genome.fa.s9592.2.7.7.80.10.50.1000.21.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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  ( 4673 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)
4212041--4212098	14	3.7	14	73	22	53	77	0	18	3	0.91
4212030--4212125	34	2.8	34	77	16	101	76	0	17	6	0.99
4213544--4214211	45	14.8	45	86	1	764	24	16	19	39	1.91
4214748--4214881	55	2.4	55	87	0	187	29	17	17	35	1.93
4214885--4215016	55	2.4	54	86	5	185	26	15	19	38	1.91
4217362--4217841	263	1.8	263	80	4	574	33	19	15	31	1.94
4217218--4217875	132	5.0	132	77	3	608	32	19	16	31	1.94
4219180--4219226	24	2.0	24	100	0	94	29	0	17	53	1.44
4222265--4222299	17	2.1	17	100	0	70	28	5	22	42	1.76
4224660--4224729	34	2.1	32	86	5	95	22	30	15	31	1.95
4225011--4225053	21	2.0	21	95	0	77	27	27	20	23	1.99
4225089--4225132	21	2.1	21	95	0	79	15	27	43	13	1.85
4225166--4225244	20	4.2	20	78	17	87	13	27	35	22	1.93
4225189--4225218	15	2.0	15	100	0	60	13	26	33	26	1.93
4226636--4226683	19	2.5	20	89	3	71	29	10	6	54	1.59
4227349--4227453	52	2.0	53	98	1	203	28	5	40	24	1.78
4227596--4227665	34	2.1	32	86	5	95	22	30	15	31	1.95
4227880--4227919	21	1.9	22	90	10	66	15	10	37	37	1.80
4227947--4227989	21	2.0	21	95	0	77	27	27	20	23	1.99
4228081--4228124	21	2.1	21	91	0	70	13	27	38	20	1.90
4228213--4228271	29	2.0	31	93	6	104	44	16	3	35	1.65
4232340--4232435	44	2.2	44	80	0	111	34	10	19	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4235753--4235788	2	17.5	2	88	5	54	47	0	2	50	1.15
4235836--4235874	11	3.3	11	86	13	51	51	7	2	38	1.44
4235894--4236065	9	19.1	9	72	16	85	47	1	4	47	1.31
4235894--4235957	21	3.1	20	80	17	69	48	1	1	48	1.20
4235908--4236063	2	80.0	2	71	18	107	47	1	4	46	1.34
4235900--4236038	45	2.9	49	70	18	121	46	1	5	47	1.33
4235899--4236038	47	2.9	49	73	12	137	46	1	5	47	1.33
4236115--4236154	21	1.9	21	89	0	62	55	30	0	15	1.41
4236460--4236485	7	3.7	7	100	0	52	46	38	0	15	1.46
4236569--4236622	20	2.6	20	83	16	74	42	5	9	42	1.60
4236576--4236671	20	4.9	19	78	15	97	43	7	6	42	1.57
4236682--4236772	21	4.3	20	71	16	58	37	6	7	48	1.58
4236677--4236792	64	1.9	60	83	11	148	37	7	7	46	1.62
4236697--4236799	22	4.8	21	77	11	84	36	5	8	48	1.58
4236788--4237034	65	3.8	64	75	16	211	44	4	3	47	1.39
4236821--4236904	43	2.1	39	86	8	114	45	5	4	44	1.49
4236746--4237020	131	2.1	133	80	9	316	43	4	4	47	1.43
4236781--4236970	31	6.0	30	70	25	115	42	4	4	47	1.45
4236970--4237057	11	7.9	11	72	22	60	50	1	1	47	1.16
4236970--4237055	22	3.9	22	76	17	72	50	1	1	47	1.16
4237002--4237066	14	4.7	14	76	18	57	49	0	1	49	1.10
4236988--4237057	36	2.1	32	84	15	88	50	0	1	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4237000--4237078	25	3.1	26	80	14	85	51	0	1	46	1.08
4237913--4237952	17	2.4	17	91	0	62	15	10	20	55	1.68
4237921--4237954	17	2.0	17	100	0	68	11	11	17	58	1.62
4237938--4238149	102	2.1	102	91	0	343	21	8	18	51	1.72
4241277--4241323	14	3.7	14	71	26	50	51	4	0	44	1.21
4241275--4241324	23	2.1	24	96	3	93	48	4	0	48	1.20
4241662--4241737	35	2.2	35	92	0	125	39	23	1	35	1.63
4242129--4242375	130	1.9	129	91	0	404	35	15	13	35	1.86
4242835--4242871	15	2.4	16	86	13	51	59	5	2	32	1.34
4243467--4243505	16	2.4	16	95	0	69	38	15	28	17	1.91
4249093--4249153	26	2.3	26	78	15	72	63	3	6	26	1.34
4249400--4249467	32	2.2	32	86	7	95	30	8	20	39	1.83
4249389--4249451	32	2.0	32	93	0	108	36	9	19	34	1.84
4249452--4249513	28	2.3	27	86	5	81	16	9	29	45	1.79
4249463--4249518	28	2.0	29	92	3	96	16	7	30	46	1.73
4250370--4250409	17	2.5	17	92	8	66	57	0	2	40	1.12
4250555--4250585	9	3.4	9	100	0	62	48	12	0	38	1.42
4251661--4251786	56	2.2	56	81	2	146	35	13	15	34	1.87
4253750--4253807	3	19.3	3	100	0	116	32	0	0	67	0.91
4263067--4263112	24	1.9	24	86	0	65	26	23	15	34	1.94
4267795--4269145	682	2.0	682	90	0	2157	32	15	20	32	1.93
4271064--4271100	19	1.9	19	88	0	56	35	5	0	59	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4271121--4271312	37	5.0	39	77	17	192	44	2	6	46	1.43
4271094--4271514	39	11.5	37	72	19	248	42	3	7	46	1.47
4271276--4271335	25	2.5	23	86	5	84	43	3	8	45	1.50
4272726--4272875	65	2.3	65	100	0	300	22	21	20	35	1.96
4274836--4275018	95	1.9	94	91	3	296	34	18	15	31	1.92
4276235--4277385	84	13.9	83	78	5	1040	31	23	19	25	1.98
4276235--4277385	167	7.0	165	81	5	1096	31	23	19	25	1.98
4276233--4277356	249	4.5	248	83	3	1192	31	23	18	26	1.98
4277810--4278241	37	11.5	37	79	12	402	42	3	7	46	1.49
4278124--4278149	12	2.2	12	100	0	52	38	7	7	46	1.61
4279401--4279443	21	2.0	22	95	4	79	18	27	27	25	1.98
4279401--4279443	11	4.0	11	93	6	79	18	27	27	25	1.98
4279938--4279999	24	2.6	24	97	0	115	27	22	17	32	1.97
4280227--4280292	30	2.2	30	88	0	96	10	30	24	34	1.89
4280917--4280951	2	17.5	2	100	0	70	51	0	0	48	1.00
4286489--4286703	107	2.0	107	95	0	385	34	11	17	36	1.86
4287031--4287067	6	6.2	6	90	0	56	40	45	13	0	1.43
4287065--4287091	5	5.4	5	100	0	54	18	40	40	0	1.51
4288619--4288657	21	1.9	20	84	5	51	56	2	0	41	1.13
4288862--4289035	5	35.2	5	97	2	334	39	0	0	60	0.97
4289992--4290832	419	2.0	418	97	0	1592	32	18	14	34	1.90
4293854--4293936	40	2.1	40	100	0	166	14	20	36	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299407--4299463	16	3.4	16	75	13	53	66	5	12	15	1.41
4301645--4301723	40	2.0	40	100	0	158	15	20	34	30	1.93
4301931--4302026	43	2.3	42	80	10	106	37	19	12	30	1.89
4302325--4302538	83	2.6	82	83	5	279	30	19	18	31	1.96
4302345--4302486	40	3.5	41	70	12	123	27	18	20	33	1.96
4304313--4304470	60	2.6	61	85	2	210	35	13	10	39	1.80
4304332--4304484	61	2.5	60	86	3	173	37	16	9	36	1.80
4306225--4306288	21	3.3	19	82	10	76	48	7	12	31	1.69
4307380--4307429	20	2.5	20	100	0	100	32	6	8	54	1.54
4309739--4309795	21	2.9	19	85	12	80	49	8	12	29	1.70
4312969--4313006	20	1.9	20	100	0	76	36	10	28	23	1.88
4312969--4313019	20	2.8	18	88	11	61	39	9	27	23	1.86
4314127--4314153	12	2.2	12	100	0	54	33	7	29	29	1.85
4314802--4314883	23	3.6	23	70	17	73	28	21	24	25	1.99
4314810--4314903	45	2.1	44	82	9	111	29	20	22	27	1.98
4324173--4324238	30	2.3	28	82	10	71	31	4	12	51	1.59
4324888--4324930	20	2.1	21	91	4	70	41	0	2	55	1.12
4328161--4328191	2	16.0	2	93	6	55	51	0	0	48	1.00
4329852--4329891	12	2.9	14	82	17	57	50	12	17	20	1.78
4332136--4332178	19	2.2	20	88	8	63	30	16	6	46	1.73
4332169--4332264	32	3.0	32	86	6	133	32	7	15	44	1.74
4332169--4332264	31	3.0	32	87	6	133	32	7	15	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4332250--4332304	13	4.2	13	75	13	58	34	3	12	49	1.59
4332704--4332745	15	2.6	16	85	7	50	33	9	7	50	1.62
4332700--4332748	16	3.1	15	77	16	55	28	14	12	44	1.81
4332839--4332870	16	2.0	17	88	11	50	43	21	21	12	1.86
4333326--4333544	112	2.0	112	100	0	438	30	22	18	27	1.98
4334099--4334295	98	2.0	98	100	0	394	24	23	25	26	2.00
4335390--4335442	23	2.3	23	86	0	70	15	15	11	58	1.63
4335401--4335445	23	2.0	23	95	0	81	8	15	17	57	1.63
4335720--4335744	11	2.3	11	100	0	50	44	8	8	40	1.63
4335662--4335751	29	2.9	29	78	8	81	48	4	6	40	1.49

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