genome.fa.s7754.2.7.7.80.10.50.1000.14.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: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3698414

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  14  of  15  ( 1710 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)
3240820--3240937	39	3.0	39	87	0	164	37	14	18	29	1.91
3240940--3241100	74	2.1	76	85	5	220	42	11	14	30	1.82
3243265--3243309	21	2.1	21	88	8	65	33	26	22	17	1.96
3244773--3245087	149	2.1	149	94	1	551	27	15	21	35	1.94
3248383--3248427	21	2.1	21	87	0	63	31	28	24	15	1.96
3249891--3250205	149	2.1	149	94	1	551	27	16	21	34	1.95
3250173--3250217	23	2.0	23	90	0	72	22	26	26	24	2.00
3257926--3258068	6	23.8	6	99	0	277	17	0	32	50	1.46
3264523--3264556	2	17.0	2	93	0	59	50	0	47	2	1.16
3264666--3264712	22	2.1	22	84	0	58	23	27	12	36	1.91
3269555--3269600	21	2.2	21	88	3	67	26	23	17	32	1.97
3279344--3279385	22	1.9	23	90	9	70	35	16	0	47	1.47
3280288--3280320	2	16.5	2	100	0	66	51	0	0	48	1.00
3280833--3280879	22	2.1	23	84	4	60	44	2	4	48	1.34
3283955--3284010	23	2.5	23	94	2	96	46	7	10	35	1.66
3290904--3290956	22	2.4	22	93	0	88	26	24	24	24	2.00
3291004--3291055	18	2.9	18	88	0	77	30	28	21	19	1.97
3298289--3298327	3	13.0	3	100	0	78	33	0	0	66	0.92
3308082--3308110	2	14.5	2	100	0	58	51	0	0	48	1.00
3316804--3316865	28	2.2	28	91	0	106	43	20	11	24	1.85
3319912--3319972	21	3.2	21	65	29	64	42	21	4	31	1.74
3319861--3320007	35	4.2	36	86	7	187	42	19	5	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319864--3320007	72	2.1	68	84	7	182	42	19	5	32	1.74
3324490--3324634	35	4.1	35	92	2	211	44	19	4	31	1.69
3324535--3324633	20	5.4	20	63	31	60	46	19	4	30	1.68
3327667--3327706	21	1.9	21	84	0	53	45	12	5	37	1.64
3334568--3334600	14	2.4	14	100	0	66	54	6	0	39	1.25
3347961--3347996	7	5.1	7	100	0	72	30	0	13	55	1.39
3349857--3349909	21	2.5	21	84	0	61	22	11	45	20	1.83
3354203--3356024	105	17.5	105	93	2	3009	32	25	18	23	1.97
3354203--3356024	211	8.7	210	93	3	2993	32	25	18	23	1.97
3354203--3356024	412	4.4	417	92	4	2741	32	25	18	23	1.97
3357130--3357182	21	2.5	21	84	0	61	22	11	45	20	1.83
3358801--3358844	18	2.4	18	96	0	79	50	11	0	38	1.39
3369855--3369888	17	2.0	17	100	0	68	29	29	0	41	1.57
3372287--3372331	2	23.0	2	86	4	65	46	0	0	53	1.00
3374625--3374844	112	2.0	112	99	0	431	20	23	20	35	1.96
3375990--3376048	31	2.0	28	84	12	75	54	18	5	22	1.63
3376092--3376171	31	2.5	31	91	2	133	50	16	11	22	1.76
3378948--3378986	17	2.3	17	86	8	53	25	0	2	71	0.98
3380107--3380166	30	2.1	29	84	6	77	21	6	0	71	1.08
3380182--3380219	16	2.4	16	79	16	51	15	7	0	76	1.01
3380777--3380804	2	14.0	2	100	0	56	50	0	0	50	1.00
3383583--3383625	21	2.0	21	91	8	70	46	9	0	44	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388927--3389186	132	2.0	132	96	0	484	33	26	14	25	1.94
3392630--3392660	16	1.9	16	100	0	62	48	25	0	25	1.52
3396594--3396646	22	2.4	21	82	14	63	47	3	1	47	1.31
3409322--3409347	2	13.0	2	100	0	52	50	0	0	50	1.00
3410215--3410281	11	5.7	11	74	19	55	61	1	4	32	1.25
3410215--3410303	37	2.4	37	94	1	151	58	1	6	33	1.32
3415200--3415312	35	3.2	35	100	0	226	38	23	13	25	1.91
3418917--3418956	17	2.3	18	86	4	55	77	5	0	17	0.94
3420741--3420795	27	2.0	28	96	3	103	60	18	7	14	1.57
3426688--3426779	12	7.8	12	73	7	71	48	18	14	18	1.80
3426688--3426779	24	3.9	24	82	1	96	48	18	14	18	1.80
3427923--3427958	18	2.0	18	88	0	54	30	16	0	52	1.44
3429260--3429300	18	2.3	18	95	0	73	12	19	51	17	1.76
3445036--3445213	35	5.1	33	69	18	94	42	4	5	47	1.45
3444984--3445230	70	3.6	69	84	4	290	44	4	5	46	1.46
3445176--3445227	21	2.5	21	72	25	56	42	3	5	48	1.45
3447740--3447878	61	2.3	60	85	5	181	40	12	10	36	1.78
3447859--3447890	12	2.7	12	95	0	55	28	12	12	46	1.78
3447871--3448047	60	2.9	61	82	5	182	34	13	13	38	1.84
3452893--3452922	2	15.0	2	100	0	60	50	0	0	50	1.00
3453829--3453855	12	2.2	12	100	0	54	51	0	22	25	1.48
3455293--3455351	31	2.0	31	83	6	77	37	11	3	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464734--3464758	13	1.9	13	100	0	50	16	24	20	40	1.91
3465197--3465227	2	15.5	2	100	0	62	51	0	0	48	1.00
3470852--3470904	23	2.3	23	100	0	106	20	28	9	41	1.83
3473487--3473544	20	2.6	22	86	10	75	31	18	22	27	1.97
3475073--3475150	20	4.0	20	73	6	88	25	23	26	24	2.00
3475074--3475148	38	2.0	38	86	0	105	24	22	28	25	2.00
3475519--3475574	4	13.8	4	96	3	103	25	0	25	50	1.50
3476166--3476245	31	2.6	31	84	4	99	32	17	22	27	1.96
3476168--3476363	31	6.4	30	71	12	89	34	15	21	28	1.94
3481171--3482002	4	208.5	4	99	0	1650	50	25	0	25	1.50
3486743--3486825	41	2.0	41	95	0	148	26	20	20	32	1.97
3489300--3489371	7	10.3	7	77	5	74	44	8	26	20	1.80
3489300--3489382	14	5.9	14	84	5	105	45	8	24	21	1.79
3489459--3489506	21	2.3	21	100	0	96	29	27	18	25	1.98
3489955--3490313	59	6.1	59	70	15	235	29	23	10	36	1.89
3490090--3490313	58	3.8	58	77	8	229	29	23	10	36	1.88
3490065--3490314	117	2.1	117	90	0	383	30	23	10	36	1.87
3499132--3499195	21	3.0	21	81	4	74	17	23	35	23	1.95
3505649--3505734	24	3.3	27	67	18	74	45	0	1	53	1.07
3505657--3505696	20	2.0	20	85	0	53	50	0	2	47	1.14
3505789--3505847	30	2.0	30	83	6	75	47	0	3	49	1.18
3505788--3505849	18	3.3	19	75	13	56	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505807--3505849	21	2.0	22	86	4	61	46	0	4	48	1.22
3515003--3515055	6	8.8	6	91	0	79	49	5	0	45	1.26
3515003--3515055	10	5.3	10	93	0	70	49	5	0	45	1.26
3515003--3515055	4	13.2	4	91	0	79	49	5	0	45	1.26
3516137--3516186	6	8.3	6	100	0	100	34	0	16	50	1.45
3518464--3518497	17	2.1	17	88	5	52	67	0	0	32	0.91
3518455--3518504	24	2.1	25	82	14	61	66	0	0	34	0.92
3523378--3523447	18	4.2	18	71	17	69	18	50	18	12	1.78
3525901--3526015	24	4.8	24	87	6	153	22	17	18	41	1.90
3527461--3527549	44	2.0	44	93	0	151	37	16	16	29	1.92
3529066--3529111	21	2.2	21	84	7	58	50	0	6	43	1.28
3532047--3532094	22	2.2	22	88	0	69	37	20	2	39	1.65
3533773--3533830	29	2.0	29	100	0	116	37	6	13	41	1.72
3534198--3534225	4	7.0	4	100	0	56	75	0	0	25	0.81
3539338--3539509	21	8.2	21	83	7	199	31	27	19	20	1.97
3548964--3549002	20	2.0	20	90	5	62	28	10	7	53	1.62
3550038--3550071	16	2.1	16	88	0	50	29	11	17	41	1.85
3550045--3550078	16	2.1	16	88	0	50	26	17	17	38	1.92
3554181--3555171	248	4.0	248	87	6	1558	24	19	19	36	1.95
3553997--3555131	248	4.6	244	84	7	1354	25	19	19	35	1.95
3553997--3555091	493	2.2	493	99	0	2145	25	19	19	35	1.95
3557007--3557036	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3558054--3558092	19	2.0	21	90	10	64	43	2	2	51	1.29
3558852--3558916	31	2.1	32	94	2	114	33	9	6	50	1.59
3561754--3561819	33	2.0	33	96	0	123	46	9	10	33	1.70
3564920--3564972	26	2.0	26	100	0	106	22	15	22	39	1.91
3564611--3565032	212	2.0	213	88	2	634	29	20	18	32	1.96
3567681--3567797	58	2.0	58	96	0	216	32	16	13	37	1.88
3571459--3571538	40	2.0	40	97	0	151	38	12	16	32	1.86
3572664--3572724	28	2.2	27	91	5	104	19	22	11	45	1.82
3572671--3572725	28	2.0	28	100	0	110	18	21	10	49	1.78
3573727--3573834	35	3.1	36	92	4	168	41	14	17	25	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15