genome.fa.s1547.2.7.7.80.10.50.1000.22.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  22  of  51  ( 6083 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)
4295418--4295462	20	2.2	20	88	0	63	33	28	20	17	1.95
4295689--4295729	18	2.3	18	91	0	64	19	2	24	53	1.57
4297977--4298030	24	2.2	24	90	0	81	40	20	16	22	1.91
4298768--4298805	16	2.5	15	84	12	51	65	0	5	28	1.14
4298813--4298869	22	2.6	21	91	2	87	26	7	36	29	1.83
4298967--4299021	18	2.8	20	86	8	69	40	10	14	34	1.81
4299005--4299128	20	6.2	20	69	9	54	36	12	20	30	1.89
4304208--4304233	3	8.7	3	100	0	52	69	0	0	30	0.89
4305146--4305335	42	4.6	42	83	2	231	26	21	19	32	1.97
4305147--4305334	82	2.3	84	83	5	240	27	21	19	32	1.97
4305270--4305398	62	2.0	64	89	5	201	27	24	18	29	1.98
4305235--4305435	104	1.9	104	85	2	278	27	21	18	31	1.97
4305334--4305427	40	2.3	40	81	3	116	29	20	18	31	1.96
4305339--4305466	42	3.1	42	80	4	145	26	19	19	34	1.96
4305268--4305642	197	1.9	197	84	3	504	26	19	19	34	1.95
4305622--4305814	81	2.4	81	79	3	190	29	17	18	34	1.94
4305531--4305865	42	8.1	42	74	4	189	28	17	19	35	1.94
4305534--4305796	123	2.1	124	80	2	287	28	17	19	34	1.95
4308811--4309023	36	6.0	36	86	1	259	32	22	24	20	1.98
4308811--4309023	107	2.0	107	84	5	279	32	22	24	20	1.98
4311434--4311506	19	3.8	19	85	3	94	19	30	28	21	1.98
4311434--4311507	38	1.9	38	86	5	105	18	29	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4311440--4311514	19	3.9	20	84	3	75	20	29	28	22	1.98
4311523--4311658	29	4.7	28	81	6	155	33	5	23	36	1.79
4318932--4318980	10	5.1	10	72	18	50	18	28	32	20	1.96
4318933--4318980	19	2.5	19	89	0	78	16	29	33	20	1.95
4318909--4318982	29	2.6	28	83	10	96	16	31	32	20	1.94
4319011--4319174	29	5.6	29	80	6	163	37	6	20	34	1.79
4319011--4319174	58	2.8	58	83	8	190	37	6	20	34	1.79
4329903--4329939	15	2.5	15	95	0	65	8	70	16	5	1.30
4332347--4332371	2	12.5	2	100	0	50	48	0	0	52	1.00
4338582--4338650	36	1.9	35	91	8	113	26	24	13	36	1.92
4339501--4339926	106	4.0	106	92	0	665	34	24	18	21	1.96
4341180--4341219	18	2.3	18	83	8	57	25	5	2	67	1.23
4341223--4341249	2	13.5	2	100	0	54	48	0	0	51	1.00
4341804--4341844	2	20.5	2	100	0	82	48	0	0	51	1.00
4344578--4344634	2	28.5	2	100	0	114	49	0	0	50	1.00
4346637--4346686	2	25.0	2	100	0	100	50	0	0	50	1.00
4346872--4346914	5	8.6	5	85	10	61	79	2	0	18	0.85
4348656--4348684	3	9.7	3	100	0	58	68	0	0	31	0.89
4348891--4349222	134	2.5	134	88	0	475	25	19	30	24	1.98
4349111--4349238	43	3.0	43	72	20	124	24	21	31	23	1.98
4349118--4349233	40	2.8	40	76	13	103	24	21	31	23	1.99
4349519--4349829	36	9.0	35	72	15	184	37	11	18	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4349519--4349828	72	4.5	68	71	18	237	37	11	18	32	1.86
4349725--4349866	36	3.9	36	79	8	144	36	14	16	31	1.90
4350171--4350248	16	4.8	16	91	3	111	24	5	25	44	1.74
4350175--4350260	16	5.2	17	86	8	81	23	3	26	46	1.68
4350182--4350248	4	16.8	4	90	0	107	23	4	25	46	1.71
4351440--4351541	11	9.1	11	70	25	63	2	16	9	70	1.26
4351492--4351549	14	3.9	15	74	17	59	1	15	8	74	1.14
4351446--4351510	26	2.5	26	73	14	71	3	15	9	72	1.23
4352138--4352176	20	2.0	20	89	0	60	38	15	15	30	1.88
4355338--4355379	5	8.6	5	84	10	52	78	2	0	19	0.86
4357112--4357146	3	11.7	3	100	0	70	68	0	0	31	0.90
4359470--4359524	29	1.9	29	92	3	94	14	10	7	67	1.41
4363971--4364001	2	15.5	2	93	0	53	45	0	3	51	1.17
4363971--4364006	12	3.0	12	91	0	54	41	0	5	52	1.24
4373769--4373827	26	2.3	25	86	11	84	42	0	3	54	1.17
4373858--4374031	86	2.0	86	100	0	348	43	9	9	37	1.69
4383469--4383496	10	2.8	10	100	0	56	53	0	17	28	1.44
4387551--4387759	106	2.0	103	97	2	391	46	5	21	25	1.73
4387714--4387842	41	3.3	41	63	29	102	43	6	20	29	1.78
4387692--4387839	74	2.0	73	98	1	287	43	6	18	30	1.76
4388114--4388234	64	1.9	63	87	1	179	37	22	16	23	1.94
4388114--4388275	63	2.5	64	81	8	179	33	21	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4389566--4389608	21	2.0	21	100	0	86	25	18	27	27	1.98
4395100--4395217	55	2.1	56	98	1	229	47	10	20	22	1.79
4395395--4395452	20	2.9	20	73	0	62	31	20	22	25	1.98
4397025--4397071	19	2.5	19	100	0	94	53	27	8	10	1.64
4404228--4404471	121	2.0	121	99	0	479	30	15	9	43	1.80
4404509--4404535	14	1.9	14	100	0	54	40	0	0	59	0.98
4407669--4407694	13	2.0	13	100	0	52	61	15	15	7	1.55
4408716--4408762	23	2.0	23	100	0	94	34	27	21	17	1.95
4410357--4410427	27	2.5	31	73	20	80	60	2	0	36	1.11
4410362--4410419	27	2.1	27	87	6	82	63	1	0	34	1.04
4413745--4413805	28	2.2	28	78	0	68	54	1	8	36	1.40
4414486--4414518	9	3.8	9	84	8	50	36	0	3	60	1.12
4414485--4414518	17	2.0	17	100	0	68	35	0	5	58	1.22
4416264--4416331	33	2.1	33	82	0	82	20	44	13	22	1.86
4423385--4423421	19	1.9	19	88	0	56	32	13	18	35	1.90
4438954--4439037	27	3.1	27	83	11	86	38	30	9	21	1.85
4438977--4439037	27	2.3	27	88	5	88	37	31	9	21	1.86
4459854--4459910	3	19.3	3	89	3	89	35	1	0	63	1.05
4459846--4459883	20	1.9	20	88	0	58	39	2	0	57	1.12
4459960--4460029	29	2.4	29	92	0	113	30	35	22	11	1.90
4462068--4462222	63	2.5	62	90	8	244	29	21	16	31	1.96
4462788--4462824	19	1.9	19	100	0	74	27	8	32	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4464176--4464244	36	1.9	36	93	0	120	40	14	13	31	1.84
4467384--4467466	7	11.9	7	81	10	98	79	0	19	1	0.80
4467386--4467463	21	3.7	22	86	6	108	78	0	20	1	0.83
4469041--4469157	54	2.1	54	87	1	162	36	13	23	26	1.92
4470230--4470847	218	2.8	218	91	0	979	31	17	20	30	1.96
4472616--4472647	15	2.1	16	94	5	57	28	0	0	71	0.86
4472660--4472698	17	2.3	17	82	13	53	33	0	0	66	0.92
4472529--4472800	150	1.8	148	81	12	342	37	5	6	50	1.52
4474617--4474663	19	2.5	19	100	0	94	4	27	4	63	1.31
4476690--4476732	22	2.0	22	85	0	59	18	20	18	41	1.90
4478820--4478991	20	8.4	20	71	11	98	26	24	20	27	1.99
4478835--4478893	21	2.7	22	76	5	75	22	25	20	32	1.98
4478878--4478973	40	2.4	40	94	0	165	33	21	21	22	1.97
4479269--4479296	9	3.1	9	100	0	56	57	32	0	10	1.33
4479608--4479714	20	5.5	19	80	5	81	15	15	23	44	1.85
4479678--4479721	20	2.2	20	87	0	61	13	13	18	54	1.71
4481449--4481498	18	2.8	18	100	0	100	32	20	6	42	1.76
4481646--4481691	20	2.3	20	84	0	56	36	23	17	21	1.94
4481736--4481801	20	3.4	18	86	12	87	18	16	27	37	1.92
4482247--4482329	42	2.0	42	83	4	105	21	38	19	20	1.93
4483683--4483748	30	2.2	30	100	0	132	28	3	13	54	1.54
4483844--4484048	20	10.9	20	73	12	164	23	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4483805--4484045	54	4.4	54	80	7	250	22	19	20	36	1.95
4484223--4484257	18	1.9	18	94	0	61	20	2	22	54	1.58
4487378--4487511	20	6.7	20	79	6	128	26	22	21	29	1.99
4487416--4487511	40	2.4	40	94	0	174	23	21	19	34	1.97
4489206--4489257	26	2.0	26	84	3	68	32	7	3	55	1.46
4497606--4497645	19	2.2	18	86	4	53	35	5	5	55	1.44
4502462--4502543	29	2.8	30	78	16	82	18	15	12	53	1.72
4506688--4506903	105	2.0	106	88	2	319	39	12	12	34	1.82
4507981--4508040	31	1.9	31	83	6	77	53	6	10	30	1.60
4508860--4508945	24	3.6	24	82	3	84	44	20	11	23	1.84

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   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51