genome.fa.s8428.2.7.7.80.10.50.1000.22.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  22  of  30  ( 3508 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)
4970663--4970713	15	3.3	15	86	10	68	21	1	0	76	0.88
4970751--4970821	28	2.5	27	82	13	81	14	12	4	69	1.34
4970783--4970846	20	3.2	20	82	8	60	20	6	1	71	1.15
4971803--4971829	2	13.5	2	100	0	54	48	0	0	51	1.00
4977980--4978051	34	2.1	34	85	10	94	63	8	2	25	1.36
4982439--4982507	32	2.2	31	79	7	77	47	8	8	34	1.65
4987087--4987116	2	15.0	2	100	0	60	50	0	0	50	1.00
4991934--4991974	21	2.0	21	85	0	55	7	26	36	29	1.83
4995241--4995339	49	2.0	49	94	0	171	14	22	13	50	1.76
4995456--4995512	29	2.0	29	89	0	87	21	22	10	45	1.82
4995485--4996015	81	6.5	81	89	1	783	29	22	12	36	1.90
4995485--4996015	163	3.3	162	89	0	801	29	22	12	36	1.90
4995485--4996015	244	2.2	245	91	1	843	29	22	12	36	1.90
4996669--4996731	20	3.0	21	86	4	92	12	26	39	20	1.89
4996972--4997143	67	2.5	68	90	2	276	30	25	14	29	1.95
4997495--4997698	58	3.5	58	89	0	318	37	19	9	34	1.84
4998133--4998188	20	2.8	20	81	10	69	23	28	16	32	1.96
4998739--4998785	3	15.7	3	88	0	67	65	0	29	4	1.11
5002058--5002212	77	2.0	77	93	0	265	28	25	16	29	1.97
5006399--5006604	107	1.9	106	92	1	340	53	12	3	30	1.54
5007111--5007146	18	1.9	19	88	5	56	52	0	5	41	1.24
5007776--5007817	2	21.0	2	95	0	75	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5008072--5008096	3	8.3	3	100	0	50	0	64	0	36	0.94
5020458--5020525	23	2.9	23	82	8	84	26	22	29	22	1.99
5024399--5024438	21	1.9	21	89	0	62	30	7	7	55	1.56
5030194--5030221	2	14.0	2	100	0	56	50	0	0	50	1.00
5042432--5042464	15	2.2	15	89	10	50	57	3	0	39	1.14
5043262--5043301	21	1.9	21	94	0	71	17	15	17	50	1.79
5043263--5043309	21	2.2	21	84	0	58	21	14	19	44	1.86
5043299--5043371	20	3.7	20	92	0	119	38	19	20	21	1.94
5043299--5043389	40	2.3	40	88	3	130	36	20	20	21	1.95
5043569--5043634	22	3.0	22	88	0	96	24	37	15	22	1.92
5043970--5044112	20	7.6	20	77	11	115	13	16	23	46	1.83
5045964--5046105	20	7.8	20	72	20	114	43	21	18	16	1.88
5045987--5046077	33	2.7	34	79	3	112	45	21	18	14	1.85
5046101--5046162	20	3.1	20	95	0	115	14	19	27	38	1.90
5046650--5046754	21	5.0	21	74	3	95	20	37	20	21	1.95
5046647--5046757	42	2.6	42	78	2	125	20	37	19	21	1.94
5048282--5048347	20	3.7	20	69	24	65	12	21	19	46	1.82
5048285--5048380	33	2.9	34	90	3	149	13	21	19	44	1.85
5048352--5048440	20	4.4	20	85	5	126	16	20	24	38	1.93
5050873--5050926	24	2.2	24	93	0	90	40	20	18	20	1.91
5050873--5050940	24	2.8	24	84	0	64	38	20	17	23	1.93
5051771--5051881	20	5.6	20	94	0	195	26	18	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5051910--5051955	21	2.2	21	92	0	74	39	17	26	17	1.91
5054173--5054251	36	2.2	37	90	2	124	27	8	10	53	1.64
5054767--5054835	19	3.5	20	78	13	63	42	1	1	55	1.18
5057293--5057345	18	2.7	19	73	18	54	28	13	32	26	1.93
5058162--5058257	23	4.3	22	77	16	108	21	17	27	33	1.96
5061034--5061067	16	2.1	17	88	5	52	41	17	2	38	1.65
5064802--5065117	158	2.0	158	97	0	596	45	15	3	34	1.65
5066656--5066732	21	3.6	21	76	10	84	35	16	23	24	1.95
5066755--5066801	19	2.4	19	85	7	58	25	14	34	25	1.94
5071129--5071204	21	3.6	20	74	10	62	32	14	25	27	1.94
5076196--5076229	16	2.1	17	88	5	52	41	17	2	38	1.65
5076270--5076309	21	1.9	21	84	0	53	22	5	5	67	1.30
5076664--5076699	15	2.4	15	95	0	63	25	5	5	63	1.38
5076685--5076748	29	2.2	30	81	10	71	25	15	1	57	1.47
5085361--5085431	21	3.2	22	77	20	85	21	16	26	35	1.95
5085334--5085431	46	2.2	45	87	5	137	22	19	24	33	1.97
5090773--5090797	11	2.3	11	100	0	50	48	16	0	36	1.46
5090654--5090919	146	1.8	146	90	0	433	40	9	9	40	1.70
5100878--5100925	24	2.0	24	84	8	62	52	6	14	27	1.66
5102047--5102103	24	2.3	26	87	12	100	38	7	17	36	1.77
5102054--5102104	24	2.1	24	100	0	102	39	9	15	35	1.81
5102882--5102926	20	2.2	21	84	4	56	13	31	24	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104312--5104348	18	2.0	19	89	5	58	40	5	10	43	1.63
5107669--5107706	19	2.0	20	89	5	60	44	0	0	55	0.99
5110566--5110655	3	30.3	3	97	2	173	34	0	0	65	0.93
5110801--5110862	30	2.1	30	90	0	97	29	17	19	33	1.95
5114606--5114676	37	1.9	37	83	8	92	35	7	18	39	1.78
5115449--5115488	21	1.9	21	84	0	53	50	0	0	50	1.00
5120929--5120973	22	2.1	21	91	4	72	44	4	20	31	1.71
5132617--5132669	23	2.3	23	86	0	79	26	26	28	18	1.98
5132685--5132902	103	2.1	103	95	1	393	37	23	13	26	1.91
5133689--5133845	64	2.5	64	77	9	167	25	20	21	32	1.98
5137234--5137369	45	2.8	49	85	9	192	46	0	2	51	1.13
5137235--5137367	15	8.5	15	83	11	160	46	0	2	51	1.13
5137265--5137422	69	2.3	67	84	6	203	43	0	5	51	1.23
5137347--5138123	54	14.4	54	76	12	563	34	0	12	52	1.42
5137424--5137466	22	2.0	22	95	0	77	37	0	11	51	1.39
5137396--5137820	134	3.1	136	88	5	555	34	0	13	51	1.44
5137347--5138028	188	3.6	188	90	4	968	34	0	12	52	1.42
5137446--5137595	80	1.9	80	94	0	264	33	0	14	51	1.48
5137634--5138108	80	5.9	80	84	7	636	33	0	13	52	1.42
5137746--5137788	22	2.0	22	100	0	86	34	0	13	51	1.42
5137933--5138054	26	4.6	26	69	18	90	31	0	14	54	1.41
5138071--5138113	22	2.0	22	90	0	68	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5138138--5138196	31	1.9	31	89	0	91	40	10	6	42	1.65
5138927--5138983	30	1.9	30	88	0	87	49	1	1	47	1.22
5144905--5144944	20	2.0	20	85	9	55	40	0	2	57	1.12
5146756--5146799	20	2.2	20	100	0	88	31	43	13	11	1.80
5161782--5161811	3	10.0	3	100	0	60	66	0	33	0	0.92
5169048--5169118	24	3.1	24	76	12	76	45	18	15	21	1.86
5173825--5173895	24	3.0	24	95	0	124	43	19	12	23	1.86
5173834--5173907	24	3.1	24	88	3	69	47	20	9	22	1.79
5178303--5178403	35	2.9	35	90	0	157	29	26	31	11	1.92
5178490--5178587	24	4.1	24	94	0	169	41	20	14	23	1.89
5182482--5182508	12	2.2	12	100	0	54	14	44	25	14	1.84
5185868--5186097	106	2.2	106	81	3	268	34	11	13	40	1.80
5190292--5190340	13	3.8	13	88	0	80	32	18	20	28	1.96
5190286--5190340	26	2.1	26	89	0	83	36	16	20	27	1.93
5191945--5192033	42	2.1	42	89	2	135	47	19	13	20	1.82
5194232--5194280	19	2.5	20	78	21	59	67	0	8	24	1.18
5200199--5200236	2	19.5	2	94	5	69	50	0	0	50	1.00
5204448--5204492	22	2.0	22	83	8	56	28	15	6	48	1.70
5206410--5206439	13	2.3	13	94	0	51	50	0	13	36	1.42
5207044--5207107	34	1.9	33	87	9	94	40	0	1	57	1.08
5207042--5207114	33	2.3	31	77	20	80	43	0	1	54	1.08
5215244--5215288	21	2.1	22	83	4	56	22	17	35	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5215839--5215871	7	4.7	7	100	0	66	15	0	0	84	0.61
5215826--5215917	45	2.0	45	81	8	107	28	4	3	64	1.28
5216053--5216143	27	3.1	29	78	10	96	41	12	7	38	1.71
5216059--5216156	29	3.4	29	72	15	87	39	11	9	39	1.73
5221613--5222075	112	4.1	112	96	0	836	44	14	15	25	1.84
5221950--5222397	182	2.5	182	91	0	709	43	13	15	27	1.84
5223038--5223085	23	2.1	23	92	0	78	37	18	8	35	1.81
5223687--5223743	18	3.3	17	80	9	62	54	5	3	36	1.40
5227209--5227278	31	2.3	31	87	0	95	28	22	10	38	1.87
5228721--5228778	30	1.9	31	89	3	91	25	29	13	31	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