genome.fa.s8323.2.7.7.80.10.50.1000.22.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  22  of  26  ( 3017 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)
4391186--4391243	23	2.5	23	94	0	98	15	17	22	44	1.86
4393467--4393868	199	2.0	201	98	0	781	41	9	12	36	1.76
4395875--4396001	66	2.0	64	95	3	227	41	15	14	28	1.86
4397226--4397273	24	2.0	24	83	0	60	66	0	4	29	1.10
4397903--4398049	73	2.0	72	86	8	197	57	11	1	29	1.43
4399938--4399992	5	10.8	5	88	3	83	80	1	1	16	0.90
4399949--4399993	21	2.1	21	95	0	81	82	2	0	15	0.77
4399943--4399992	26	1.9	26	95	0	91	80	2	2	16	0.91
4400144--4400219	24	3.2	24	94	0	125	36	18	9	35	1.83
4403369--4403395	11	2.5	11	100	0	54	37	25	18	18	1.94
4405501--4405559	15	3.3	19	75	24	65	71	0	3	25	1.02
4405501--4405554	24	2.3	23	82	17	67	72	0	3	24	1.01
4405600--4405642	18	2.4	18	88	7	61	72	0	4	23	1.04
4406234--4406383	75	2.0	76	88	6	225	56	12	0	30	1.40
4416195--4416255	21	2.9	22	85	4	74	50	9	16	22	1.74
4420204--4420252	20	2.5	21	84	12	61	20	10	8	61	1.53
4421418--4421466	23	2.1	23	100	0	98	18	18	20	42	1.89
4424938--4424984	18	2.6	18	86	0	76	31	17	27	23	1.96
4431593--4431651	22	2.5	24	76	18	61	37	3	23	35	1.72
4433656--4433688	14	2.4	14	94	0	57	24	6	33	36	1.80
4434272--4434313	21	2.0	21	85	4	57	26	16	30	26	1.97
4442162--4442221	27	2.2	27	88	5	86	20	15	18	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4442169--4442221	27	1.9	27	92	3	88	16	15	18	49	1.80
4447707--4447737	5	6.2	5	100	0	62	19	0	0	80	0.71
4447809--4448083	39	7.1	39	77	11	228	44	2	7	45	1.46
4448063--4448096	2	17.5	2	93	6	61	50	0	0	50	1.00
4448027--4448139	54	2.2	53	92	6	187	46	0	3	50	1.18
4447877--4448237	38	8.8	43	73	18	201	45	1	5	46	1.38
4448083--4448237	81	2.0	80	83	11	205	46	1	5	46	1.36
4449634--4449724	21	4.4	20	73	20	73	20	6	1	71	1.15
4449715--4449773	26	2.4	23	81	16	57	18	5	3	72	1.17
4459435--4459464	13	2.2	14	94	5	53	46	13	0	40	1.43
4471773--4472022	85	2.9	85	90	0	356	36	20	16	26	1.94
4472877--4472973	36	2.6	38	79	11	103	49	4	4	42	1.41
4472976--4473027	26	2.0	26	88	0	77	38	1	13	46	1.54
4472937--4473078	66	2.1	66	83	8	173	42	2	9	45	1.49
4472975--4473034	26	2.2	26	82	5	75	33	1	16	48	1.56
4473003--4473108	38	2.7	40	83	5	135	43	0	7	48	1.38
4473088--4473125	2	19.5	2	94	5	69	50	0	0	50	1.00
4472911--4473106	105	1.9	105	86	4	279	43	1	8	45	1.44
4473439--4473530	45	2.1	44	93	2	157	20	43	14	21	1.87
4473440--4473527	22	4.0	23	88	5	137	21	44	12	21	1.85
4473869--4473907	20	2.0	20	100	0	78	51	20	12	15	1.76
4475277--4475368	42	2.2	42	86	0	130	28	35	16	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4475753--4475798	4	11.5	4	80	0	56	26	2	4	67	1.21
4475948--4476039	21	4.4	21	79	2	96	23	34	19	21	1.96
4475946--4476039	42	2.2	42	85	7	120	24	35	19	21	1.96
4479819--4479863	24	1.9	23	86	13	65	4	20	13	62	1.48
4480033--4480082	24	2.1	24	88	0	73	38	22	20	20	1.94
4480211--4480244	12	2.8	12	90	0	50	17	0	26	55	1.42
4481031--4481185	20	7.6	21	70	18	78	32	12	23	30	1.92
4481043--4481142	40	2.5	40	81	4	121	37	14	20	29	1.91
4481091--4481203	20	5.6	20	78	8	93	26	11	28	33	1.91
4481104--4481203	42	2.5	40	83	6	112	27	10	29	34	1.89
4481310--4481525	38	5.5	38	87	7	299	44	1	4	49	1.32
4481310--4481525	79	2.8	77	86	6	301	44	1	4	49	1.32
4481311--4481554	38	6.2	37	85	8	231	43	2	4	49	1.35
4482627--4482676	26	1.9	26	95	0	91	32	18	20	30	1.96
4482694--4482731	20	1.9	20	94	0	67	18	15	34	31	1.92
4484261--4484348	3	29.0	3	88	2	122	37	0	1	61	1.04
4485157--4485185	13	2.2	13	100	0	58	0	31	62	6	1.22
4485763--4485866	52	2.0	52	81	11	122	27	4	3	63	1.32
4485818--4485893	35	2.2	35	79	9	84	35	3	1	59	1.24
4491230--4491255	11	2.4	11	100	0	52	88	0	11	0	0.52
4493354--4493543	93	2.0	93	89	6	287	28	12	21	37	1.89
4494699--4494869	75	2.3	75	82	4	202	32	18	21	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4496105--4496159	22	2.5	22	90	0	92	34	12	14	38	1.84
4496834--4497627	76	10.4	76	96	1	1455	22	21	21	34	1.97
4496834--4497627	153	5.2	153	97	0	1484	22	21	21	34	1.97
4497758--4497827	3	23.0	3	86	2	95	37	0	1	61	1.05
4497756--4497836	15	5.6	15	80	12	80	40	0	1	58	1.06
4497758--4497836	18	4.2	17	74	17	68	39	0	1	59	1.06
4499298--4499373	35	2.2	35	79	9	84	35	3	1	59	1.24
4507085--4507176	45	2.0	46	91	2	150	25	18	27	29	1.98
4507194--4507231	20	1.9	20	94	0	67	18	15	34	31	1.92
4510335--4510401	24	2.8	24	81	0	89	22	19	17	40	1.92
4515308--4515353	18	2.6	18	78	0	56	52	0	0	47	1.00
4519461--4519518	26	2.3	26	91	8	95	18	0	17	63	1.31
4521338--4521365	5	5.6	5	100	0	56	0	17	0	82	0.68
4524939--4525137	99	2.0	99	93	0	335	40	17	10	32	1.83
4527383--4527429	18	2.7	18	90	3	69	34	8	29	27	1.87
4527757--4527805	19	2.5	19	90	3	71	30	32	16	20	1.94
4527839--4527885	21	2.2	21	80	0	58	21	21	19	38	1.94
4527921--4528049	20	6.4	20	76	7	100	32	23	13	31	1.93
4527928--4528005	40	1.9	41	87	7	115	33	21	14	30	1.93
4527857--4528049	101	1.9	101	80	8	223	33	22	13	30	1.93
4527921--4528024	41	2.6	39	76	13	104	32	23	13	30	1.93
4528838--4528871	12	2.8	12	90	0	50	55	29	0	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4529685--4529738	24	2.2	24	93	0	90	40	20	18	20	1.91
4529685--4529752	24	2.8	24	84	0	64	38	20	17	23	1.93
4529864--4529897	12	2.8	12	90	0	50	14	0	29	55	1.40
4540298--4540347	18	2.8	18	84	6	66	52	12	12	24	1.72
4540356--4540505	81	1.9	80	84	1	201	29	14	24	31	1.95
4540353--4540485	20	6.6	20	80	5	124	30	14	24	30	1.94
4540474--4540517	20	2.2	20	100	0	88	13	13	27	45	1.81
4540353--4540505	40	3.8	39	75	5	126	28	14	24	32	1.94
4541044--4541069	11	2.4	11	100	0	52	80	0	0	19	0.71
4546850--4546957	45	2.4	46	89	4	157	28	20	20	30	1.97
4546926--4546974	19	2.6	19	84	9	57	24	28	20	26	1.99
4548705--4548745	15	2.7	15	92	0	64	31	9	39	19	1.84
4552740--4552832	43	2.2	43	83	11	120	29	24	20	25	1.99
4552741--4552812	21	3.4	21	80	12	69	29	23	20	26	1.99
4552760--4552839	23	3.6	22	77	11	83	27	23	22	26	2.00
4554437--4554595	65	2.5	64	83	4	178	30	20	18	30	1.96
4560399--4560442	21	2.1	21	82	0	52	9	38	15	36	1.80
4560765--4560796	14	2.1	16	88	11	50	9	3	18	68	1.30
4560845--4560909	2	32.5	2	100	0	130	49	0	0	50	1.00
4561109--4561138	15	2.0	15	100	0	60	33	6	6	53	1.53
4561517--4561581	29	2.2	29	97	0	121	26	21	26	26	2.00
4562792--4562855	4	16.0	4	76	12	51	73	4	4	17	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4562797--4562855	16	3.7	16	73	6	57	72	5	5	16	1.20
4564759--4565161	117	3.5	116	84	3	472	26	16	21	35	1.94
4566138--4566163	13	2.0	13	100	0	52	0	15	0	84	0.62
4574684--4574843	66	2.4	66	94	1	286	33	24	16	25	1.96
4574833--4574898	19	3.5	19	97	0	114	34	30	16	18	1.93
4580049--4580150	23	4.5	22	80	6	116	28	21	19	30	1.98
4582740--4582947	64	3.2	65	81	7	212	30	25	16	27	1.97
4585357--4585395	17	2.2	17	86	4	51	41	5	10	43	1.61
4590741--4590813	23	3.2	23	88	0	110	36	23	5	34	1.78
4590339--4592130	489	3.7	490	97	1	3361	40	10	7	41	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