genome.fa.s8094.2.7.7.80.10.50.1000.21.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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  ( 5090 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)
4150052--4150389	42	8.3	41	73	10	219	29	19	18	33	1.95
4150038--4150389	83	4.3	80	72	10	239	29	19	18	32	1.95
4150038--4150494	41	11.2	41	72	8	295	29	19	17	32	1.95
4154145--4154203	21	2.8	21	84	0	73	18	5	20	55	1.61
4154315--4154409	43	2.2	43	83	7	113	23	18	22	35	1.96
4154399--4154624	43	5.3	43	90	0	308	25	23	23	27	2.00
4154356--4154624	129	2.1	129	80	2	299	25	23	23	28	1.99
4166937--4166999	28	2.2	28	83	11	74	31	6	34	26	1.82
4172455--4172549	44	2.1	45	88	1	138	30	6	22	41	1.78
4176365--4176500	66	2.1	66	100	0	272	38	8	13	40	1.74
4176581--4176610	2	15.0	2	100	0	60	50	0	0	50	1.00
4185240--4185296	22	2.6	22	76	13	64	26	14	26	33	1.94
4185258--4185316	21	2.9	21	75	12	59	33	10	23	32	1.88
4186757--4186791	8	4.4	8	96	0	61	71	17	0	11	1.14
4189367--4189420	25	2.1	25	83	10	65	51	3	0	44	1.19
4189493--4189668	43	4.1	43	96	0	316	40	5	14	39	1.70
4193468--4193520	19	2.7	20	79	5	72	28	30	15	26	1.96
4193528--4193594	21	3.2	21	89	0	98	23	23	17	34	1.96
4193586--4193737	20	7.2	20	77	14	155	40	22	17	19	1.92
4193622--4193755	67	2.0	67	88	1	196	40	21	17	20	1.91
4194129--4194160	13	2.5	13	100	0	64	0	6	15	78	0.95
4194172--4194217	20	2.3	20	92	3	76	47	23	17	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4196402--4196501	42	2.4	42	81	6	121	27	34	16	23	1.95
4196402--4196501	21	4.8	21	71	11	71	27	34	16	23	1.95
4197860--4198000	66	2.2	66	82	8	168	31	1	16	50	1.54
4198279--4198365	39	2.2	39	95	0	156	17	13	20	48	1.81
4198670--4198706	18	2.1	18	89	0	56	51	10	5	32	1.60
4199093--4199142	25	2.0	25	96	0	91	44	22	8	26	1.80
4199237--4199340	20	5.2	20	95	0	172	31	25	18	24	1.97
4202898--4203074	21	8.7	21	76	12	111	27	15	25	30	1.96
4202999--4203049	20	2.5	20	72	12	59	25	15	29	29	1.96
4204074--4204109	11	3.2	11	88	4	54	77	0	0	22	0.76
4204201--4204236	15	2.3	16	90	4	56	69	2	13	13	1.30
4204210--4204252	17	2.6	17	81	3	52	76	2	11	9	1.10
4204359--4204395	2	18.5	2	91	0	56	54	2	0	43	1.14
4204301--4204404	10	10.8	10	72	19	69	62	1	0	34	1.13
4204338--4204493	12	13.4	12	71	12	67	64	2	1	32	1.15
4204462--4204491	11	2.6	12	89	10	53	76	0	0	23	0.78
4204379--4204504	55	2.4	53	76	11	118	62	3	2	31	1.23
4205729--4205815	18	4.8	18	91	0	138	29	32	21	16	1.95
4206383--4206543	64	2.5	66	80	8	163	26	19	19	34	1.96
4212684--4212718	18	1.9	18	100	0	70	25	34	22	17	1.96
4213312--4213433	64	1.9	64	83	3	156	25	17	20	36	1.94
4214735--4214769	18	1.9	18	88	0	52	28	31	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4215382--4215503	64	1.9	64	84	3	165	25	18	20	36	1.95
4217467--4218275	80	9.9	80	85	4	895	23	18	22	35	1.96
4217441--4218283	243	3.4	243	82	6	905	24	18	22	35	1.96
4217467--4218276	323	2.5	325	84	3	1018	23	18	22	35	1.96
4219181--4219441	95	2.7	95	82	8	296	32	17	16	33	1.93
4222189--4222227	20	2.0	20	84	0	51	69	0	2	28	1.02
4222345--4222401	24	2.4	24	82	5	62	70	0	14	15	1.18
4222444--4222549	2	53.5	2	77	12	85	55	1	0	41	1.17
4239318--4239389	13	5.2	13	71	15	63	18	40	22	19	1.92
4239332--4239368	18	2.1	18	94	0	65	18	40	21	18	1.91
4239314--4239385	31	2.3	31	85	0	99	18	44	20	16	1.87
4240224--4240260	17	2.1	18	90	5	58	43	5	13	37	1.67
4242202--4242496	43	6.8	43	89	1	430	16	27	24	31	1.96
4244303--4244344	18	2.3	18	91	0	66	16	47	21	14	1.82
4244321--4244350	13	2.3	13	94	0	51	16	43	23	16	1.87
4247154--4247468	43	7.3	44	90	3	480	17	27	24	31	1.97
4248429--4248458	15	1.9	16	93	6	53	40	30	0	30	1.57
4249543--4249590	17	2.7	18	90	3	71	31	8	29	31	1.87
4250130--4250198	38	2.0	34	83	16	88	49	30	5	14	1.67
4250197--4250268	31	2.3	31	80	2	81	45	25	5	23	1.74
4251450--4251525	32	2.4	32	100	0	152	42	21	13	23	1.88
4256007--4256049	23	1.9	23	85	4	61	11	23	41	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4258548--4258631	23	3.7	23	87	1	116	22	23	29	23	1.99
4258529--4258633	45	2.4	44	87	6	151	20	25	29	24	1.99
4263721--4263750	15	2.0	15	100	0	60	40	13	20	26	1.89
4285453--4285493	5	7.8	5	89	10	64	17	0	0	82	0.66
4285453--4285494	11	3.9	11	96	3	77	16	0	0	83	0.65
4285452--4285493	16	2.7	15	92	7	66	16	0	0	83	0.65
4285458--4285505	22	2.2	22	88	0	69	14	4	2	79	0.98
4286677--4286711	15	2.2	16	90	5	54	82	0	8	8	0.83
4288940--4288991	20	2.5	21	82	17	65	34	19	23	23	1.96
4289016--4289065	19	2.5	20	93	3	84	28	16	30	26	1.96
4289396--4289774	58	6.5	58	84	1	472	35	10	18	35	1.86
4289395--4289734	117	2.9	117	87	0	493	33	11	19	36	1.87
4289402--4289728	175	1.9	174	91	0	537	34	11	18	36	1.86
4291974--4292012	21	1.9	20	84	5	51	33	10	17	38	1.84
4297265--4297313	25	2.0	25	88	7	75	46	0	0	53	1.00
4299217--4299274	27	2.1	27	90	0	89	31	25	3	39	1.73
4302644--4302694	24	2.1	24	89	7	77	31	37	13	17	1.89
4302799--4302892	33	2.8	32	73	15	84	48	0	0	51	1.00
4304356--4304431	17	4.3	18	85	5	102	44	13	10	31	1.77
4304356--4304439	18	4.8	18	82	4	109	45	11	10	32	1.75
4304356--4304443	35	2.5	35	92	0	140	44	11	10	34	1.74
4314956--4315050	4	23.8	4	82	0	109	26	8	25	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4314958--4315048	8	11.9	8	88	9	127	26	8	25	39	1.85
4315809--4315878	12	5.8	13	73	15	53	52	17	11	18	1.73
4315814--4315893	24	3.3	24	78	13	83	50	17	11	21	1.77
4315808--4315915	24	4.5	24	76	9	78	48	17	13	20	1.81
4320491--4320575	24	3.6	24	75	1	82	51	17	9	21	1.73
4320484--4320574	48	1.9	47	88	2	137	52	17	9	19	1.72
4320484--4320589	48	2.2	48	85	5	135	51	16	10	20	1.74
4323518--4323575	4	14.5	4	100	0	116	25	0	24	50	1.50
4324843--4324892	24	2.1	23	89	10	75	46	0	4	50	1.20
4324843--4324892	23	2.1	24	88	3	75	46	0	4	50	1.20
4325107--4325148	21	2.0	21	95	0	75	2	19	26	52	1.58
4326702--4326774	19	4.0	19	72	21	66	35	13	6	43	1.71
4328089--4328137	2	27.0	2	78	19	54	46	0	0	53	1.00
4331453--4331630	45	4.0	45	92	0	302	30	21	6	40	1.79
4332144--4332216	30	2.4	30	86	4	94	32	19	6	41	1.78
4336792--4337057	45	5.9	45	95	0	471	31	22	6	38	1.81
4344984--4345161	90	2.0	90	89	0	275	44	6	10	38	1.64
4347390--4347468	30	2.6	30	86	4	97	34	17	7	40	1.78
4347841--4348092	55	4.6	54	83	3	292	35	21	14	28	1.93
4347847--4348085	110	2.2	110	88	3	347	36	20	14	28	1.92
4349007--4349048	19	2.2	20	86	4	59	73	0	4	21	1.01
4349031--4349056	12	2.2	12	100	0	52	61	0	15	23	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4352981--4353081	3	33.7	3	91	0	157	34	3	0	61	1.15
4353948--4353972	9	2.8	9	100	0	50	36	8	56	0	1.29
4354532--4354572	20	2.0	20	86	13	57	39	2	0	58	1.11
4365918--4366011	16	5.9	16	79	17	90	78	0	18	3	0.88
4365918--4366010	27	3.5	27	85	11	113	79	0	17	3	0.86
4365928--4366011	32	2.7	29	81	15	105	78	0	17	3	0.89
4365921--4366006	9	10.5	8	74	10	68	80	0	16	3	0.85
4367053--4367605	84	6.6	82	91	4	815	28	12	22	36	1.91
4368345--4368894	113	4.9	113	95	0	944	37	12	19	30	1.89
4369212--4369315	3	34.7	3	94	0	181	34	1	0	63	1.06

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