genome.fa.s9624.2.7.7.80.10.50.1000.18.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  18  of  38  ( 4514 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)
3443448--3443505	7	8.3	7	74	0	53	48	32	0	18	1.49
3443866--3443901	15	2.4	15	90	0	54	52	8	0	38	1.32
3443842--3443890	23	2.1	24	92	3	82	48	6	2	42	1.39
3443998--3444040	21	2.1	20	91	4	68	48	34	0	16	1.46
3443976--3444019	14	3.1	14	83	0	61	54	27	0	18	1.44
3445103--3445153	19	2.7	19	79	8	61	25	13	35	25	1.93
3446670--3446765	44	2.2	43	83	7	113	29	18	23	28	1.98
3450579--3450618	21	1.9	21	85	10	55	35	10	2	52	1.48
3452561--3452723	65	2.5	64	82	3	211	26	14	26	31	1.95
3452604--3452641	19	2.0	20	94	5	69	15	21	31	31	1.94
3452673--3452721	19	2.7	18	84	9	64	24	16	34	24	1.95
3453220--3453274	16	3.4	16	76	0	56	34	14	21	29	1.93
3453247--3453284	16	2.4	16	90	0	58	39	10	28	21	1.86
3459556--3459590	4	8.8	4	93	0	61	51	20	0	28	1.47
3468405--3468466	29	2.1	31	84	6	83	32	20	14	32	1.93
3468405--3468466	30	2.1	30	85	11	83	32	20	14	32	1.93
3468446--3468525	21	3.8	21	81	6	90	28	21	15	35	1.93
3470201--3470246	21	2.2	21	88	3	67	32	28	17	21	1.96
3470286--3470359	21	3.5	21	74	7	69	33	25	13	27	1.93
3470302--3470368	21	3.2	20	72	8	62	38	22	14	23	1.92
3471072--3471206	64	2.1	65	84	6	177	27	16	23	32	1.96
3474530--3474683	77	2.0	75	97	2	290	21	19	15	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478733--3478758	11	2.4	11	100	0	52	7	26	7	57	1.54
3478998--3479159	67	2.5	64	82	8	184	29	14	20	35	1.92
3483575--3483638	12	5.3	12	78	0	65	48	18	12	20	1.80
3483992--3484052	27	2.3	27	91	0	95	36	16	16	31	1.91
3485323--3485353	15	2.1	15	100	0	62	41	19	0	38	1.51
3485981--3486068	30	2.9	30	89	0	131	31	25	23	19	1.98
3488223--3488316	24	3.9	24	80	2	91	48	12	12	25	1.77
3489040--3489084	19	2.3	20	84	3	56	37	2	8	51	1.46
3489280--3489334	20	2.7	20	88	2	83	14	38	25	21	1.92
3491334--3491424	31	3.0	31	96	1	166	26	25	30	17	1.97
3491464--3491535	18	3.9	18	90	5	101	9	33	31	25	1.88
3491811--3491859	25	2.0	25	91	0	80	24	8	46	20	1.77
3492794--3492888	17	5.2	17	76	15	75	76	0	3	20	0.91
3492812--3492883	13	5.7	13	75	20	64	75	0	2	22	0.94
3492827--3492871	4	10.8	4	81	9	54	77	0	4	17	0.92
3492899--3492934	11	3.3	11	88	11	56	83	0	2	13	0.76
3494743--3494958	33	6.6	33	91	1	337	31	9	18	40	1.83
3495011--3495335	36	9.1	36	81	8	380	39	13	20	26	1.90
3495011--3495335	73	4.6	73	80	9	411	39	13	20	26	1.90
3495046--3495294	138	1.8	137	88	2	383	39	13	20	26	1.89
3494983--3495323	174	2.0	175	89	2	535	40	13	20	26	1.89
3495205--3495305	21	5.4	21	65	26	82	41	10	21	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3495196--3495353	36	4.4	34	91	4	199	40	12	20	26	1.88
3500680--3500709	13	2.3	13	94	0	51	70	0	0	30	0.88
3500846--3500903	18	3.3	16	77	13	53	79	0	6	13	0.93
3502224--3502264	21	2.0	21	85	0	55	63	7	2	26	1.33
3504960--3505023	19	3.3	19	72	12	67	23	17	15	43	1.87
3504961--3505025	20	3.3	20	68	12	62	23	16	15	44	1.86
3505050--3505091	21	2.1	21	86	8	61	30	7	23	38	1.82
3507825--3507872	15	3.2	15	74	11	53	31	8	2	58	1.39
3515303--3515374	36	2.0	37	94	2	128	30	18	13	37	1.89
3519063--3519129	20	3.4	20	85	2	82	37	20	8	32	1.84
3519053--3519147	39	2.4	41	77	7	106	31	22	12	33	1.91
3531854--3531932	10	8.3	10	77	19	89	13	29	30	26	1.94
3531833--3531926	19	4.8	19	83	15	113	15	26	28	28	1.96
3531833--3531932	29	3.4	31	78	12	104	16	28	28	28	1.97
3539053--3539140	10	9.1	9	74	14	59	17	27	27	28	1.97
3539053--3539140	19	4.5	20	75	16	76	17	27	27	28	1.97
3539053--3539121	29	2.3	30	85	7	88	15	26	27	30	1.96
3539089--3539143	19	2.8	19	88	2	83	21	30	23	23	1.99
3539169--3539205	7	5.4	7	93	6	67	16	29	29	24	1.96
3539169--3539201	13	2.5	13	95	5	57	15	30	30	24	1.95
3540901--3540950	20	2.5	20	86	0	73	32	26	16	26	1.96
3551774--3551865	2	47.0	2	95	4	170	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3552541--3552586	25	1.9	24	82	8	58	36	2	15	45	1.58
3554070--3554161	18	5.1	18	87	0	139	18	19	42	19	1.90
3558585--3558694	18	6.1	18	91	0	175	19	20	41	18	1.90
3558993--3559035	20	2.2	20	86	0	59	34	20	13	30	1.92
3559765--3560094	165	2.0	165	100	0	660	30	19	16	33	1.94
3563251--3563286	18	2.0	18	94	0	63	47	19	11	22	1.80
3563418--3563542	60	2.1	60	81	3	144	40	15	8	36	1.78
3566800--3566857	29	2.0	29	89	0	89	15	36	25	22	1.94
3566900--3566941	14	3.0	14	96	0	75	21	40	28	9	1.84
3566914--3566974	24	2.6	23	81	2	68	24	36	29	9	1.88
3566929--3567008	33	2.4	33	87	0	106	26	28	35	10	1.89
3567016--3567071	29	1.9	29	92	0	94	19	28	37	14	1.91
3567142--3567198	29	2.0	29	92	0	96	21	29	33	15	1.94
3570932--3571005	40	1.9	37	84	10	96	50	5	16	28	1.67
3570645--3572151	768	2.0	759	92	3	2533	36	12	12	38	1.81
3577361--3577427	33	1.9	34	91	8	109	29	11	14	43	1.82
3579450--3579520	25	3.1	25	61	23	64	23	18	11	46	1.81
3579436--3579648	44	4.8	44	89	1	311	26	20	11	42	1.85
3585728--3585809	20	3.9	20	71	12	65	25	32	25	15	1.96
3586483--3586516	12	2.8	12	95	0	59	29	50	0	20	1.49
3587783--3587816	17	2.0	17	88	0	50	14	2	29	52	1.56
3589253--3589386	44	3.0	43	88	4	180	26	21	11	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590076--3590143	21	3.1	21	70	21	59	22	4	0	73	1.01
3590074--3590147	20	3.8	19	74	16	62	24	4	0	71	1.03
3590074--3590149	23	3.5	21	75	16	68	25	3	0	71	1.03
3590196--3590277	39	2.1	40	88	2	121	26	6	3	63	1.35
3590428--3590472	18	2.6	17	86	13	65	17	13	0	68	1.20
3590529--3590595	26	2.5	27	78	9	75	11	5	5	76	1.15
3592423--3592463	7	5.7	7	85	2	55	14	17	12	56	1.68
3593700--3593751	27	2.0	25	92	7	86	75	3	17	3	1.11
3593702--3593750	13	3.8	13	84	15	66	75	4	18	2	1.06
3595492--3595821	36	9.5	37	71	18	126	28	20	12	38	1.89
3595492--3595578	37	2.4	37	84	5	106	25	21	12	40	1.89
3595405--3595781	102	3.7	102	88	2	456	29	19	12	38	1.88
3595411--3595781	203	1.8	204	81	4	471	29	19	12	37	1.89
3595614--3595873	138	1.9	138	90	3	416	26	20	13	40	1.89
3595701--3595819	36	3.3	36	85	2	166	26	21	14	37	1.91
3595768--3595939	65	2.6	67	87	4	224	29	21	9	39	1.84
3596660--3596926	110	2.5	108	79	6	292	33	23	18	24	1.97
3598263--3598330	23	2.9	22	78	12	64	27	4	0	67	1.09
3598298--3598337	14	2.7	14	84	7	53	32	2	0	65	1.06
3598267--3598328	25	2.8	21	75	18	54	25	4	0	69	1.08
3598393--3598454	19	3.2	19	70	20	56	30	6	3	59	1.38
3598702--3598738	11	3.2	11	88	11	56	16	2	2	78	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3599510--3599564	22	2.6	22	76	18	55	21	18	14	45	1.85
3605779--3606027	44	5.6	44	87	2	372	24	24	12	38	1.91
3605779--3606027	91	2.8	87	87	6	381	24	24	12	38	1.91
3606004--3606047	20	2.2	20	96	4	81	25	34	11	29	1.91
3605960--3606088	64	2.0	63	95	1	231	24	26	11	37	1.89
3606022--3606111	44	2.0	45	89	6	139	23	23	10	43	1.83
3609813--3609850	20	1.9	19	85	15	51	63	2	7	26	1.35
3610380--3610707	116	2.8	115	82	5	342	35	16	22	25	1.94
3610817--3610977	36	4.5	35	76	7	144	28	16	8	46	1.75
3615029--3615310	138	2.0	139	78	3	300	31	13	14	39	1.85

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