genome.fa.s9001.2.7.7.80.10.50.1000.23.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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  23  of  24  ( 2777 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)
4562260--4562309	21	2.4	21	86	6	66	18	2	4	76	1.04
4562260--4562309	14	3.6	14	75	20	50	18	2	4	76	1.04
4562260--4562310	20	2.5	19	81	15	57	19	1	3	74	1.07
4563964--4564016	26	2.0	26	96	0	97	35	7	7	49	1.60
4565484--4565526	18	2.5	17	85	7	61	25	4	2	67	1.22
4566041--4566078	2	19.0	2	100	0	76	50	0	0	50	1.00
4567282--4567310	5	5.8	5	100	0	58	17	0	0	82	0.66
4569865--4569919	12	4.6	12	84	11	69	80	7	12	0	0.91
4569868--4569906	11	3.5	11	89	10	53	84	7	7	0	0.77
4570517--4570560	22	2.0	22	91	8	72	38	22	11	27	1.88
4571526--4571650	36	3.4	36	83	2	160	25	20	13	40	1.89
4571608--4571782	68	2.6	68	83	4	205	32	21	8	37	1.84
4572426--4573149	105	7.0	105	93	1	1140	33	26	17	22	1.96
4572426--4573149	207	3.5	208	90	2	1116	33	26	17	22	1.96
4574303--4574345	18	2.5	17	85	7	61	25	4	2	67	1.22
4574405--4574439	2	17.5	2	100	0	70	48	0	0	51	1.00
4574871--4574900	2	15.0	2	92	0	51	46	0	0	53	1.00
4575482--4575516	7	5.0	7	100	0	70	28	42	14	14	1.84
4577981--4578111	65	2.0	65	100	0	262	38	15	15	30	1.88
4578812--4578844	15	2.2	15	94	0	57	6	15	0	78	0.93
4579576--4579695	41	2.9	41	98	0	231	33	23	2	40	1.68
4582072--4582115	22	2.0	23	86	4	63	36	20	9	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4582945--4583105	51	3.1	51	90	0	250	32	12	13	40	1.82
4584663--4584700	20	1.9	20	88	0	58	36	5	0	57	1.21
4595134--4595168	18	2.0	17	88	5	52	48	5	2	42	1.41
4597969--4598011	22	2.0	22	85	0	59	46	13	16	23	1.83
4598657--4598717	21	2.8	22	85	2	88	29	24	24	21	1.99
4600540--4600580	17	2.4	17	95	0	73	46	0	7	46	1.30
4601537--4601736	18	11.1	18	67	18	121	41	7	7	44	1.60
4601511--4601678	51	3.1	51	71	14	135	43	5	5	44	1.53
4601548--4601760	33	6.6	32	74	15	188	41	7	7	43	1.61
4601549--4601663	58	2.0	58	94	0	203	43	7	6	42	1.58
4601622--4601679	17	3.5	17	70	13	57	48	6	3	41	1.47
4601548--4601722	91	1.9	93	89	7	275	41	7	7	43	1.61
4601797--4601867	2	33.0	2	73	18	54	47	2	5	43	1.41
4601802--4601865	9	6.7	9	71	25	51	48	1	6	43	1.37
4601775--4601843	34	2.0	36	85	5	97	43	2	7	46	1.46
4601797--4601867	20	3.5	19	81	9	79	47	2	5	43	1.41
4601792--4601868	29	2.6	29	80	10	77	48	2	6	42	1.42
4601832--4601953	53	2.3	52	90	2	192	45	6	9	38	1.62
4601853--4601979	33	4.4	31	69	25	98	41	7	10	40	1.66
4601904--4601971	33	2.1	33	94	0	118	41	5	10	42	1.63
4601950--4602026	18	3.9	18	76	18	73	41	6	9	42	1.62
4601950--4602029	42	1.9	42	92	0	133	41	6	8	43	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4601950--4602045	42	2.3	42	85	7	124	40	8	8	42	1.65
4602051--4602096	18	2.6	17	79	3	56	41	6	8	43	1.61
4602070--4602136	33	2.1	32	91	2	107	50	4	5	38	1.47
4602087--4602147	23	2.7	23	79	16	74	54	1	6	37	1.37
4602100--4602149	13	3.8	13	77	17	59	54	2	6	38	1.37
4602218--4602268	17	2.9	17	82	2	66	50	5	1	41	1.37
4602274--4602311	11	3.5	11	88	0	58	44	2	2	50	1.30
4602352--4602412	27	2.2	28	85	2	79	40	4	6	47	1.51
4602404--4602513	2	53.0	2	77	10	96	45	4	1	48	1.33
4602352--4602513	20	8.2	19	74	13	107	43	4	3	48	1.42
4602766--4602802	20	1.9	18	89	10	56	32	5	16	45	1.70
4602534--4603351	209	3.8	213	92	2	1271	28	12	8	50	1.69
4603628--4603669	16	2.6	16	75	14	50	38	23	21	16	1.93
4608806--4608863	23	2.4	23	77	11	55	60	0	3	36	1.14
4609033--4609082	23	2.2	23	85	0	64	42	6	20	32	1.76
4608996--4609158	87	1.9	87	96	0	299	41	11	14	31	1.82
4609185--4609753	199	2.9	197	85	6	749	30	15	14	39	1.88
4613476--4613533	28	2.2	26	87	6	80	32	5	0	62	1.18
4615191--4615256	27	2.5	26	80	2	78	18	12	10	59	1.61
4617979--4618142	8	20.8	8	89	6	140	84	0	14	0	0.65
4617978--4618142	24	7.0	24	86	8	214	84	0	14	0	0.65
4617978--4618134	16	10.0	16	87	8	216	85	0	14	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4618003--4618133	1	131.0	1	77	0	127	88	0	10	0	0.55
4621482--4621652	75	2.3	75	81	1	200	29	17	21	31	1.96
4622521--4622624	54	1.9	54	92	0	172	36	13	22	27	1.92
4623525--4623975	123	3.7	122	82	4	584	38	15	19	26	1.92
4623407--4624409	246	4.4	237	74	14	809	37	16	19	26	1.92
4624039--4624293	101	2.4	104	82	11	304	36	15	20	27	1.92
4624762--4624823	3	21.0	3	74	9	56	29	1	0	69	0.98
4624789--4624824	18	2.0	18	94	0	63	33	2	0	63	1.08
4626191--4626273	23	3.7	22	75	15	73	24	4	3	67	1.26
4626202--4626277	11	6.9	11	75	15	68	25	5	2	67	1.25
4628433--4628532	33	3.0	33	95	0	182	24	46	0	30	1.53
4628566--4628609	21	2.1	21	95	0	79	13	34	11	40	1.81
4629977--4630024	17	3.0	15	77	14	51	56	27	0	16	1.41
4630332--4630357	12	2.2	12	100	0	52	0	38	34	26	1.57
4635826--4635865	21	1.9	21	85	10	55	35	10	2	52	1.48
4638253--4638308	24	2.4	23	80	8	69	51	3	0	44	1.18
4640156--4641013	182	4.7	182	87	2	1132	28	15	14	41	1.86
4641699--4641742	23	1.9	23	85	0	61	27	2	0	70	0.99
4641700--4641761	26	2.3	26	78	8	72	32	1	0	66	1.02
4642758--4642812	25	2.1	27	87	12	80	60	14	9	16	1.59
4650532--4650572	20	2.1	19	86	4	55	56	0	2	41	1.13
4654300--4654325	12	2.2	12	100	0	52	7	7	7	76	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4657063--4657219	60	2.6	60	79	9	178	33	24	5	35	1.79
4661515--4661563	21	2.3	21	80	13	55	38	4	0	57	1.18
4661720--4661756	20	1.9	19	89	10	58	45	10	24	18	1.81
4662373--4662410	20	1.9	20	94	0	67	44	10	23	21	1.83
4662375--4662416	20	2.2	19	83	8	50	50	9	19	21	1.75
4661692--4663017	661	2.0	661	92	0	2233	38	12	15	33	1.85
4666273--4666506	15	15.6	15	92	0	387	36	6	16	40	1.74
4675589--4675625	16	2.3	16	90	9	58	0	13	37	48	1.43
4675790--4675846	29	2.0	29	89	0	87	45	8	1	43	1.45
4676012--4676048	2	19.0	2	94	5	67	51	0	0	48	1.00
4676363--4676482	51	2.4	51	87	1	170	15	34	31	19	1.92
4676592--4676632	10	4.1	10	84	12	57	31	29	0	39	1.57
4676653--4676681	14	2.1	14	93	6	51	27	6	0	65	1.18
4681611--4681649	20	2.0	20	84	0	51	23	7	23	46	1.78
4681805--4681844	21	1.9	21	89	0	62	15	25	35	25	1.94
4681827--4681887	20	2.9	21	82	9	79	21	24	32	21	1.98
4687453--4687860	203	2.0	203	97	0	764	30	20	25	24	1.98
4688850--4688977	51	2.5	51	87	1	168	17	30	35	16	1.93
4690195--4690235	22	1.9	22	90	5	66	34	4	12	48	1.62
4690462--4690496	19	1.9	17	88	11	52	65	0	0	34	0.93
4690735--4690795	31	2.0	31	90	0	95	27	6	9	55	1.57
4691063--4691138	31	2.5	30	86	2	98	46	2	3	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693737--4693770	17	2.0	17	94	0	59	32	32	0	35	1.58
4694789--4694834	20	2.2	21	96	3	85	26	17	19	36	1.94
4701558--4701652	48	2.0	48	81	4	111	17	12	23	46	1.82
4702053--4702091	12	3.3	11	86	13	51	53	0	0	46	1.00
4710185--4710281	24	4.0	24	95	0	167	36	20	26	16	1.94
4713798--4713849	14	3.8	14	78	17	56	34	7	0	57	1.27
4713796--4713846	26	1.9	27	96	4	95	33	7	0	58	1.27
4713800--4713864	26	2.4	26	84	7	76	38	6	0	55	1.25
4714047--4714088	22	2.0	22	86	13	61	71	4	0	23	1.05
4715317--4715384	3	22.7	3	96	0	127	33	1	0	64	1.02

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