genome.fa.s8245.2.7.7.80.10.50.1000.16.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  16  of  33  ( 3922 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)
3136095--3136155	29	2.1	29	84	0	77	44	6	22	26	1.77
3142791--3142826	18	1.9	19	88	5	56	22	8	16	52	1.70
3146171--3146361	83	2.3	82	82	8	217	34	16	15	34	1.90
3146365--3146617	82	3.1	82	66	11	237	32	18	16	32	1.94
3146315--3146706	164	2.4	165	88	2	565	33	18	15	32	1.92
3150052--3150093	21	2.0	21	81	9	50	4	28	0	66	1.12
3157160--3157201	3	14.0	3	100	0	84	33	0	0	66	0.92
3158625--3158694	29	2.5	26	82	17	79	25	7	7	60	1.49
3159607--3159654	18	2.6	17	81	12	51	75	2	2	20	1.02
3160277--3160339	19	3.2	19	75	4	54	55	12	0	31	1.37
3167551--3167598	18	2.6	18	81	15	62	72	2	2	22	1.05
3168186--3168313	65	2.0	65	86	6	179	54	13	0	31	1.44
3168197--3168332	65	2.1	65	78	8	143	56	13	0	29	1.42
3168599--3168907	131	2.4	131	86	0	411	31	11	16	40	1.84
3170537--3170606	19	3.7	19	85	11	83	25	27	30	17	1.97
3170569--3170627	20	2.9	21	85	9	70	30	25	27	16	1.97
3177731--3177780	7	7.3	7	88	4	75	24	26	30	20	1.98
3177802--3177860	9	6.1	9	79	14	64	30	28	28	11	1.92
3180058--3180119	23	2.7	23	94	0	106	37	14	12	35	1.85
3182313--3182351	14	2.8	14	88	7	53	25	12	28	33	1.93
3183394--3183470	37	2.1	37	85	4	102	48	1	3	46	1.28
3185490--3185518	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3185784--3186126	158	2.2	159	84	4	426	46	6	15	31	1.72
3186097--3186144	25	1.9	25	100	0	96	22	12	22	41	1.88
3186427--3186454	2	14.0	2	100	0	56	50	0	0	50	1.00
3186786--3186956	88	1.9	89	81	16	206	26	18	11	42	1.85
3193192--3193222	7	4.4	7	95	0	53	12	3	0	83	0.75
3193227--3193340	39	2.9	39	77	3	122	35	15	1	47	1.56
3193395--3193426	17	1.9	17	93	6	57	34	6	0	59	1.23
3194288--3194324	19	1.9	19	94	0	65	45	0	8	45	1.32
3194295--3194434	46	3.0	46	78	7	165	49	4	5	41	1.44
3194297--3194347	21	2.5	20	87	6	66	52	1	3	41	1.31
3194390--3194469	20	4.3	19	75	16	87	46	2	6	45	1.42
3194397--3194471	35	2.1	35	92	0	123	45	2	6	45	1.43
3194421--3194449	15	1.9	15	100	0	58	44	6	6	41	1.58
3194498--3194549	17	3.0	17	86	8	61	40	1	3	53	1.30
3194504--3194558	17	3.4	16	83	11	60	40	1	1	56	1.21
3196877--3196919	7	6.7	6	80	15	50	20	2	0	76	0.89
3196877--3196919	13	3.3	12	87	6	50	20	2	0	76	0.89
3201709--3201760	27	1.9	27	96	0	95	42	13	21	23	1.88
3203899--3203936	20	1.9	20	94	0	67	39	0	10	50	1.37
3203979--3204046	5	14.0	5	82	17	74	39	0	0	60	0.97
3203980--3204044	28	2.5	25	85	14	80	38	0	0	61	0.96
3203981--3204043	30	2.1	30	85	11	85	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3205227--3205267	15	2.9	14	82	10	57	24	0	0	75	0.80
3205336--3205361	12	2.2	12	100	0	52	38	7	0	53	1.30
3206141--3206201	31	2.0	31	86	0	86	39	4	14	40	1.68
3207978--3208025	17	2.8	17	93	0	78	33	14	22	29	1.94
3208561--3208661	33	3.5	27	82	16	130	45	33	7	12	1.72
3208554--3208656	28	3.3	32	78	13	133	44	34	7	12	1.71
3212075--3212161	38	2.5	34	85	9	113	31	8	18	42	1.79
3212178--3212473	102	3.0	100	75	11	286	38	13	18	29	1.89
3212390--3212557	86	2.0	86	87	2	248	40	14	18	26	1.89
3212454--3212506	21	2.5	21	96	0	97	43	18	18	18	1.88
3212300--3212673	188	2.0	188	95	0	667	41	13	17	27	1.87
3212476--3212659	102	1.8	102	84	2	253	41	13	17	26	1.87
3212599--3212724	65	1.9	65	82	3	155	41	11	17	29	1.85
3212691--3212771	37	2.2	36	88	2	117	40	11	19	28	1.86
3212475--3212808	167	2.0	167	89	0	506	40	12	17	29	1.86
3212957--3213278	106	3.0	105	88	0	437	23	18	23	34	1.96
3214835--3214972	69	2.0	69	87	2	197	23	15	21	38	1.92
3215025--3215093	27	2.6	27	76	15	72	4	17	4	73	1.15
3215044--3215094	13	3.7	14	84	10	70	1	17	3	76	1.03
3215043--3215096	28	2.0	26	92	7	90	3	16	3	75	1.08
3215063--3215101	17	2.2	18	86	4	53	2	17	5	74	1.12
3223840--3223888	25	2.0	25	87	0	71	63	2	6	28	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226432--3226480	24	2.0	24	88	0	71	28	26	22	22	1.99
3226634--3226718	15	5.7	15	87	0	116	44	21	2	31	1.65
3227188--3227237	21	2.5	20	80	9	57	34	24	10	32	1.88
3230264--3230675	81	5.1	81	88	1	540	36	11	21	31	1.89
3235674--3235750	24	3.2	24	96	0	136	36	2	28	32	1.71
3236516--3237089	81	7.1	81	90	0	844	34	11	21	32	1.90
3241366--3241419	24	2.2	24	93	0	90	29	25	24	20	1.99
3241427--3241495	23	3.0	23	84	0	93	34	24	20	20	1.96
3241598--3241667	15	4.7	15	83	0	86	44	20	4	31	1.70
3242152--3242266	21	5.6	21	73	15	98	31	20	9	38	1.85
3243939--3244105	54	3.1	54	92	0	271	31	18	17	32	1.95
3246357--3246404	21	2.3	21	77	0	51	43	2	6	47	1.40
3248708--3248823	24	4.8	24	87	8	148	41	18	16	24	1.90
3248741--3248841	48	2.1	48	87	3	141	41	19	15	22	1.90
3253323--3253374	24	2.2	24	82	0	59	50	17	11	21	1.77
3253346--3253460	24	4.8	24	82	6	128	40	16	18	25	1.91
3253379--3253478	48	2.1	47	81	1	110	43	16	16	25	1.87
3258538--3258595	19	3.0	19	78	12	57	22	20	6	50	1.72
3267478--3267518	5	8.4	5	79	15	50	39	0	2	58	1.11
3267471--3267515	20	2.3	20	85	7	67	40	0	2	57	1.11
3270830--3270878	24	2.0	24	100	0	98	32	12	20	34	1.90
3271385--3271476	14	6.5	14	91	1	130	29	28	16	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271480--3271532	14	3.9	14	82	5	72	18	24	16	39	1.91
3271479--3271530	27	1.9	27	96	0	95	21	21	17	40	1.91
3274292--3274342	27	1.9	27	84	4	68	13	1	9	74	1.15
3286673--3286707	13	2.7	13	86	0	52	11	25	0	62	1.28
3294827--3294968	54	2.6	54	86	3	169	31	11	17	38	1.86
3294941--3295123	56	3.3	55	83	4	194	29	13	14	42	1.84
3295440--3295559	41	2.9	41	75	7	109	24	20	23	31	1.98
3295434--3295545	42	2.7	42	77	5	111	25	20	20	33	1.97
3295191--3295895	221	3.0	237	82	9	853	30	17	17	35	1.92
3300612--3300664	25	2.2	23	87	12	72	32	0	0	67	0.91
3301779--3301810	15	2.2	15	94	5	57	25	0	0	75	0.81
3303627--3303771	75	1.9	75	94	0	254	33	13	11	40	1.81
3306269--3306702	231	1.9	231	87	2	640	37	22	14	24	1.92
3308522--3308588	20	3.5	19	73	21	59	16	5	0	77	0.95
3308544--3308578	11	3.3	11	96	4	63	8	8	0	82	0.83
3309086--3309119	16	2.1	16	88	0	50	58	2	20	17	1.51
3317215--3317261	23	2.0	24	87	4	69	34	14	21	29	1.93
3326238--3326646	44	9.2	44	89	0	611	21	21	13	43	1.86
3331000--3331043	17	2.6	17	96	0	79	34	4	34	27	1.77
3331194--3331256	30	2.1	30	96	0	117	22	15	30	31	1.95
3335489--3335544	15	3.7	15	80	0	67	32	50	3	14	1.60
3339536--3339574	20	2.0	20	89	0	60	30	17	12	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3349797--3349839	20	2.2	20	91	0	68	34	20	11	32	1.89
3350515--3350574	17	3.4	17	80	13	68	25	1	3	70	1.12
3352753--3352783	4	7.8	4	100	0	62	22	0	0	77	0.77
3354186--3354677	182	2.7	182	89	1	736	40	14	17	27	1.88
3357045--3357085	21	2.0	21	95	0	73	41	12	29	17	1.85
3358922--3358970	19	2.6	19	96	0	89	32	2	10	55	1.45
3359321--3360259	202	4.7	201	88	2	1251	37	15	16	30	1.89
3360149--3360366	107	2.0	107	87	1	312	41	14	14	30	1.85
3359946--3360551	307	2.0	307	88	3	916	37	14	16	30	1.89
3362033--3362072	12	3.3	12	85	0	53	42	2	30	25	1.68

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33