genome.fa.s9582.2.7.7.80.10.50.1000.16.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  16  of  24  ( 2799 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)
3110994--3111097	32	3.2	32	86	0	136	28	16	15	39	1.89
3110944--3111092	64	2.3	64	80	0	154	31	17	13	37	1.88
3117330--3117374	21	2.1	21	88	8	65	2	11	4	82	0.91
3117429--3117549	44	2.8	44	82	2	145	28	17	16	37	1.92
3117899--3117990	42	2.2	42	86	0	121	32	17	20	29	1.96
3117939--3118248	129	2.4	128	85	2	395	29	19	20	30	1.97
3121678--3121729	22	2.3	23	84	12	72	46	0	0	53	1.00
3121678--3121729	25	2.3	21	81	18	61	46	0	0	53	1.00
3122106--3122192	44	2.0	44	100	0	174	57	3	13	25	1.52
3124852--3124899	19	2.5	20	82	3	62	52	6	12	29	1.63
3126234--3126303	34	2.1	32	86	5	95	31	15	30	22	1.95
3126570--3126620	23	2.2	24	86	10	70	45	29	0	25	1.54
3127435--3127467	2	16.5	2	100	0	66	51	0	0	48	1.00
3128436--3128484	25	1.9	26	84	12	66	30	2	2	65	1.15
3134154--3134179	12	2.2	12	100	0	52	23	0	53	23	1.46
3134884--3134921	20	1.9	20	88	0	58	13	26	36	23	1.91
3153416--3153465	26	1.9	26	84	8	66	34	4	14	48	1.62
3157827--3157890	21	3.0	21	81	4	74	17	23	35	23	1.95
3164580--3164655	21	3.3	23	81	9	93	35	26	19	18	1.95
3164624--3164671	21	2.3	21	88	0	69	37	29	14	18	1.91
3164677--3164772	21	4.6	21	76	5	104	43	20	10	25	1.83
3164683--3164772	42	2.1	42	87	0	126	43	22	8	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168744--3168844	33	3.3	31	75	16	86	53	2	1	41	1.27
3168744--3168843	31	3.2	31	74	22	109	53	3	2	42	1.28
3168744--3168866	62	2.0	63	90	1	194	52	2	1	43	1.24
3174424--3174449	3	8.7	3	100	0	52	30	0	34	34	1.58
3174609--3174656	25	2.0	24	84	12	62	52	0	2	45	1.12
3175507--3175536	3	10.0	3	92	0	51	33	3	0	63	1.11
3180634--3182252	106	15.4	106	90	3	2389	33	24	18	23	1.97
3185523--3185558	3	11.7	3	88	5	54	27	0	0	72	0.85
3190523--3190817	64	4.6	64	87	0	428	35	20	13	29	1.91
3190520--3190817	129	2.3	128	88	0	434	35	20	13	30	1.91
3190849--3191303	109	4.2	109	85	4	589	37	22	14	25	1.92
3190849--3191300	218	2.1	218	88	1	674	37	22	13	26	1.92
3191208--3191377	77	2.2	77	92	0	277	37	21	13	27	1.91
3191916--3191972	3	19.7	3	79	13	66	29	0	0	70	0.88
3193254--3193395	64	2.2	65	83	3	171	26	18	25	30	1.98
3196057--3196118	24	2.6	24	94	0	97	33	16	25	24	1.95
3201825--3201982	65	2.5	64	84	5	185	27	18	24	29	1.98
3201869--3202034	65	2.6	63	81	11	194	24	19	25	30	1.98
3203995--3204070	30	2.5	30	86	0	98	26	22	18	32	1.97
3211791--3211832	21	2.0	21	81	9	50	9	38	19	33	1.84
3216545--3216579	16	2.1	17	89	5	54	0	25	2	71	1.00
3217102--3217229	3	42.3	3	92	1	211	62	0	3	34	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217549--3218308	113	6.8	113	90	2	1167	29	18	12	38	1.88
3217549--3218300	223	3.3	225	94	2	1284	29	18	12	38	1.88
3217549--3218308	336	2.3	335	90	2	1175	29	18	12	38	1.88
3219111--3219643	82	6.4	83	90	4	710	34	22	14	29	1.93
3219111--3219643	247	2.1	249	88	5	776	34	22	14	29	1.93
3220763--3220789	10	2.7	10	100	0	54	0	7	0	92	0.38
3220763--3220793	11	2.9	11	95	4	55	0	9	0	90	0.46
3233019--3233054	16	2.3	15	90	4	54	0	27	2	69	1.02
3233590--3233710	3	40.3	3	91	0	188	61	0	4	33	1.18
3235321--3235448	30	4.3	30	90	5	161	36	12	25	25	1.91
3238980--3239215	127	1.9	127	100	0	472	33	16	7	41	1.77
3239495--3239643	30	5.0	30	88	1	192	36	12	24	26	1.90
3246333--3246375	22	2.0	22	86	9	61	6	6	20	65	1.41
3246657--3247005	83	4.2	81	79	4	315	28	16	23	30	1.97
3246653--3246967	41	7.6	42	67	12	150	28	17	24	29	1.97
3247409--3247456	22	2.2	22	96	0	87	43	10	14	31	1.79
3251700--3252072	139	2.7	137	80	6	401	27	12	13	46	1.79
3255200--3255267	23	3.0	23	86	0	100	17	26	26	29	1.98
3256502--3256613	51	2.2	51	84	6	138	37	2	7	52	1.43
3266341--3266370	7	4.4	7	91	8	53	16	30	30	23	1.96
3266341--3266370	13	2.2	14	94	5	53	16	30	30	23	1.96
3270083--3270146	3	21.3	3	80	12	51	59	7	1	31	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271021--3271101	10	8.1	9	75	13	54	76	2	7	13	1.10
3271009--3271068	29	2.1	29	84	12	79	75	1	8	15	1.12
3271017--3271063	24	2.0	25	87	8	71	76	0	8	14	1.01
3271021--3271090	29	2.3	29	81	11	79	77	0	8	14	0.99
3271021--3271101	38	2.1	39	82	11	96	76	2	7	13	1.10
3271199--3271258	2	31.5	2	78	9	63	51	1	3	43	1.28
3271193--3271276	43	2.0	42	84	9	109	55	1	4	38	1.28
3271289--3271314	3	8.7	3	100	0	52	69	0	0	30	0.89
3272357--3272388	2	16.5	2	93	6	57	50	0	0	50	1.00
3274269--3274326	6	10.0	6	72	20	52	1	15	1	81	0.86
3274285--3274324	15	2.7	14	82	14	53	2	15	2	80	0.93
3284668--3284733	24	2.9	22	72	14	53	75	0	12	12	1.04
3284669--3284733	23	2.8	23	75	15	62	75	0	12	12	1.05
3284698--3284752	19	2.9	18	81	8	56	80	3	7	9	1.02
3284808--3284965	3	51.7	3	73	17	98	63	1	3	31	1.21
3284808--3284965	40	4.1	39	75	16	136	63	1	3	31	1.21
3291672--3291708	2	18.5	2	100	0	74	51	0	0	48	1.00
3291868--3291974	24	4.5	24	73	0	97	46	16	13	23	1.82
3291868--3291974	48	2.2	48	76	0	115	46	16	13	23	1.82
3296376--3296451	17	4.4	17	71	3	62	44	13	19	22	1.85
3296890--3296964	37	2.0	37	100	0	150	34	24	13	28	1.93
3297222--3297256	3	11.7	3	100	0	70	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300756--3300794	18	2.1	19	85	4	53	23	2	2	71	1.10
3306143--3306194	21	2.5	21	96	0	95	30	17	21	30	1.96
3309845--3309886	14	3.0	14	93	6	68	11	0	2	85	0.68
3309845--3309886	18	2.4	18	88	11	61	11	0	2	85	0.68
3309828--3309895	32	2.1	33	83	2	84	13	4	4	77	1.06
3314455--3314503	20	2.5	20	100	0	98	30	18	20	30	1.96
3314494--3314542	19	2.5	20	77	9	57	28	24	18	28	1.98
3315842--3315930	39	2.3	39	90	0	133	32	23	26	16	1.96
3316351--3316402	3	17.7	3	96	4	97	65	0	0	34	0.93
3322589--3322678	39	2.3	39	88	3	128	34	25	24	15	1.95
3327625--3327695	29	2.4	29	90	4	108	18	38	28	15	1.91
3327623--3327709	29	3.0	28	81	6	102	17	36	29	16	1.91
3327720--3327815	10	9.3	10	81	15	106	21	50	19	8	1.74
3327730--3327785	23	2.6	21	91	8	87	23	50	16	10	1.76
3327743--3327781	13	3.2	13	79	20	57	23	46	17	12	1.83
3327914--3327976	19	3.6	19	71	20	64	39	3	11	46	1.55
3327931--3328929	14	71.3	14	68	22	285	40	2	9	47	1.49
3327914--3327992	33	2.4	33	93	0	140	40	3	10	45	1.56
3327966--3328749	25	31.8	25	69	18	156	40	2	9	46	1.49
3327978--3328896	11	76.4	11	68	24	170	40	2	9	47	1.48
3328138--3328202	19	3.7	19	72	19	68	40	3	10	46	1.54
3327986--3328879	135	6.4	135	72	16	604	40	2	9	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3327914--3328591	226	3.0	226	96	1	1205	41	2	10	46	1.51
3328364--3328428	19	3.7	19	72	19	68	40	1	12	46	1.51
3328498--3328676	26	7.2	26	80	12	153	43	1	10	44	1.49
3328456--3328847	124	3.1	123	83	11	522	41	1	9	47	1.44
3327914--3328924	226	4.5	226	84	8	1150	40	2	9	47	1.49
3328229--3328847	124	5.1	121	68	21	341	41	1	9	47	1.46
3328868--3328923	8	7.5	8	70	22	50	44	1	7	46	1.41
3328816--3328929	47	2.5	45	87	8	153	42	3	7	46	1.48
3328835--3328940	33	3.0	36	81	11	98	43	3	7	45	1.50
3328890--3328948	20	3.2	20	79	13	72	47	3	6	42	1.46

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