genome.fa.s8041.2.7.7.80.10.50.1000.17.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  17  of  21  ( 2430 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)
3922738--3922859	23	5.2	23	85	1	109	23	20	26	29	1.99
3922796--3922862	24	2.8	24	97	0	125	20	26	23	28	1.99
3923925--3923970	24	1.9	24	86	8	67	50	2	0	47	1.13
3923925--3923979	23	2.3	23	81	12	58	50	3	0	45	1.19
3924193--3924247	25	2.2	24	84	9	67	49	0	0	50	1.00
3924193--3924286	20	4.1	22	71	20	68	48	1	0	50	1.07
3925378--3925557	64	2.8	63	81	9	211	28	25	17	28	1.98
3931281--3931377	44	2.2	44	85	7	126	26	26	19	26	1.99
3933232--3933261	15	2.0	15	100	0	60	20	33	26	20	1.97
3934003--3934040	20	1.9	19	89	5	58	26	36	15	21	1.93
3934024--3934148	64	2.0	64	84	6	164	28	21	16	32	1.95
3934088--3934191	45	2.3	45	86	3	138	28	20	17	33	1.95
3940088--3940200	38	3.2	33	67	17	93	15	19	36	28	1.93
3940071--3940223	72	2.1	72	95	1	272	12	20	38	28	1.89
3940113--3940226	34	3.2	34	68	13	104	12	23	36	27	1.91
3954669--3954890	111	2.0	111	96	0	408	45	10	7	36	1.67
3954954--3954992	18	2.2	18	90	4	62	64	2	2	30	1.21
3955171--3955302	51	2.6	51	77	5	151	24	28	28	18	1.98
3957322--3957384	30	2.1	30	87	0	90	52	14	7	25	1.68
3977500--3977562	6	9.8	6	79	6	54	19	20	17	42	1.89
3977500--3977562	26	2.4	26	97	0	117	19	20	17	42	1.89
3983082--3983141	27	2.2	27	85	11	79	51	18	8	21	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3984377--3984409	17	1.9	17	100	0	66	21	36	30	12	1.90
3986798--3986854	19	3.0	19	65	10	53	45	12	24	17	1.83
3986777--3986854	38	2.1	38	97	0	147	44	12	26	15	1.82
3988090--3988140	27	2.0	24	85	11	66	39	5	7	47	1.57
3993018--3993077	25	2.4	25	94	2	102	38	13	5	43	1.66
4004309--4005153	427	2.0	417	89	5	1314	35	5	20	38	1.76
4008254--4008336	29	2.9	28	78	10	87	26	13	4	55	1.58
4008286--4008343	14	4.1	14	74	12	55	29	13	1	55	1.49
4013223--4013247	13	1.9	13	100	0	50	36	0	0	64	0.94
4014628--4015001	22	17.4	22	82	8	423	42	0	8	49	1.33
4014628--4015001	44	8.7	44	86	7	473	42	0	8	49	1.33
4015164--4015321	20	7.9	20	82	8	178	37	22	18	21	1.94
4015165--4015319	40	3.9	40	86	7	217	37	21	18	21	1.94
4015164--4015320	60	2.6	61	84	7	205	37	22	18	21	1.94
4015435--4015485	22	2.3	22	96	0	93	21	43	13	21	1.87
4015690--4015721	13	2.5	13	100	0	64	0	6	15	78	0.95
4015750--4015792	20	2.2	20	91	4	70	44	25	18	11	1.84
4017921--4018039	42	2.8	42	76	9	109	23	36	19	20	1.95
4017922--4018039	21	5.6	21	72	7	78	23	37	19	19	1.94
4019441--4019480	14	2.9	14	80	0	53	30	0	17	52	1.45
4019390--4019530	66	2.2	63	88	6	205	31	0	17	51	1.50
4019390--4019547	66	2.5	62	78	7	140	32	1	15	49	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4019588--4019711	54	2.3	54	84	0	167	33	20	20	24	1.97
4019634--4019679	20	2.3	20	80	0	56	39	17	21	21	1.93
4019720--4019792	20	4.0	20	69	20	77	20	21	19	38	1.94
4020069--4020103	18	1.9	18	94	0	61	20	2	25	51	1.61
4023342--4023538	19	10.0	20	74	10	129	25	15	24	34	1.95
4023620--4023893	22	12.5	22	82	4	322	42	0	10	47	1.37
4023620--4023893	129	2.1	130	88	3	397	42	0	10	47	1.37
4023916--4023975	31	1.9	31	93	0	102	45	8	5	41	1.56
4025882--4025972	42	2.2	42	95	0	164	35	3	9	51	1.51
4028822--4028854	15	2.2	15	94	0	57	6	15	69	9	1.34
4038802--4038874	21	3.3	23	78	10	73	20	39	21	17	1.92
4038790--4038851	23	2.9	21	85	7	81	20	35	25	17	1.95
4038792--4038878	20	4.1	19	75	16	57	21	34	26	17	1.95
4045564--4045600	16	2.3	16	95	0	65	35	13	5	45	1.66
4047345--4047371	13	2.1	13	100	0	54	51	0	0	48	1.00
4047978--4048262	76	3.8	74	76	3	237	36	9	20	34	1.85
4048179--4048231	19	2.7	20	74	11	56	33	3	20	41	1.70
4049754--4049830	3	25.7	3	100	0	154	32	0	0	67	0.91
4052782--4052883	29	3.5	30	81	9	113	20	23	13	42	1.88
4052812--4052897	29	3.0	29	84	3	102	20	24	15	39	1.91
4054886--4054947	24	2.6	24	97	0	115	45	16	17	20	1.86
4054877--4054965	24	3.7	24	86	1	88	44	15	15	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4055860--4055897	20	1.9	20	100	0	76	50	18	0	31	1.47
4059131--4059332	65	3.1	65	80	11	186	31	22	18	27	1.97
4059173--4059332	65	2.5	66	84	9	188	30	21	18	28	1.97
4067971--4068178	65	3.2	62	79	12	206	31	25	17	25	1.97
4068916--4069050	61	2.2	60	94	3	243	33	23	8	34	1.86
4068916--4069050	31	4.4	32	69	15	90	33	23	8	34	1.86
4068952--4069050	31	3.2	31	69	18	98	35	23	9	32	1.86
4069723--4070080	131	2.7	131	84	1	459	31	12	16	40	1.85
4077825--4077894	36	1.9	37	82	2	88	40	5	22	31	1.78
4077830--4078207	72	5.4	70	82	4	408	42	8	19	30	1.80
4077832--4078207	144	2.7	140	83	4	472	42	8	19	30	1.80
4078445--4078543	45	2.1	47	81	9	114	50	9	16	24	1.73
4082156--4083125	489	2.0	483	86	2	1336	35	16	19	27	1.94
4083176--4083214	16	2.4	16	95	0	69	28	25	7	38	1.83
4090973--4091008	13	2.8	13	100	0	72	36	22	8	33	1.84
4090987--4091151	84	2.0	85	84	8	221	32	19	17	30	1.95
4091171--4091205	2	17.5	2	100	0	70	48	0	0	51	1.00
4091992--4092097	54	2.0	54	88	0	158	30	27	16	25	1.97
4097838--4097930	44	2.1	43	84	5	116	25	23	21	29	1.99
4097863--4097936	23	3.3	22	77	7	78	27	24	20	28	1.99
4098415--4098449	12	2.8	13	82	8	54	37	14	2	45	1.59
4100589--4100725	66	2.1	65	82	4	159	28	23	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103977--4104073	50	1.9	50	85	8	135	34	24	23	17	1.96
4104530--4104574	23	2.0	22	86	4	63	35	40	2	22	1.66
4115826--4115872	2	23.5	2	100	0	94	48	0	0	51	1.00
4115913--4116027	23	5.0	23	83	7	112	24	21	23	30	1.99
4119540--4119578	19	2.1	19	90	0	60	35	10	17	35	1.84
4120802--4120845	22	2.0	22	90	0	70	20	25	22	31	1.98
4120813--4120991	69	2.6	69	80	5	177	24	18	23	32	1.97
4120822--4120991	23	7.4	23	85	3	146	24	18	23	33	1.97
4123401--4123456	27	2.1	27	89	0	85	7	1	32	58	1.35
4123980--4124035	27	2.1	27	89	0	85	7	1	32	58	1.35
4123381--4124547	579	2.0	574	97	1	2122	32	10	14	42	1.79
4126165--4126220	28	2.0	28	86	6	78	75	3	19	1	1.05
4126438--4126488	3	17.0	3	100	0	102	66	0	33	0	0.92
4126531--4126560	15	2.0	15	100	0	60	26	6	33	33	1.83
4126533--4126566	15	2.3	15	89	0	50	32	8	29	29	1.87
4128677--4128701	13	1.9	13	100	0	50	64	16	12	8	1.49
4130794--4130833	16	2.7	16	81	14	50	32	0	0	67	0.91
4130863--4130945	39	2.1	39	86	8	116	38	13	0	48	1.42
4133152--4133209	27	2.1	27	83	0	71	41	20	15	22	1.90
4139745--4139803	27	2.2	27	79	8	68	49	22	10	18	1.77
4145324--4145674	174	2.0	176	97	2	665	31	15	17	35	1.92
4148912--4148988	35	2.2	35	90	4	120	32	19	14	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4153880--4153909	14	2.1	14	100	0	60	53	13	13	20	1.72
4157013--4157049	19	1.9	19	88	0	56	32	27	16	24	1.96
4157079--4157117	20	2.0	20	94	0	69	25	23	20	30	1.98
4157268--4157305	17	2.2	17	100	0	76	31	36	5	26	1.79
4158198--4158234	14	2.6	14	91	4	56	51	21	21	5	1.68
4160263--4160297	18	1.9	18	94	0	61	54	25	2	17	1.57
4160468--4160598	20	6.8	20	80	10	157	33	21	19	25	1.97
4160476--4160578	34	2.8	36	88	8	138	33	23	18	24	1.96
4160468--4160598	40	3.4	40	83	12	175	33	21	19	25	1.97
4160584--4160661	34	2.3	33	85	8	104	37	24	19	19	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21