genome.fa.s8527.2.7.7.80.10.50.1000.17.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  17  of  37  ( 4336 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)
4176170--4176199	14	2.1	15	93	6	53	33	0	6	60	1.23
4182818--4182872	23	2.5	22	82	5	58	41	3	7	47	1.49
4183142--4183351	65	3.3	63	78	14	205	30	23	19	26	1.98
4183323--4183371	19	2.6	19	84	9	57	24	28	20	26	1.99
4183195--4183371	65	2.7	63	79	14	182	28	23	20	27	1.99
4191900--4191957	19	3.1	19	94	0	98	31	34	15	18	1.93
4191925--4192067	65	2.2	63	82	7	171	29	24	20	25	1.99
4192039--4192087	19	2.6	19	84	9	57	24	28	20	26	1.99
4191925--4192087	64	2.5	64	81	8	179	28	25	20	26	1.99
4194163--4194256	28	3.2	27	71	19	66	44	5	8	41	1.57
4194179--4194301	60	2.1	59	82	10	144	45	9	9	34	1.70
4197186--4197240	26	2.0	27	83	13	69	38	3	5	52	1.42
4198768--4198795	14	2.0	14	100	0	56	35	28	0	35	1.58
4200732--4200912	40	4.5	40	90	2	256	36	9	8	45	1.68
4200829--4200893	21	3.2	21	62	16	55	35	13	9	41	1.77
4200911--4201074	81	2.0	81	98	0	319	32	14	19	33	1.91
4202726--4202793	17	4.2	17	81	14	81	19	44	23	13	1.85
4202748--4202783	13	2.8	13	95	4	65	16	47	25	11	1.79
4202800--4202882	29	2.9	29	94	0	148	22	9	22	44	1.82
4202830--4202905	29	2.6	29	83	6	82	28	9	23	38	1.86
4209984--4210051	17	4.2	17	81	14	81	19	44	23	13	1.85
4210006--4210041	13	2.8	13	95	4	65	16	47	25	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4210065--4210147	29	2.9	29	94	0	148	22	9	22	44	1.82
4210095--4210170	29	2.6	29	83	6	82	28	9	23	38	1.86
4213879--4213909	3	10.3	3	100	0	62	0	35	0	64	0.94
4214856--4214899	21	2.0	22	82	4	54	45	4	13	36	1.64
4215359--4215426	26	2.6	26	97	0	127	22	17	30	29	1.97
4215763--4215813	21	2.4	21	100	0	102	19	0	13	66	1.24
4216175--4216220	19	2.3	21	85	7	60	23	17	10	47	1.79
4220848--4220910	28	2.2	28	94	0	108	46	4	0	49	1.23
4220861--4220913	16	3.6	16	72	27	53	47	5	0	47	1.26
4222616--4222674	30	2.0	30	96	0	109	38	18	11	30	1.87
4225161--4225219	31	1.9	31	92	0	100	44	3	3	49	1.36
4230581--4230621	18	2.3	18	87	4	57	46	2	7	43	1.44
4233049--4233098	20	2.5	20	77	6	57	34	32	18	16	1.92
4235009--4235058	19	2.5	20	84	15	68	12	18	10	60	1.59
4235911--4235944	12	2.8	12	86	0	50	85	0	2	11	0.71
4242654--4242706	20	2.7	20	88	11	74	45	24	16	13	1.83
4242654--4242926	40	6.8	40	84	4	298	38	24	17	19	1.93
4242673--4242929	81	3.2	80	78	11	272	38	24	18	19	1.93
4242715--4242928	20	10.6	20	79	4	223	37	24	18	19	1.94
4242715--4242926	41	5.2	41	90	1	329	38	24	18	19	1.93
4243486--4243531	19	2.4	19	85	3	56	54	15	17	13	1.71
4243501--4243585	19	4.7	19	77	14	99	48	21	20	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4243598--4243679	20	4.2	19	87	6	119	9	20	18	51	1.74
4243601--4243679	39	2.0	40	90	7	126	10	21	18	49	1.77
4244752--4244840	34	2.6	34	89	0	124	14	23	17	43	1.86
4244812--4244900	20	4.4	20	85	2	126	19	21	24	34	1.96
4244814--4244900	40	2.2	40	91	4	140	19	20	24	35	1.96
4248160--4248236	20	3.9	19	84	3	73	20	18	22	38	1.93
4248168--4248248	20	4.0	20	83	1	72	22	19	19	38	1.94
4248271--4248355	19	4.3	20	71	11	59	25	18	27	28	1.98
4248325--4248599	20	13.6	20	76	9	229	19	18	24	37	1.94
4248347--4248599	41	6.2	41	86	4	327	19	18	23	37	1.94
4248344--4248599	81	3.2	81	85	6	340	19	18	23	37	1.94
4248593--4248645	21	2.5	21	73	11	54	24	18	24	32	1.97
4248587--4248681	20	4.7	20	69	18	61	21	18	27	32	1.97
4250623--4250710	24	3.7	24	89	0	131	23	20	20	35	1.96
4252351--4252475	67	1.9	66	88	5	189	27	24	23	25	2.00
4254236--4254303	23	3.0	23	73	0	64	17	26	25	30	1.97
4262091--4262136	25	2.0	22	87	12	65	23	28	10	36	1.89
4266165--4266208	20	2.2	20	83	0	52	13	15	20	50	1.78
4267835--4267903	21	3.3	21	83	0	84	18	11	31	37	1.87
4268315--4268389	21	3.6	21	85	0	96	24	32	20	24	1.98
4269881--4269928	20	2.4	20	71	0	51	35	18	22	22	1.96
4270132--4270167	18	2.0	18	94	0	63	16	2	25	55	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4270715--4270740	11	2.4	11	100	0	52	53	11	0	34	1.37
4275920--4275957	16	2.5	15	84	12	51	65	0	2	31	1.06
4276277--4276306	14	2.1	14	93	0	51	50	6	0	43	1.28
4276379--4276434	7	8.1	7	86	4	51	21	0	32	46	1.52
4276380--4276433	14	3.9	14	79	11	58	22	0	29	48	1.51
4278401--4278448	24	2.0	24	91	0	78	25	8	25	41	1.83
4278412--4278448	12	3.1	12	92	0	65	21	8	29	40	1.82
4278406--4278460	24	2.3	24	87	3	76	25	12	25	36	1.91
4278698--4278794	20	4.8	20	69	12	65	38	14	20	26	1.91
4278778--4278941	20	8.0	20	73	14	111	27	15	27	29	1.96
4278777--4278899	41	3.0	41	81	9	126	30	16	25	28	1.96
4278827--4278922	42	2.3	41	84	8	115	28	13	28	30	1.94
4281544--4281577	17	1.9	18	88	5	52	50	0	0	50	1.00
4283126--4283162	18	2.1	18	94	0	65	29	0	0	70	0.88
4283127--4283175	25	2.0	25	84	8	64	30	0	2	67	1.02
4283132--4283175	18	2.4	18	85	7	54	29	0	2	68	1.02
4284176--4284227	21	2.5	21	87	3	70	38	17	25	19	1.93
4284216--4284350	20	6.7	20	77	7	103	34	23	17	25	1.96
4284213--4284344	61	2.2	61	84	0	165	36	23	15	24	1.94
4284518--4284561	22	2.0	22	90	0	70	20	43	15	20	1.88
4284824--4284882	20	3.0	20	87	0	73	16	18	22	42	1.89
4285019--4285073	25	2.2	26	81	15	71	20	9	16	54	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4286202--4286246	18	2.5	18	88	0	72	26	44	15	13	1.83
4286722--4286777	20	2.8	20	83	2	69	37	23	23	16	1.93
4286761--4286857	19	5.6	19	71	22	97	46	20	19	13	1.83
4286761--4286854	33	2.8	33	95	0	170	46	20	19	13	1.83
4286777--4286835	14	3.9	14	74	20	55	49	22	16	11	1.78
4286869--4286958	14	5.8	14	71	21	72	11	17	24	46	1.81
4286864--4286971	33	3.3	33	93	1	182	11	18	24	46	1.81
4286960--4287015	20	2.8	19	84	7	67	17	23	23	35	1.95
4287381--4287468	41	2.1	41	85	2	122	21	43	14	20	1.88
4288878--4288916	14	2.8	14	84	0	51	35	0	17	46	1.49
4289053--4289101	19	2.6	19	96	0	89	48	14	20	16	1.80
4289151--4289214	20	3.2	20	69	8	67	17	21	21	39	1.93
4289428--4289477	20	2.5	20	80	0	73	22	18	22	38	1.94
4289752--4289785	12	2.9	12	86	4	52	17	41	5	35	1.74
4290340--4290393	24	2.2	24	93	0	90	22	14	20	42	1.88
4290568--4290592	12	2.1	12	100	0	50	72	0	28	0	0.86
4292816--4292885	19	3.7	19	98	0	131	45	18	21	14	1.84
4292796--4292896	38	2.6	38	84	1	139	40	19	19	19	1.92
4292881--4292970	33	2.7	33	87	0	126	13	22	22	42	1.88
4293077--4293113	14	2.6	14	91	0	65	45	24	0	29	1.53
4294809--4294993	91	2.0	90	90	6	291	47	18	11	22	1.81
4296679--4296789	40	3.0	38	78	15	133	44	19	22	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4296680--4296825	19	8.1	19	75	17	141	44	19	23	12	1.84
4296705--4296770	33	2.0	34	90	3	107	40	22	24	12	1.88
4296688--4296825	52	2.6	52	91	2	213	43	21	23	12	1.86
4296821--4296887	19	3.5	19	85	2	89	10	16	25	47	1.78
4297394--4297568	20	8.6	20	70	17	69	29	20	20	29	1.98
4297434--4297506	21	3.5	20	77	3	58	36	20	20	21	1.95
4297481--4297572	41	2.2	41	86	0	121	26	21	20	31	1.98
4297577--4297629	21	2.5	22	78	6	65	33	18	24	22	1.97
4297932--4297959	2	14.0	2	100	0	56	50	0	0	50	1.00
4306063--4306089	3	9.0	3	100	0	54	66	0	0	33	0.92

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