genome.fa.s7960.2.7.7.80.10.50.1000.21.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  21  of  39  ( 4646 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)
4196544--4196573	13	2.4	13	94	5	53	40	10	0	50	1.36
4196924--4197072	65	2.3	64	80	3	147	32	20	16	30	1.94
4202323--4202436	5	22.6	5	70	21	60	78	3	2	15	1.01
4202312--4202475	9	17.9	9	68	15	70	76	2	4	15	1.06
4204819--4204881	11	5.9	11	69	14	51	38	1	3	57	1.24
4206005--4206070	33	1.9	34	84	9	89	48	6	0	45	1.27
4206016--4206309	34	8.8	33	73	15	162	44	6	3	45	1.43
4206080--4206192	32	3.6	31	79	14	108	41	6	4	47	1.48
4206051--4206194	64	2.3	65	78	11	172	45	5	4	45	1.46
4206158--4206308	37	4.4	34	79	15	161	41	7	3	47	1.49
4206138--4206308	33	5.1	34	77	18	155	42	7	3	46	1.49
4206275--4206323	23	2.1	23	96	0	89	46	8	0	44	1.33
4206277--4206334	23	2.4	23	88	5	80	46	8	0	44	1.34
4207439--4207555	58	2.0	58	82	9	141	33	17	3	46	1.65
4208090--4208136	20	2.3	20	78	10	51	38	4	14	42	1.66
4208205--4208242	7	5.6	7	84	6	51	47	18	0	34	1.49
4208205--4208243	20	1.9	21	89	5	62	46	17	0	35	1.49
4217563--4217773	43	4.9	43	70	4	140	30	18	22	28	1.97
4218127--4218227	21	4.8	21	81	0	85	2	40	17	38	1.65
4226042--4226267	41	5.5	41	78	9	205	30	15	15	38	1.90
4226210--4226391	42	4.4	41	75	15	144	24	18	20	36	1.94
4226235--4226389	82	1.9	83	89	4	242	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)
4226250--4226391	42	3.4	41	76	14	157	22	19	21	37	1.94
4226210--4226401	82	2.3	83	79	12	232	26	18	20	35	1.95
4226333--4226464	42	3.2	41	74	10	108	26	21	18	34	1.96
4228413--4228444	17	1.9	17	93	6	57	40	0	0	59	0.97
4231433--4231478	18	2.4	18	85	10	56	10	2	26	60	1.41
4231482--4231529	3	16.3	3	82	4	53	58	2	0	39	1.10
4236911--4236936	7	3.7	7	100	0	52	15	30	38	15	1.88
4239672--4239708	3	12.3	3	100	0	74	67	0	0	32	0.91
4240085--4240260	92	1.9	92	89	2	273	23	21	15	40	1.91
4241268--4241345	17	4.6	17	80	12	90	10	12	0	76	1.01
4241261--4241335	26	2.9	25	77	15	82	9	14	0	76	1.03
4241262--4241345	33	2.5	34	81	18	106	9	13	0	77	0.99
4241287--4241345	16	3.7	16	86	11	77	10	11	0	77	0.98
4241261--4241362	26	4.1	24	76	15	75	7	15	0	75	1.08
4241283--4241345	7	8.0	8	74	19	53	9	12	0	77	0.98
4241262--4241358	33	2.9	32	79	11	99	8	14	1	76	1.07
4254463--4254487	3	8.3	3	100	0	50	68	0	0	32	0.90
4268306--4268332	2	13.5	2	100	0	54	51	0	0	48	1.00
4269085--4269334	70	3.6	70	97	1	461	52	18	15	14	1.75
4271945--4271986	14	3.0	14	85	0	66	30	0	11	57	1.35
4272971--4273180	65	3.3	62	78	13	221	25	18	24	30	1.98
4277187--4277266	30	2.7	30	96	1	144	35	7	16	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4277332--4277397	19	3.5	19	91	0	87	39	9	13	37	1.77
4277504--4277545	21	2.0	21	95	0	75	23	21	28	26	1.99
4277829--4277898	34	2.1	32	89	5	104	31	15	31	21	1.95
4282150--4282198	19	2.7	17	84	9	53	26	20	28	24	1.99
4282169--4282274	45	2.3	45	87	4	142	29	20	20	29	1.98
4282215--4282340	65	2.0	65	82	4	157	26	17	22	33	1.96
4283008--4283047	21	1.9	21	89	0	62	25	17	35	22	1.95
4283026--4283119	42	2.2	42	83	7	111	27	18	31	22	1.97
4283408--4283464	24	2.4	24	82	8	64	63	1	0	35	1.05
4283585--4283655	29	2.4	31	79	6	76	54	1	0	43	1.08
4287343--4287823	133	3.6	133	84	6	638	24	22	18	35	1.96
4287863--4287914	16	3.3	16	70	5	52	19	25	7	48	1.75
4288769--4288819	23	2.2	23	89	6	77	5	13	0	80	0.89
4304472--4304529	24	2.3	24	80	14	64	56	1	1	39	1.19
4312567--4312748	70	2.6	69	95	0	328	14	13	17	54	1.71
4313167--4313224	29	2.0	29	86	3	80	29	24	15	31	1.95
4313320--4313394	29	2.6	29	100	0	150	28	24	12	36	1.91
4313410--4313539	51	2.5	50	82	7	154	16	34	30	19	1.93
4317777--4317816	18	2.2	18	95	0	71	22	22	30	25	1.99
4319336--4319526	104	1.8	107	94	3	343	44	12	7	35	1.71
4319798--4319920	51	2.4	51	86	2	158	21	26	32	18	1.97
4319937--4320012	29	2.6	29	87	2	89	34	11	25	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4321501--4321537	14	2.7	14	95	4	67	35	24	5	35	1.78
4327914--4327962	24	2.0	24	92	7	82	32	22	22	22	1.98
4327918--4327970	24	2.2	24	86	6	72	35	18	22	22	1.95
4335058--4335096	19	2.1	19	85	0	51	46	7	10	35	1.67
4337803--4337845	22	2.0	22	95	0	77	23	27	25	23	2.00
4338179--4338213	14	2.5	14	90	0	61	42	28	8	20	1.81
4343708--4343742	18	2.0	17	94	5	61	25	22	22	28	1.99
4343731--4343786	22	2.5	22	82	0	76	26	30	25	17	1.97
4351432--4351477	22	2.1	22	100	0	92	28	23	13	34	1.92
4354692--4354738	24	1.9	25	86	4	69	59	4	0	36	1.17
4354713--4354747	18	1.9	18	88	11	54	57	2	0	40	1.14
4359542--4359585	21	2.1	21	100	0	88	13	29	20	36	1.91
4359546--4359592	21	2.2	21	92	0	76	19	27	19	34	1.96
4359567--4359667	42	2.4	41	85	4	105	37	16	19	25	1.93
4359582--4359667	21	4.1	21	87	1	120	40	15	20	23	1.90
4359582--4359667	42	2.1	41	91	6	138	40	15	20	23	1.90
4359661--4359792	41	3.2	41	78	2	131	37	25	14	23	1.92
4359706--4359778	20	3.7	20	83	0	92	30	27	15	27	1.96
4359966--4360009	22	2.0	22	95	0	79	20	40	15	22	1.90
4360265--4360314	20	2.5	20	86	0	64	16	18	26	40	1.90
4360458--4360512	25	2.2	24	78	15	58	20	9	18	52	1.71
4362275--4362319	20	2.3	20	88	3	65	35	26	22	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4362313--4362395	19	4.6	19	79	14	104	46	20	19	13	1.82
4362402--4362478	31	2.4	33	87	8	115	10	18	23	48	1.78
4362407--4362462	14	3.9	14	77	22	62	8	17	25	48	1.76
4362464--4362514	17	2.7	19	79	14	61	17	21	23	37	1.94
4362484--4362539	20	2.9	18	80	12	58	25	14	25	35	1.93
4364328--4364366	14	2.8	14	84	0	51	35	0	17	46	1.49
4364501--4364587	19	4.8	19	84	10	121	49	16	19	14	1.80
4364583--4364701	52	2.1	55	85	10	154	15	21	21	42	1.89
4364614--4364699	20	4.4	20	80	4	113	15	22	24	38	1.92
4364981--4365032	20	2.5	21	87	3	70	21	23	17	38	1.93
4365814--4365867	24	2.2	24	93	0	90	22	14	20	42	1.88
4366038--4366062	12	2.1	12	100	0	50	72	0	28	0	0.86
4368344--4368474	19	7.7	19	65	23	85	43	19	22	14	1.87
4368344--4368470	33	3.8	33	87	4	193	43	18	22	14	1.87
4368345--4368477	66	2.0	66	95	0	239	42	18	22	16	1.89
4368470--4368528	19	3.2	19	88	9	79	16	16	22	44	1.87
4368650--4368685	13	2.6	14	86	8	56	50	25	0	25	1.50
4370391--4370544	78	1.9	79	88	7	231	44	16	13	25	1.84
4372229--4372288	19	3.1	19	83	4	75	45	18	23	13	1.84
4372238--4372318	19	4.5	19	74	16	73	39	22	23	14	1.91
4372254--4372348	33	2.9	33	92	1	156	42	22	23	12	1.87
4372948--4373059	20	5.6	20	82	4	73	21	19	20	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372966--4373182	41	5.3	40	75	8	125	26	19	19	34	1.96
4373056--4373111	20	2.7	21	80	5	69	42	16	21	19	1.89
4373055--4373121	21	3.2	21	78	4	73	38	16	22	22	1.92
4373131--4373182	20	2.5	21	87	3	70	21	23	17	38	1.93
4377605--4377923	54	5.9	54	89	0	413	10	21	23	44	1.83
4379146--4379183	9	4.2	9	100	0	76	0	55	0	44	0.99
4382452--4383113	182	3.6	182	88	1	943	43	14	14	27	1.84
4385067--4385120	24	2.4	23	85	14	69	48	0	5	46	1.25
4387353--4387596	66	3.7	66	92	0	407	34	4	21	39	1.75
4387348--4387721	132	3.0	123	81	12	474	33	5	22	38	1.77

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