genome.fa.s8426.2.7.7.80.10.50.1000.16.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: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

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

This is table  16  of  18  ( 2101 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)
3661169--3661250	30	2.7	30	86	0	110	32	29	10	26	1.91
3662145--3662189	20	2.2	20	88	7	65	28	17	31	22	1.97
3662603--3662920	59	5.4	59	84	5	408	33	12	22	32	1.91
3662621--3662864	122	2.0	121	88	2	364	35	11	21	31	1.90
3674018--3674260	116	2.1	117	86	4	339	32	11	20	35	1.89
3674021--3674265	59	4.2	59	83	5	300	32	11	20	35	1.89
3674888--3674925	2	19.0	2	100	0	76	50	0	0	50	1.00
3680707--3680751	22	2.0	22	86	4	63	13	15	8	62	1.54
3693413--3693442	15	1.9	16	93	6	53	50	0	13	36	1.42
3694529--3695953	80	17.9	81	82	4	1571	36	12	21	29	1.90
3694526--3695904	478	2.9	473	82	6	1652	36	12	21	30	1.90
3697399--3697426	14	2.0	14	100	0	56	28	7	21	42	1.79
3700579--3700948	79	4.7	80	81	5	389	36	14	20	28	1.92
3700834--3701063	115	2.0	114	92	6	385	33	13	22	31	1.92
3700950--3713411	81	156.2	81	82	5	14278	36	12	21	29	1.91
3700950--3716939	162	100.5	161	83	5	17420	36	12	21	29	1.91
3700949--3716939	243	67.0	242	82	5	17920	36	12	21	29	1.91
3713492--3713621	66	2.0	67	87	7	194	37	9	22	30	1.85
3713554--3716939	81	42.6	81	84	6	4097	36	12	20	30	1.90
3717036--3717160	40	2.9	44	86	11	163	39	3	28	28	1.72
3730004--3730116	52	2.2	52	85	4	158	51	4	0	43	1.28
3730021--3730086	23	2.9	23	84	11	82	51	1	0	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3730021--3730108	11	7.7	11	71	7	52	51	3	1	44	1.25
3730618--3730788	86	2.0	86	91	0	279	29	16	7	47	1.73
3732466--3732498	16	2.1	16	88	11	50	36	0	0	63	0.95
3736322--3736357	2	18.0	2	100	0	72	50	0	0	50	1.00
3749310--3749823	106	4.9	106	78	6	467	36	23	16	22	1.94
3750300--3750339	11	3.8	11	83	12	57	47	0	0	52	1.00
3751271--3751296	13	2.0	13	100	0	52	23	15	23	38	1.92
3751279--3751346	23	3.2	23	64	20	65	19	11	11	57	1.64
3754038--3754078	13	3.1	13	85	3	55	63	2	0	34	1.08
3754080--3754109	10	3.0	10	95	0	51	46	0	0	53	1.00
3754641--3754761	53	2.3	53	86	2	172	25	22	13	38	1.90
3755311--3755355	24	1.9	23	86	4	63	44	0	2	53	1.13
3757869--3757910	13	3.4	13	74	12	52	28	0	2	69	1.01
3757865--3757910	24	2.0	23	91	4	74	28	0	2	69	1.00
3757868--3757904	17	2.1	17	90	5	56	27	0	2	70	1.01
3757867--3757920	24	2.3	23	81	9	63	24	1	5	68	1.21
3771278--3771338	19	3.3	19	84	15	83	80	1	11	6	0.97
3771278--3771338	18	3.3	18	86	11	79	80	1	11	6	0.97
3777576--3777637	23	2.7	23	97	0	115	20	32	25	20	1.98
3787452--3787562	54	2.1	54	100	0	222	29	9	30	30	1.88
3788040--3788091	27	1.9	27	84	7	70	34	3	5	55	1.42
3795681--3795715	6	5.8	6	96	0	61	0	62	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797789--3797841	26	2.0	26	88	0	79	5	22	32	39	1.78
3797894--3797943	24	2.2	25	86	13	72	78	0	0	22	0.76
3797995--3798156	38	4.2	38	84	5	184	44	7	2	45	1.45
3801567--3802364	258	3.1	256	87	3	1162	32	17	17	32	1.94
3802292--3802542	114	2.2	114	91	1	405	31	15	19	33	1.93
3804760--3804806	24	2.0	23	84	16	60	2	21	0	76	0.89
3804770--3804808	15	2.8	13	88	11	51	0	20	0	79	0.73
3805819--3805965	65	2.3	65	79	13	178	30	18	22	28	1.97
3806576--3806633	27	2.1	27	83	0	71	58	13	3	24	1.51
3808134--3808194	20	3.0	20	90	4	79	60	16	1	21	1.44
3808665--3808729	21	3.0	21	74	12	67	24	18	23	33	1.96
3812518--3812558	21	2.0	21	86	13	59	34	7	2	56	1.40
3812939--3812964	12	2.2	12	100	0	52	15	34	7	42	1.75
3824305--3824360	9	6.3	9	76	10	53	64	3	0	32	1.11
3824820--3824876	27	2.2	26	84	9	71	31	3	7	57	1.42
3825781--3825814	16	2.1	16	88	0	50	26	2	2	67	1.19
3827026--3827123	47	2.0	49	86	7	139	33	16	14	35	1.89
3830225--3830273	21	2.3	21	82	0	62	57	4	32	6	1.42
3830425--3830482	28	2.1	28	86	0	80	36	8	8	46	1.65
3844641--3844794	44	3.5	44	90	1	227	38	5	24	31	1.78
3844672--3844743	24	3.2	24	63	34	59	38	6	20	33	1.80
3845897--3845938	2	21.0	2	100	0	84	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3847293--3847496	95	2.1	95	81	3	223	32	16	24	26	1.96
3847850--3848398	58	9.5	58	87	1	766	33	9	17	38	1.82
3849533--3849606	20	3.7	20	76	7	87	22	13	31	32	1.93
3849532--3849627	40	2.4	41	89	1	140	23	12	29	34	1.92
3851191--3851264	20	3.7	20	76	7	87	22	13	31	32	1.93
3851190--3851285	40	2.4	41	89	1	140	23	12	29	34	1.92
3851456--3851528	20	3.7	20	73	10	78	23	13	30	32	1.93
3851456--3851549	39	2.3	41	85	3	129	24	12	28	34	1.92
3870295--3870360	20	3.4	18	80	14	69	30	12	22	34	1.91
3888795--3888847	20	2.7	20	88	2	72	39	15	15	30	1.87
3892245--3892279	17	2.1	17	88	0	52	11	20	45	22	1.82
3899401--3899451	19	2.7	19	87	0	66	41	13	13	31	1.84
3899471--3899510	20	2.0	21	90	5	64	32	12	15	40	1.84
3904320--3904439	23	5.4	21	69	14	80	25	18	5	51	1.66
3904332--3904458	23	5.6	23	66	10	73	25	16	4	52	1.63
3904318--3904471	45	3.4	45	88	0	229	25	19	5	50	1.68
3904557--3905128	54	10.8	54	78	8	541	34	17	16	31	1.92
3904557--3905128	108	5.4	108	79	7	627	34	17	16	31	1.92
3904662--3905102	150	2.9	150	80	9	419	36	16	16	30	1.91
3904608--3905122	204	2.5	204	85	5	656	34	16	16	31	1.92
3910871--3911014	45	3.4	45	72	20	157	29	26	11	33	1.91
3910860--3911030	79	2.2	79	91	0	270	27	23	12	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911408--3911631	95	2.4	95	79	4	247	25	24	16	33	1.96
3917491--3917636	34	3.9	34	73	18	121	28	23	10	36	1.89
3917537--3917602	24	2.9	24	65	19	59	31	22	13	31	1.93
3917448--3917688	79	3.1	78	90	2	351	28	22	11	37	1.89
3917538--3917676	45	3.3	44	71	20	145	30	24	11	33	1.91
3918108--3918292	95	1.9	95	83	2	237	26	23	16	34	1.95
3919315--3919354	20	2.0	20	85	9	55	27	30	20	22	1.98
3919495--3919564	36	1.9	36	94	0	122	44	11	7	37	1.68
3919690--3919746	20	2.9	19	74	23	64	49	8	12	29	1.70
3919690--3919746	18	3.0	17	79	20	60	49	8	12	29	1.70
3922232--3922290	19	3.0	21	77	5	61	40	15	6	37	1.74
3922340--3922410	35	2.0	36	94	2	126	43	11	8	36	1.71
3928097--3928259	65	2.5	64	84	3	211	26	15	26	30	1.96
3928207--3928257	19	2.7	19	85	8	70	25	15	35	23	1.94
3928101--3928308	65	3.2	65	80	12	189	26	17	25	30	1.97
3928922--3928965	18	2.5	17	78	7	52	54	27	2	15	1.53
3934698--3934737	21	1.9	21	85	10	55	35	10	2	52	1.48
3936682--3936808	64	2.0	65	87	4	186	26	16	25	31	1.96
3936683--3936842	65	2.5	64	81	4	178	26	15	26	31	1.95
3936790--3936828	19	2.1	19	90	0	60	28	12	38	20	1.89
3937485--3937528	18	2.5	17	78	7	52	54	27	2	15	1.53
3943251--3943290	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3945217--3945318	45	2.2	45	87	5	143	30	15	22	31	1.95
3945305--3945356	19	2.8	19	80	8	63	25	13	34	26	1.93
3951813--3951853	21	2.0	21	86	13	59	34	12	2	51	1.52
3953800--3953962	65	2.5	66	84	3	206	26	15	26	30	1.96
3953910--3953960	19	2.7	19	85	8	70	25	15	35	23	1.94
3953804--3954011	65	3.2	65	80	12	189	26	16	25	30	1.97
3969206--3969279	22	3.3	21	78	14	78	75	1	8	14	1.09
3969276--3969331	30	2.0	30	89	10	91	51	7	0	41	1.29
3969332--3969383	27	2.0	26	84	3	68	48	3	3	44	1.39
3969332--3969388	28	2.1	27	86	3	78	49	3	3	43	1.36

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