genome.fa.s7957.2.7.7.80.10.50.1000.21.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  21  of  43  ( 5063 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)
4256141--4256178	20	1.9	20	88	0	58	21	13	34	31	1.91
4257201--4257234	16	2.0	18	88	11	54	32	8	47	11	1.71
4265128--4265152	13	1.9	13	100	0	50	32	16	24	28	1.96
4269078--4269117	21	1.9	21	85	10	55	42	2	5	50	1.37
4273290--4273315	11	2.4	11	100	0	52	53	30	7	7	1.57
4273305--4273626	20	15.9	20	76	15	222	39	24	19	16	1.91
4273305--4273626	62	5.3	62	78	13	296	39	24	19	16	1.91
4273738--4273805	6	11.3	6	98	0	127	33	48	17	0	1.48
4274111--4274155	6	7.5	6	100	0	90	0	15	51	33	1.44
4274266--4274395	20	6.4	20	78	8	138	16	21	24	36	1.94
4274266--4274373	40	2.7	40	92	0	180	16	22	23	37	1.93
4274279--4274399	60	2.0	62	90	6	194	17	22	23	37	1.94
4274279--4274457	20	8.9	19	74	12	121	17	21	21	40	1.92
4276099--4276142	20	2.3	19	84	4	52	61	15	2	20	1.45
4276539--4276594	2	28.0	2	100	0	112	50	0	0	50	1.00
4279359--4279424	30	2.2	30	83	0	78	37	24	27	10	1.88
4280187--4280221	10	3.4	10	96	4	61	25	31	25	17	1.97
4282126--4282186	32	1.9	32	89	0	95	31	18	14	36	1.91
4302882--4302906	13	1.9	13	100	0	50	56	16	8	20	1.65
4303418--4303466	2	24.5	2	100	0	98	51	0	0	48	1.00
4307507--4307635	62	2.1	63	82	7	158	41	13	12	33	1.81
4308376--4308400	10	2.5	10	100	0	50	20	20	12	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4314428--4314476	19	2.7	17	84	9	53	26	20	28	24	1.99
4314448--4314607	65	2.5	65	84	7	202	26	18	23	31	1.97
4314995--4315050	16	3.4	16	71	9	58	28	32	0	39	1.57
4314994--4315078	34	2.5	34	98	1	163	30	32	0	36	1.58
4315760--4315803	21	2.1	21	86	0	61	38	15	38	6	1.75
4317342--4317438	44	2.2	44	85	7	126	25	21	24	27	1.99
4317339--4317419	23	3.6	22	78	8	83	24	24	24	25	2.00
4322815--4322859	19	2.5	17	85	10	54	28	22	24	24	1.99
4322840--4322948	56	1.9	55	83	9	139	28	20	21	30	1.98
4326075--4326108	15	2.3	15	90	5	52	38	0	2	58	1.13
4326107--4326162	3	18.7	3	96	0	103	64	0	1	33	1.04
4326298--4327282	113	8.7	113	93	2	1483	28	19	14	37	1.91
4326298--4327277	228	4.3	226	91	2	1509	28	19	14	37	1.91
4327911--4328380	83	5.7	83	92	2	750	36	22	14	26	1.92
4327911--4328380	249	1.9	249	95	0	861	36	22	14	26	1.92
4329160--4329199	16	2.5	16	88	8	55	52	10	7	30	1.62
4342353--4342386	15	2.3	15	90	5	52	38	0	2	58	1.13
4342385--4342440	3	18.7	3	96	0	103	64	0	1	33	1.04
4344440--4344476	12	2.7	15	84	16	53	40	2	0	56	1.13
4345429--4345478	2	25.0	2	95	0	91	48	0	2	50	1.12
4347828--4347877	25	2.0	25	84	0	64	34	4	0	62	1.14
4357222--4357249	14	2.0	14	100	0	56	14	14	14	57	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4359464--4359562	31	3.2	30	80	11	94	19	12	18	50	1.77
4359476--4359563	31	2.8	31	78	10	99	18	14	17	50	1.79
4359748--4359784	19	2.0	19	89	5	58	43	0	0	56	0.99
4361232--4361443	105	2.0	106	98	1	408	33	15	12	39	1.84
4365072--4365116	21	2.1	22	87	8	74	26	31	26	15	1.96
4365919--4366020	31	3.3	31	97	0	186	38	20	19	21	1.94
4374168--4374208	19	2.3	18	87	8	57	63	0	2	34	1.08
4375806--4375833	2	14.0	2	100	0	56	0	50	0	50	1.00
4376335--4376363	2	14.5	2	100	0	58	0	48	0	51	1.00
4376363--4376391	2	14.5	2	100	0	58	48	0	0	51	1.00
4386530--4386554	7	3.6	7	100	0	50	64	24	0	12	1.27
4386529--4386562	14	2.4	14	85	0	50	67	20	0	11	1.21
4387537--4387594	29	2.0	30	82	3	73	24	15	12	48	1.79
4388296--4388377	41	2.0	41	100	0	164	29	21	14	34	1.93
4388838--4388876	20	2.0	21	90	10	64	30	0	0	69	0.89
4388901--4388945	23	2.0	23	86	0	63	31	6	4	57	1.44
4391421--4391465	12	3.8	12	82	5	56	66	8	0	24	1.20
4392719--4392753	17	2.0	17	88	5	52	74	0	0	25	0.82
4392713--4392784	28	2.6	28	82	6	85	70	2	0	26	1.00
4392713--4392785	31	2.4	30	82	11	85	69	2	0	27	1.02
4392782--4393117	38	8.9	37	77	13	262	42	8	4	44	1.55
4392769--4393022	39	6.8	38	84	7	290	43	7	4	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4392769--4393122	36	9.4	37	78	11	296	43	7	4	44	1.53
4401030--4401073	3	15.0	3	81	13	56	70	2	0	27	0.99
4402326--4402364	18	2.2	18	85	0	51	79	2	2	15	0.95
4402326--4402398	31	2.2	35	80	9	82	72	2	1	23	1.05
4402334--4402399	28	2.3	29	82	5	82	69	3	0	27	1.03
4402409--4402770	36	9.6	36	77	9	271	42	8	4	45	1.54
4402409--4402776	38	9.8	35	75	14	256	42	8	4	45	1.54
4403760--4403785	5	5.2	5	100	0	52	0	19	57	23	1.40
4404533--4404599	31	2.2	31	89	5	100	31	1	4	62	1.24
4404653--4404683	16	1.9	16	93	0	53	29	16	3	51	1.59
4405960--4406101	50	2.8	50	88	2	194	19	16	11	52	1.74
4412323--4412356	11	3.1	11	95	0	59	58	0	0	41	0.98
4414915--4414956	20	2.1	20	86	8	59	28	45	21	4	1.72
4418200--4418288	19	4.7	19	74	2	63	48	13	20	17	1.81
4419016--4419794	389	2.0	389	97	0	1488	28	17	15	38	1.90
4428231--4428316	16	5.2	17	72	14	56	75	0	8	16	1.03
4428239--4428324	26	3.2	26	77	12	84	75	0	6	17	1.01
4428259--4428320	10	6.2	10	78	14	74	77	0	4	17	0.94
4428249--4428324	6	12.2	6	74	14	57	76	0	6	17	0.99
4428398--4428467	4	18.2	4	71	19	51	70	4	1	24	1.14
4428408--4428469	12	5.2	12	79	13	58	69	4	1	24	1.17
4429173--4429270	37	2.6	37	85	0	115	30	13	14	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4429962--4431435	106	14.0	106	90	1	2176	23	18	24	33	1.96
4431400--4431515	49	2.5	46	75	9	110	19	14	27	37	1.91
4432256--4432311	22	2.5	22	94	0	103	26	12	25	35	1.91
4432926--4432950	13	1.9	13	100	0	50	0	12	8	80	0.92
4432926--4432973	21	2.3	22	82	10	64	0	12	8	79	0.94
4434143--4434178	8	4.6	8	89	6	56	55	13	16	13	1.69
4434143--4434178	15	2.3	15	90	4	54	55	13	16	13	1.69
4437443--4437502	18	3.2	17	78	21	59	76	0	5	18	0.96
4438323--4438426	37	2.8	37	85	0	136	36	12	9	41	1.76
4439950--4440061	32	3.5	32	75	6	100	28	26	28	16	1.97
4441136--4441198	27	2.3	28	83	2	74	20	6	23	49	1.72
4445037--4445357	162	2.0	163	98	1	628	22	26	17	33	1.96
4453936--4453984	19	2.5	20	78	18	59	28	16	24	30	1.96
4456397--4456464	28	2.3	30	92	7	113	27	14	30	26	1.95
4459833--4459888	2	28.0	2	100	0	112	50	0	0	50	1.00
4461988--4462021	17	1.9	18	94	5	61	52	0	0	47	1.00
4477465--4477489	6	4.2	6	100	0	50	48	0	0	52	1.00
4477979--4478016	19	2.1	19	85	5	51	21	2	5	71	1.19
4482882--4482937	2	28.5	2	96	3	105	51	0	0	48	1.00
4482786--4483100	168	1.9	169	90	7	516	36	7	11	43	1.71
4483384--4483881	55	9.1	55	83	6	546	28	23	18	29	1.98
4487220--4487444	59	3.8	59	81	6	260	37	10	21	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4487467--4487579	59	1.9	59	82	7	140	35	12	20	31	1.90
4490348--4490409	18	3.3	18	78	8	61	41	1	0	56	1.09
4498090--4498614	54	9.7	54	87	1	631	31	18	19	30	1.96
4498335--4498420	27	3.2	27	65	12	68	31	18	22	27	1.97
4510059--4510126	24	2.8	23	79	16	75	14	1	26	57	1.46
4513115--4513268	54	2.9	54	78	9	152	37	18	14	30	1.90
4513232--4513752	54	9.8	54	85	4	585	31	16	19	32	1.94
4513340--4513425	27	3.2	26	67	23	70	32	18	19	29	1.96
4517968--4518392	213	2.0	213	98	0	823	38	13	11	36	1.81
4522009--4522371	181	2.0	181	97	2	694	38	19	17	24	1.93

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