genome.fa.s9586.2.7.7.80.10.50.1000.17.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  17  of  19  ( 2170 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)
3303644--3303873	94	2.5	93	89	1	372	42	14	8	35	1.75
3303795--3303950	81	1.9	80	89	1	240	39	14	7	38	1.74
3303827--3304107	157	1.9	147	82	9	350	40	14	7	37	1.75
3304139--3304271	26	5.0	26	72	13	99	39	15	7	36	1.76
3303977--3304281	94	3.4	92	85	8	382	40	16	7	36	1.76
3304116--3304288	81	2.2	80	93	1	292	40	14	6	38	1.71
3303648--3304685	332	3.1	332	85	6	1318	40	15	7	37	1.75
3304247--3304412	74	2.3	72	82	7	189	42	13	6	36	1.71
3303864--3304685	168	5.0	167	81	8	873	40	15	7	37	1.75
3310770--3310982	107	2.0	107	80	3	241	44	8	9	38	1.67
3312399--3312464	6	10.4	7	80	11	56	59	0	0	40	0.98
3312406--3312464	3	19.0	3	82	6	73	61	0	0	38	0.96
3312599--3312698	45	2.2	45	98	0	191	36	19	22	23	1.95
3312634--3313589	76	12.6	76	96	0	1700	34	20	19	24	1.96
3314265--3314341	22	3.5	22	94	0	136	38	14	12	33	1.84
3316719--3316938	114	1.9	114	91	0	359	30	20	15	34	1.93
3319088--3319176	8	10.6	8	80	15	85	2	10	1	86	0.71
3319087--3319176	10	9.4	10	81	15	86	2	10	1	86	0.71
3319088--3319175	36	2.4	36	88	9	126	2	10	1	86	0.72
3319086--3319191	17	6.2	16	80	12	88	1	13	0	83	0.77
3319089--3319188	36	2.8	36	79	15	116	2	13	1	84	0.77
3319089--3319175	45	2.0	45	88	6	133	2	10	1	86	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319087--3319176	1	90.0	1	75	0	72	2	10	1	86	0.71
3319089--3319187	45	2.2	45	85	8	132	2	12	1	84	0.75
3319086--3319191	28	3.9	26	78	13	99	1	13	0	83	0.77
3324434--3324491	28	2.2	26	84	6	71	62	1	5	31	1.27
3326619--3326674	6	8.7	7	77	13	50	57	0	0	42	0.99
3326626--3326693	3	22.0	3	79	5	73	58	0	0	41	0.98
3326619--3326699	18	4.5	18	81	13	96	56	0	0	43	0.99
3328685--3328736	26	2.0	26	81	3	61	42	5	0	51	1.25
3342648--3342691	23	2.0	22	86	4	61	40	22	15	20	1.90
3343172--3343197	2	13.0	2	100	0	52	50	0	0	50	1.00
3343785--3343825	8	4.8	9	82	11	50	43	19	2	34	1.64
3347661--3347762	23	4.4	23	81	0	114	35	22	24	17	1.95
3348273--3348351	2	39.5	2	100	0	158	49	0	0	50	1.00
3351694--3351749	21	2.7	21	80	0	67	30	17	21	30	1.96
3354560--3354609	22	2.1	24	85	10	68	60	2	0	38	1.09
3355528--3355558	16	1.9	16	93	0	53	35	3	0	61	1.12
3356163--3356288	50	2.5	50	78	7	139	16	34	27	21	1.95
3356410--3356448	20	2.0	19	90	5	60	33	23	0	43	1.54
3356575--3356796	111	2.0	111	92	3	376	36	7	10	45	1.68
3358291--3358327	18	2.1	18	100	0	74	27	24	21	27	1.99
3358678--3358731	6	9.0	6	79	0	54	31	14	35	18	1.91
3358682--3358736	24	2.3	24	83	0	65	34	16	32	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358678--3358727	9	5.6	9	75	0	55	32	14	36	18	1.90
3358678--3358736	21	2.8	21	81	0	73	33	15	33	16	1.91
3362587--3362709	50	2.5	50	80	7	151	24	28	31	15	1.95
3365346--3365588	125	1.9	125	99	0	477	30	19	24	25	1.98
3376341--3376404	2	33.5	2	81	9	80	51	0	1	46	1.10
3376751--3377299	105	5.2	105	90	2	818	22	17	26	33	1.96
3377838--3377896	29	2.0	29	100	0	118	30	22	20	27	1.98
3378065--3378199	70	1.9	70	82	5	166	9	22	11	57	1.62
3390291--3390352	2	32.5	2	80	9	76	51	0	1	46	1.10
3391212--3391409	99	2.0	99	84	2	254	47	18	15	18	1.82
3391582--3391652	22	3.2	21	82	7	72	47	15	26	9	1.76
3391611--3391663	22	2.4	22	83	0	61	49	15	18	16	1.80
3394640--3394695	22	2.8	21	76	13	55	66	1	7	25	1.27
3397920--3397958	20	1.9	20	84	5	51	43	12	2	41	1.56
3398968--3399037	2	35.0	2	100	0	140	50	0	0	50	1.00
3399658--3399682	2	12.5	2	100	0	50	52	0	0	48	1.00
3401484--3401937	37	12.2	37	92	1	685	22	17	21	38	1.93
3401948--3402037	42	2.1	42	91	0	144	33	20	21	25	1.97
3410994--3411049	16	3.5	16	88	7	87	76	0	14	8	1.00
3411005--3411049	10	4.3	10	84	15	56	77	0	13	8	0.98
3412406--3412961	122	4.6	122	88	4	743	39	14	19	26	1.89
3412941--3412999	17	3.5	17	95	0	109	47	5	25	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412976--3413286	137	2.3	137	89	1	453	37	14	18	28	1.91
3413575--3413631	21	2.7	21	77	0	69	36	31	17	14	1.89
3414073--3414118	22	2.3	19	85	11	56	30	13	34	21	1.91
3414821--3414851	13	2.3	13	94	5	53	41	0	0	58	0.98
3415985--3416040	27	2.0	28	86	3	78	30	1	1	66	1.12
3416557--3416585	14	2.1	14	100	0	58	27	13	6	51	1.66
3420276--3420342	21	3.0	22	84	6	91	23	16	25	34	1.95
3421277--3421338	25	2.4	25	78	2	70	20	4	4	69	1.26
3424542--3424581	19	2.0	19	85	9	53	67	2	0	30	1.04
3424985--3425039	27	2.0	27	100	0	110	40	10	21	27	1.87
3447019--3447076	31	1.9	31	89	3	91	51	0	0	48	1.00
3447039--3447278	121	2.0	118	82	7	288	47	8	6	37	1.60
3447367--3447399	3	11.0	3	93	0	57	63	0	3	33	1.10
3448658--3448695	17	2.2	17	100	0	76	18	21	47	13	1.82
3448799--3448844	3	15.7	3	86	13	69	67	0	0	32	0.91
3449181--3449728	113	4.8	113	94	0	927	26	22	14	36	1.93
3450436--3450660	114	2.0	114	92	0	378	31	21	14	32	1.93
3451394--3451429	11	3.2	11	88	4	54	0	13	0	86	0.58
3458070--3458102	16	2.1	16	94	0	57	48	9	18	24	1.76
3460942--3460997	29	2.0	29	89	3	87	51	0	0	48	1.00
3461262--3461332	2	35.5	2	100	0	142	49	0	0	50	1.00
3461338--3461367	3	10.0	3	92	0	51	63	0	3	33	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3461421--3461446	4	6.5	4	100	0	52	76	0	0	23	0.78
3462680--3462740	3	20.7	3	80	9	54	59	0	0	40	0.98
3462667--3462740	24	2.9	24	77	18	69	56	0	0	43	0.99
3467109--3467140	15	2.1	15	100	0	64	53	0	12	34	1.39
3468149--3468215	33	2.1	32	82	2	80	32	0	5	61	1.20
3468199--3468234	18	1.9	19	88	5	56	36	0	2	61	1.11
3469971--3470017	21	2.2	22	81	11	62	25	38	10	25	1.88
3470025--3470094	21	3.3	21	84	7	88	20	32	25	21	1.97
3470616--3470713	34	2.9	34	87	0	133	56	4	3	36	1.34
3470780--3470806	12	2.2	12	100	0	54	22	0	29	48	1.51
3471039--3471657	124	4.9	128	94	3	1105	32	18	25	23	1.97
3471726--3471766	8	5.2	8	82	5	57	36	29	0	34	1.58
3472515--3472928	206	2.0	208	97	2	782	29	20	22	27	1.99
3476892--3476933	17	2.4	18	92	4	68	21	7	0	71	1.09
3476961--3477004	18	2.5	17	85	10	61	27	4	0	68	1.09
3477803--3477827	13	1.9	13	100	0	50	44	16	8	32	1.76
3483781--3483841	20	2.9	20	82	7	59	24	32	27	14	1.95
3488720--3488800	21	3.8	21	76	10	67	14	23	38	23	1.92
3488718--3488802	20	4.1	20	76	7	62	15	24	36	23	1.93
3495437--3495461	13	1.9	13	100	0	50	44	16	8	32	1.76
3495500--3495562	31	2.0	31	100	0	126	28	22	3	46	1.67
3496677--3496745	30	2.3	30	92	2	113	42	8	23	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3498138--3498325	76	2.5	75	85	5	242	30	0	11	57	1.38
3498934--3498974	17	2.4	17	88	8	57	26	4	0	68	1.10
3501730--3501809	28	2.9	28	96	1	144	52	7	27	12	1.66
3514529--3514558	5	6.0	5	100	0	60	80	0	20	0	0.72
3515796--3515858	31	2.0	31	93	0	108	49	19	15	15	1.80
3515684--3515970	143	2.0	143	91	0	466	47	14	14	23	1.80
3515827--3516120	112	2.6	112	93	0	489	45	13	14	25	1.82
3515995--3516484	182	2.7	182	88	0	755	43	12	15	28	1.83
3517466--3517513	23	2.1	23	88	0	69	37	16	8	37	1.79
3522123--3522343	117	1.9	116	87	0	325	22	19	21	36	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19