94
3128644--3129077	231	1.9	231	89	0	672	31	7	25	35	1.83
3131991--3132234	39	6.5	38	82	8	281	44	2	6	46	1.44
3131990--3132234	75	3.3	73	82	8	289	44	2	6	46	1.44
3132198--3132285	31	2.9	30	90	6	133	44	2	4	48	1.35
3132356--3132406	3	17.0	3	86	8	68	29	1	0	68	1.00
3132351--3132416	16	4.3	15	79	11	62	25	3	0	71	1.01
3142123--3142194	21	3.5	20	76	17	76	31	22	19	26	1.97
3147553--3147578	2	13.0	2	100	0	52	50	0	0	50	1.00
3157221--3157261	19	2.2	19	86	0	55	0	9	14	75	1.04
3157228--3157277	11	4.6	11	77	22	52	0	12	12	76	1.04
3157246--3157276	13	2.5	12	90	10	53	0	16	6	77	0.97
3161082--3161142	16	3.9	16	72	6	54	40	6	1	50	1.38
3166939--3167139	45	4.5	45	90	2	309	39	7	21	30	1.82
3169080--3169242	70	2.3	72	81	9	219	44	9	6	39	1.62
3178317--3178396	22	3.7	21	74	11	63	25	26	27	21	1.99
3186393--3186430	20	1.9	20	88	0	58	36	23	28	10	1.88
3188305--3188374	34	2.1	34	83	5	88	38	8	10	42	1.69
3188921--3188965	19	2.2	20	88	7	65	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191604--3191655	26	2.0	26	100	0	104	26	11	23	38	1.89
3197266--3197293	5	5.6	5	100	0	56	39	0	21	39	1.54
3201914--3202002	46	1.9	46	86	4	126	21	21	14	42	1.88
3201925--3202320	20	17.7	20	67	21	157	21	24	12	41	1.87
3201925--3202272	66	5.2	66	74	13	298	21	24	12	41	1.87
3201991--3202208	46	4.7	46	87	2	303	19	26	11	42	1.86
3201913--3202114	112	1.8	112	84	4	282	22	23	12	41	1.88
3202109--3202186	26	3.2	25	67	20	67	17	20	12	48	1.80
3202083--3202320	112	2.1	112	90	1	370	21	24	11	42	1.85
3201918--3202350	158	2.7	158	83	4	484	21	23	12	42	1.86
3202197--3202353	46	3.4	46	91	1	253	22	22	10	43	1.84
3202175--3202353	92	2.0	89	86	8	249	21	24	10	43	1.84
3201913--3202352	204	2.2	204	88	0	648	21	23	12	42	1.86
3209087--3209157	20	3.2	20	71	21	61	22	21	12	43	1.86
3209063--3209183	46	2.6	46	89	0	188	21	19	15	43	1.87
3209095--3209390	72	4.2	71	74	15	290	20	22	12	44	1.84
3209063--3209298	118	2.0	118	89	1	357	20	21	13	44	1.86
3209167--3209397	46	5.0	46	89	2	347	20	23	11	44	1.84
3209195--3209364	20	7.6	20	69	21	97	20	25	10	43	1.84
3213797--3213835	21	1.9	20	89	5	60	28	10	20	41	1.85
3218756--3218789	10	3.3	10	87	4	50	55	0	2	41	1.15
3220628--3220659	10	3.4	10	87	12	50	56	12	9	21	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3222029--3222081	18	2.8	18	80	5	61	77	3	13	5	1.09
3230552--3230667	58	2.0	58	98	0	223	38	8	12	39	1.75
3235571--3235604	2	17.0	2	87	0	50	50	0	5	44	1.26
3236112--3236404	93	3.2	93	91	0	478	35	22	9	32	1.87
3236163--3236402	49	5.1	49	60	18	123	35	21	10	33	1.87
3242953--3242985	17	1.9	17	88	11	50	39	12	0	48	1.40
3245434--3245487	22	2.7	20	76	18	58	33	11	22	33	1.89
3245381--3245558	95	1.9	96	85	3	252	35	11	24	28	1.90
3245383--3245581	96	2.1	95	83	6	242	37	11	23	28	1.89
3245939--3246266	54	6.1	54	86	2	248	36	19	18	25	1.94

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