genome.fa.s8053.2.7.7.80.10.50.1000.24.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  24  of  32  ( 3749 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)
4921275--4921345	14	4.9	14	75	24	58	70	1	9	18	1.22
4921300--4921345	23	2.0	23	87	8	67	76	0	6	17	1.00
4921715--4921773	15	3.9	14	81	14	64	74	1	5	18	1.09
4921712--4921791	31	2.6	31	80	5	92	72	2	7	17	1.19
4922802--4922859	30	2.0	29	89	3	89	53	1	3	41	1.28
4926029--4926059	5	6.4	5	92	7	55	41	0	0	58	0.98
4926005--4926035	16	1.9	16	93	0	53	51	6	0	41	1.27
4926613--4926730	30	3.9	30	93	0	200	35	7	15	41	1.75
4927418--4927454	12	3.1	12	92	0	56	54	0	2	43	1.14
4927420--4927455	15	2.4	15	95	0	63	58	0	2	38	1.13
4928922--4928954	17	2.0	16	94	5	57	60	0	3	36	1.12
4930462--4930491	16	1.9	15	93	6	51	3	36	0	60	1.14
4934167--4934218	20	2.6	20	96	0	95	38	26	13	21	1.90
4934274--4934467	20	9.6	20	76	8	76	35	25	19	19	1.95
4934270--4934467	40	5.0	39	81	4	200	35	26	19	19	1.95
4934274--4934466	60	3.2	60	83	0	251	35	25	19	19	1.95
4934847--4934916	32	2.2	33	89	2	106	11	22	18	47	1.81
4935036--4935090	14	3.6	14	73	21	56	41	23	25	9	1.83
4935036--4935106	33	2.2	33	94	0	124	43	25	22	8	1.81
4935102--4935199	19	5.7	19	70	22	81	11	24	21	42	1.85
4935124--4935213	14	5.7	14	74	23	81	10	25	22	42	1.84
4935107--4935221	33	3.5	33	95	0	212	10	24	20	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4936917--4937658	93	8.0	93	98	1	1440	21	12	19	46	1.83
4936917--4937658	276	2.7	276	98	0	1439	21	12	19	46	1.83
4936917--4937658	369	2.0	370	98	1	1436	21	12	19	46	1.83
4937689--4937817	19	7.3	19	75	17	125	45	28	17	8	1.77
4937725--4937817	33	2.8	32	91	4	150	46	27	18	7	1.76
4937689--4937817	52	2.5	52	74	14	140	45	28	17	8	1.77
4937813--4937947	19	7.6	19	73	16	110	11	17	23	46	1.81
4937818--4937910	33	2.8	33	90	0	150	11	18	21	48	1.80
4938403--4938465	21	3.0	21	70	9	65	23	36	19	20	1.95
4939871--4939906	14	2.6	14	95	0	63	33	0	22	44	1.53
4940013--4940094	19	4.6	19	82	14	120	43	18	23	14	1.86
4940085--4940357	52	5.2	52	82	11	183	15	20	17	46	1.84
4940101--4940424	33	9.5	33	78	14	181	13	20	18	46	1.83
4940101--4940338	85	2.8	83	88	6	343	14	21	18	46	1.83
4940123--4940396	52	5.2	52	93	4	423	13	21	17	47	1.82
4942705--4942729	12	2.1	12	100	0	50	0	28	0	72	0.86
4942904--4942950	24	2.0	24	87	8	69	38	21	14	25	1.92
4943633--4944001	20	18.5	20	86	4	458	20	18	26	34	1.96
4945369--4945411	20	2.2	20	95	0	77	34	25	18	20	1.96
4947618--4947667	21	2.4	21	86	0	64	22	14	32	32	1.93
4947691--4947759	21	3.3	20	66	13	50	20	8	36	34	1.83
4948079--4948151	21	3.5	21	88	0	119	20	39	20	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4952320--4952373	24	2.2	24	93	0	90	38	18	20	22	1.93
4952336--4952387	24	2.2	24	82	0	59	36	21	19	23	1.95
4953292--4953339	18	2.6	18	83	6	60	35	12	22	29	1.91
4953394--4953469	21	3.7	21	73	3	73	35	17	21	26	1.95
4956785--4957149	183	2.0	183	98	0	703	40	13	10	35	1.79
4961633--4961663	2	15.5	2	100	0	62	48	0	0	51	1.00
4963494--4963527	3	11.3	3	100	0	68	32	0	0	67	0.91
4965607--4965637	3	10.3	3	100	0	62	32	0	0	67	0.91
4966466--4966534	27	2.6	26	86	4	111	39	2	0	57	1.13
4969337--4969370	15	2.2	16	89	5	52	35	11	11	41	1.78
4973495--4973520	2	13.0	2	100	0	52	50	0	0	50	1.00
4975895--4975919	13	1.9	13	100	0	50	32	8	24	36	1.84
4977441--4977573	29	4.6	28	91	1	185	18	35	25	20	1.95
4977618--4977689	29	2.5	28	93	4	101	9	37	27	25	1.87
4977638--4977746	29	3.8	29	90	0	137	9	29	33	28	1.88
4984602--4984788	97	1.9	95	81	9	218	38	9	10	42	1.71
4984754--4984800	13	3.5	13	77	13	51	55	2	2	40	1.24
4986243--4986295	3	17.7	3	96	0	97	64	0	1	33	1.05
4986612--4987384	113	6.8	113	96	0	1348	29	18	13	38	1.89
4988181--4988534	83	4.3	83	98	0	672	35	21	14	29	1.92
4989671--4989730	1	60.0	1	76	0	57	0	11	0	88	0.52
4989671--4989730	15	4.1	15	80	8	79	0	11	0	88	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4989676--4989733	28	2.1	28	93	0	98	0	13	0	86	0.58
5000377--5000411	17	2.1	17	88	0	52	60	0	5	34	1.21
5001027--5001073	13	3.5	13	77	13	51	55	2	2	40	1.24
5002511--5002566	3	18.7	3	96	0	103	64	0	1	33	1.04
5009029--5009088	17	3.5	17	80	15	70	66	0	0	33	0.92
5009034--5009088	3	18.7	3	75	17	53	65	0	0	34	0.93
5009030--5009086	28	2.0	28	86	6	78	66	0	0	33	0.92
5009375--5009566	43	4.5	43	71	11	151	27	19	29	23	1.98
5009242--5009590	129	2.7	129	82	6	409	26	18	29	25	1.98
5009869--5009990	64	1.9	64	86	3	174	46	12	13	27	1.78
5009952--5010007	26	2.1	26	86	3	76	44	14	7	33	1.72
5009942--5010010	27	2.5	28	81	11	81	43	14	7	34	1.73
5009816--5010165	153	2.2	155	82	7	406	42	13	12	32	1.81
5009976--5010137	62	2.6	63	87	5	231	40	12	11	35	1.80
5010099--5010187	29	3.1	29	85	8	110	43	12	12	31	1.79
5010110--5010201	28	3.2	27	77	14	87	47	14	13	25	1.79
5010339--5010637	105	2.8	105	84	2	377	39	12	16	31	1.86
5010613--5010712	36	2.7	37	89	3	148	37	13	15	35	1.85
5016651--5016726	29	2.6	29	78	0	80	61	10	15	11	1.56
5018140--5018199	17	3.5	17	80	15	70	66	0	0	33	0.92
5018145--5018199	3	18.7	3	75	17	53	65	0	0	34	0.93
5018141--5018197	28	2.0	28	86	6	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5019341--5019376	11	3.2	11	84	7	54	19	22	19	38	1.93
5019584--5019681	39	2.5	39	85	8	128	37	3	15	43	1.62
5019610--5019692	39	2.1	39	97	0	157	39	2	15	42	1.60
5019775--5019827	28	1.9	27	88	3	79	32	1	16	49	1.57
5019774--5019838	27	2.3	29	82	10	82	36	1	15	46	1.55
5019967--5020021	18	3.4	18	65	31	52	38	0	9	52	1.33
5020307--5020387	22	3.3	22	71	23	72	44	0	12	43	1.42
5020274--5020363	30	3.1	30	85	9	116	43	1	11	44	1.47
5020314--5020364	15	3.3	16	72	10	61	45	0	13	41	1.44
5020340--5020377	11	3.5	11	79	13	51	50	0	10	39	1.37
5021695--5021739	23	2.0	23	86	0	63	40	2	2	55	1.24
5021689--5021739	23	2.5	20	77	20	52	39	1	1	56	1.22
5022713--5022781	21	3.1	21	81	12	59	53	5	1	39	1.34
5022704--5022781	24	3.3	24	76	18	67	52	6	2	38	1.41
5022898--5023129	11	19.2	11	72	17	140	45	9	1	43	1.45
5022945--5023013	3	23.7	3	75	5	52	40	2	2	53	1.31
5022885--5023129	26	10.1	25	74	15	201	45	8	2	44	1.46
5022945--5023096	23	6.3	23	68	19	96	44	7	2	46	1.45
5022914--5023009	23	4.1	22	79	13	54	42	6	2	48	1.40
5022900--5023258	75	5.1	72	73	16	254	46	10	1	41	1.46
5022968--5023165	98	2.0	98	87	3	283	47	10	1	40	1.47
5022917--5023131	12	16.3	14	69	22	65	45	9	1	43	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5023112--5023175	19	3.5	19	75	16	80	53	17	0	29	1.44
5023098--5023258	36	4.5	35	77	9	148	50	11	0	37	1.44
5023220--5023363	49	2.9	49	95	0	261	45	11	0	43	1.39
5023220--5023380	49	3.2	49	93	2	259	44	11	0	43	1.44
5024982--5025011	15	1.9	16	93	6	53	0	30	0	70	0.88
5025340--5025402	28	2.2	30	91	5	103	58	11	0	30	1.32
5025344--5025409	28	2.4	28	85	10	98	57	10	0	31	1.33
5025379--5025427	21	2.3	21	89	3	71	53	14	0	32	1.41
5025837--5025880	23	1.9	23	95	0	79	29	27	20	22	1.99
5026062--5026167	29	3.7	29	93	0	176	18	22	37	20	1.94

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