genome.fa.s8716.2.7.7.80.10.50.1000.14.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  14  of  24  ( 2813 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)
3554765--3554798	16	2.1	16	88	0	50	52	2	17	26	1.58
3555119--3555170	21	2.5	21	87	3	70	38	17	25	19	1.93
3555172--3555300	20	6.4	20	85	5	143	31	24	18	24	1.97
3555177--3555280	41	2.6	40	83	4	120	33	24	18	24	1.97
3555461--3555515	22	2.5	22	75	0	65	18	41	20	20	1.90
3555828--3555872	19	2.4	19	92	0	72	48	26	15	8	1.74
3555868--3555985	19	6.1	19	85	3	155	11	22	19	45	1.83
3558128--3558194	21	3.2	21	66	6	55	23	35	20	19	1.95
3558076--3558194	42	2.8	42	81	5	107	22	36	18	22	1.95
3559546--3559582	14	2.6	14	86	0	56	32	0	21	45	1.52
3559704--3559768	14	4.3	14	73	17	58	46	21	23	9	1.80
3559689--3559778	33	2.7	33	92	0	144	43	21	21	14	1.87
3559689--3559749	19	3.5	19	74	21	69	44	21	21	13	1.86
3559778--3559904	33	3.8	33	82	8	168	14	22	19	44	1.86
3562178--3562202	12	2.1	12	100	0	50	0	28	0	72	0.86
3562372--3562424	23	2.2	24	86	3	72	39	20	16	22	1.92
3563478--3563535	20	2.9	20	94	0	98	36	24	24	15	1.94
3563554--3563621	19	3.8	19	83	12	83	13	22	17	47	1.82
3563738--3563774	14	2.6	14	86	0	56	48	21	0	29	1.50
3565631--3565696	20	3.4	19	81	6	78	37	24	24	13	1.91
3565669--3565726	14	3.4	18	71	24	54	46	22	18	12	1.82
3565685--3565741	14	3.8	14	78	17	69	49	26	15	8	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3565669--3565747	32	2.4	33	93	2	133	46	24	17	11	1.81
3565778--3565833	14	3.7	14	78	17	67	10	16	23	50	1.76
3565759--3565849	32	2.8	33	94	3	166	12	18	20	48	1.80
3565834--3565888	20	2.8	19	83	8	65	16	23	23	36	1.94
3566370--3566408	18	2.2	18	90	0	60	12	17	43	25	1.85
3568013--3568056	22	2.0	22	95	0	79	18	15	45	20	1.85
3568244--3568357	20	5.7	20	82	6	122	24	18	26	30	1.98
3568224--3568359	41	3.3	41	79	6	159	24	17	25	33	1.97
3568224--3568379	41	3.8	41	76	3	109	23	19	24	33	1.97
3578896--3578924	2	15.0	2	92	7	51	0	51	0	48	1.00
3578894--3578921	13	2.2	13	100	0	56	0	53	0	46	1.00
3585964--3586082	59	2.0	59	87	4	170	36	16	12	34	1.87
3586566--3586600	16	2.3	15	90	5	52	48	0	0	51	1.00
3587483--3587557	37	2.0	37	84	0	96	40	18	16	25	1.91
3587846--3587890	17	2.5	20	75	24	62	46	0	4	48	1.22
3592169--3592221	2	26.5	2	100	0	106	50	0	0	49	1.00
3597587--3597626	21	1.9	21	85	10	55	37	7	2	52	1.43
3597660--3597728	6	11.5	6	100	0	138	33	0	50	15	1.45
3601162--3601187	2	13.0	2	100	0	52	50	0	0	50	1.00
3612190--3612264	35	2.1	35	85	4	98	36	26	26	10	1.89
3612341--3612431	24	3.8	24	82	2	112	38	19	16	25	1.92
3614931--3614979	13	3.4	13	75	24	53	16	22	44	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3614937--3614978	18	2.3	18	95	0	75	11	23	47	16	1.80
3616957--3617031	35	2.1	35	85	0	96	34	28	26	10	1.90
3619636--3619675	18	2.2	18	100	0	80	10	15	52	22	1.71
3619629--3619689	31	2.0	31	86	0	86	14	16	47	21	1.82
3619629--3619658	13	2.3	13	94	0	51	13	20	46	20	1.83
3621934--3621958	2	12.5	2	100	0	50	48	0	0	52	1.00
3623671--3623708	2	19.0	2	94	0	67	47	0	2	50	1.15
3625009--3625049	22	2.0	22	85	9	59	41	2	7	48	1.44
3626235--3626277	19	2.3	18	84	4	50	55	2	0	41	1.12
3626714--3627024	104	3.1	97	81	10	313	30	13	24	31	1.94
3626769--3627024	104	2.4	105	87	3	365	30	14	25	30	1.95
3637599--3637647	23	2.1	23	81	11	55	30	0	2	67	1.02
3637835--3637866	13	2.5	13	94	0	55	56	0	0	43	0.99
3638572--3638637	25	2.8	24	75	6	73	40	7	1	50	1.40
3645025--3645086	31	2.0	32	84	15	85	32	4	9	53	1.55
3647348--3647407	24	2.5	24	83	0	84	25	18	18	38	1.93
3651506--3651594	21	4.2	21	77	11	92	25	19	32	22	1.97
3651506--3651587	42	2.0	42	85	7	114	28	18	34	19	1.95
3653246--3653362	61	1.9	61	94	0	207	25	28	20	25	1.99
3658707--3658815	39	2.6	45	75	17	131	33	33	17	16	1.92
3684414--3684574	80	2.0	80	96	1	297	29	21	22	25	1.99
3692639--3692669	13	2.4	13	100	0	62	45	22	0	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692662--3692802	36	3.9	35	87	6	185	53	16	8	21	1.68
3692668--3692800	70	1.9	70	87	4	189	53	15	9	21	1.70
3699993--3700126	70	1.9	70	84	3	180	35	13	5	45	1.68
3700231--3700347	58	2.0	58	85	1	155	29	23	11	35	1.89
3700531--3700684	78	2.0	78	80	3	177	36	17	9	37	1.82
3700694--3700720	2	13.5	2	100	0	54	48	0	0	51	1.00
3700762--3700786	2	12.5	2	100	0	50	48	0	0	52	1.00
3702617--3702800	21	9.2	20	74	8	119	35	21	20	22	1.96
3702624--3702751	39	3.2	40	90	5	190	35	25	19	20	1.96
3702683--3702809	60	2.1	60	91	2	202	34	24	18	22	1.96
3720728--3720972	121	2.0	121	94	0	427	29	21	9	40	1.84
3722033--3722063	14	2.1	15	94	5	55	38	0	0	61	0.96
3722090--3722128	15	2.6	15	83	0	51	28	0	7	64	1.21
3730721--3730770	19	2.6	19	93	0	82	38	4	16	42	1.66
3731497--3731542	22	2.1	22	91	0	74	21	21	19	36	1.95
3731835--3731864	15	1.9	16	93	6	53	20	20	0	60	1.37
3735539--3735563	13	1.9	13	100	0	50	64	8	0	28	1.22
3740094--3740131	16	2.3	17	95	4	69	68	5	5	21	1.29
3740103--3740137	16	2.2	16	90	5	54	74	8	2	14	1.17
3741419--3741443	2	12.5	2	100	0	50	48	0	0	52	1.00
3741379--3741483	50	2.1	48	84	8	129	46	6	1	44	1.40
3741431--3741569	39	3.6	38	83	10	158	46	8	2	41	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3741519--3741547	14	2.1	14	100	0	58	44	6	6	41	1.58
3741533--3741582	22	2.3	22	89	6	75	44	10	2	44	1.49
3741600--3741640	2	20.0	2	85	14	57	46	4	0	48	1.23
3745835--3746184	8	40.6	8	68	20	104	73	1	7	18	1.13
3745863--3746093	4	54.2	4	70	20	107	71	0	7	20	1.15
3745833--3746157	38	8.6	37	69	20	151	72	1	6	19	1.13
3745830--3745939	18	6.1	19	78	13	74	75	0	6	18	1.01
3745839--3746037	19	9.8	19	68	21	61	73	1	9	16	1.14
3745863--3746093	19	11.7	19	70	23	90	71	0	7	20	1.15
3745847--3746172	5	67.4	5	69	19	73	72	1	7	19	1.14
3749231--3749270	20	2.0	20	95	0	71	27	15	12	45	1.82
3749680--3749833	63	2.4	63	92	0	254	20	17	24	38	1.93
3755910--3755963	22	2.5	22	93	0	90	31	22	18	27	1.97
3755910--3755973	22	3.0	21	88	4	76	32	23	15	28	1.95
3757678--3757731	24	2.2	25	77	9	58	42	3	1	51	1.30
3763088--3763238	45	3.4	44	83	7	180	37	5	18	38	1.74
3763493--3763539	18	2.6	18	82	0	58	51	2	44	2	1.25
3766918--3766951	16	2.2	16	94	5	61	11	67	11	8	1.42
3778326--3778373	20	2.4	20	89	0	78	66	0	31	2	1.03
3778324--3778386	12	4.9	14	73	23	50	65	0	33	1	1.03
3778339--3780070	918	1.9	918	92	1	2952	36	9	21	32	1.86
3781103--3781141	20	2.0	20	84	0	51	5	23	0	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3781547--3781608	30	2.1	29	85	5	81	35	14	11	38	1.82
3782636--3782669	15	2.3	15	94	0	59	8	20	64	5	1.43
3785429--3785500	34	2.0	37	84	12	98	47	0	4	48	1.21
3787785--3787824	17	2.4	17	87	8	55	57	0	2	40	1.12
3788071--3788126	15	3.8	15	73	17	55	48	5	1	44	1.36
3800801--3800851	2	26.5	2	76	7	52	50	0	0	49	1.00
3801375--3801399	13	1.9	13	100	0	50	20	24	40	16	1.91
3801875--3801964	44	2.0	44	95	0	162	37	11	10	41	1.74
3807553--3807599	20	2.3	20	92	0	76	12	21	19	46	1.82
3807592--3807634	22	2.0	22	100	0	86	18	13	27	39	1.89

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