genome.fa.s7838.2.7.7.80.10.50.1000.12.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

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

This is table  12  of  13  ( 1485 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)
3057489--3057533	23	2.0	23	86	0	63	53	2	2	42	1.25
3057648--3057712	22	2.9	23	75	9	62	47	0	3	49	1.17
3057890--3057958	36	1.9	35	88	8	104	30	18	5	44	1.73
3073881--3073929	22	2.2	22	100	0	98	18	16	16	48	1.81
3076791--3076820	9	3.3	9	95	0	51	13	20	20	46	1.83
3079566--3079599	2	17.0	2	100	0	68	50	0	0	50	1.00
3086892--3087227	166	2.0	169	97	2	642	34	15	12	37	1.85
3088455--3088845	186	2.1	185	92	1	642	45	9	3	41	1.52
3090284--3090343	30	1.9	31	86	6	86	35	6	8	50	1.59
3092572--3092632	29	2.1	30	84	3	79	18	9	14	57	1.64
3093275--3093320	23	2.0	23	86	4	65	54	0	4	41	1.20
3095396--3095494	43	2.3	43	98	0	189	51	27	0	21	1.48
3095727--3095765	21	1.9	20	89	5	60	51	33	2	12	1.54
3095749--3095793	23	2.0	23	86	8	65	44	31	0	24	1.54
3098003--3098039	17	2.2	17	100	0	74	43	18	10	27	1.83
3107744--3107776	3	11.0	3	100	0	66	66	0	0	33	0.92
3109517--3109589	38	1.9	38	97	0	137	31	17	20	30	1.96
3112698--3112768	31	2.3	31	87	0	106	46	0	26	26	1.53
3113864--3115167	653	2.0	653	100	0	2608	25	21	23	29	1.99
3118312--3118607	20	14.6	20	74	11	158	38	23	17	20	1.93
3118313--3118607	41	7.2	41	82	7	311	38	23	17	20	1.93
3119211--3119264	19	2.8	19	100	0	108	11	22	22	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3119491--3119608	19	6.1	19	87	3	155	13	19	21	45	1.84
3119719--3119909	93	2.1	92	93	3	321	46	17	12	23	1.82
3121518--3121590	19	4.1	19	79	16	102	46	20	23	9	1.80
3121526--3121592	33	2.0	33	97	0	125	44	22	23	8	1.81
3121932--3122044	20	5.5	20	76	13	104	21	16	25	36	1.94
3121932--3122043	41	2.7	41	83	5	136	20	16	25	36	1.94
3121932--3122021	20	4.3	21	80	6	112	18	17	25	37	1.93
3121945--3122043	42	2.4	42	81	5	112	21	17	25	36	1.94
3122030--3122082	20	2.7	20	88	5	72	13	20	24	41	1.88
3122090--3122147	19	2.9	20	79	7	64	20	17	18	43	1.89
3130393--3130463	31	2.3	31	87	0	106	46	0	26	26	1.53
3136079--3136113	18	1.9	18	94	0	61	17	22	31	28	1.96
3144374--3144407	16	2.1	16	94	0	59	32	26	8	32	1.87
3148132--3148235	54	1.9	53	81	12	124	62	1	2	32	1.21
3148205--3148247	18	2.5	17	85	7	61	67	2	4	25	1.22
3148133--3148255	60	2.1	57	80	11	133	60	3	3	32	1.28
3148597--3148701	37	2.8	38	84	4	133	29	14	14	41	1.85
3149240--3149868	105	6.0	105	91	3	959	21	17	26	34	1.96
3150072--3150142	36	2.0	36	91	0	115	35	16	23	23	1.95
3150043--3150361	105	3.1	104	90	2	491	35	12	21	31	1.90
3150432--3150601	72	2.3	75	84	8	208	40	14	18	26	1.89
3151739--3152275	183	2.9	183	96	1	961	30	21	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3156536--3156578	18	2.5	17	85	7	61	67	2	4	25	1.22
3156462--3156586	62	2.1	59	80	11	137	60	3	3	32	1.28
3165210--3165243	3	11.3	3	100	0	68	67	0	32	0	0.91
3176127--3176157	15	2.1	15	93	0	53	58	0	0	41	0.98
3176194--3176238	14	2.9	17	75	21	53	33	4	4	57	1.38
3181212--3181251	20	2.1	19	95	4	71	42	10	25	22	1.84
3181215--3181260	20	2.5	19	86	13	62	41	10	23	23	1.86
3181400--3181475	39	2.0	37	82	7	91	47	3	1	47	1.29
3182013--3182060	17	2.7	18	80	9	62	41	0	6	52	1.27
3185648--3185959	41	7.6	41	80	2	338	30	17	17	33	1.94
3187247--3187693	221	2.0	224	97	2	848	19	23	13	42	1.87
3190010--3190336	43	7.6	42	78	6	298	22	21	21	34	1.97
3190010--3190323	85	3.6	86	81	7	321	21	21	21	35	1.96
3190010--3190384	128	2.9	128	77	10	300	22	21	21	34	1.97
3196226--3196263	20	1.9	20	88	0	58	21	26	10	42	1.85
3204786--3204825	21	1.9	21	94	0	71	30	15	7	47	1.72
3204820--3204918	33	3.0	33	94	1	164	32	7	15	45	1.73
3204904--3204958	13	4.2	13	75	13	58	34	3	12	49	1.59
3205153--3205204	21	2.5	21	87	0	77	23	23	26	26	2.00
3205368--3205423	15	3.6	15	79	9	67	32	12	12	42	1.80
3205387--3205420	18	1.9	18	94	5	61	38	11	11	38	1.79
3208156--3208199	17	2.6	18	78	7	56	31	0	15	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3211229--3211296	2	34.0	2	96	0	127	50	0	1	48	1.10
3212941--3213162	110	2.0	110	100	0	444	36	18	14	30	1.91
3215407--3215452	5	9.2	5	95	0	83	39	0	39	21	1.54
3222136--3222187	17	3.4	17	65	25	51	32	3	13	50	1.60
3222120--3222309	29	6.6	29	88	0	247	34	2	15	47	1.57
3223200--3223321	63	1.9	63	83	3	156	19	25	28	26	1.99
3224343--3224401	28	2.1	28	93	0	100	55	5	11	27	1.56
3228685--3228825	60	2.4	59	79	6	155	36	7	23	31	1.83
3229743--3229796	27	2.0	27	96	0	99	24	14	12	48	1.79
3235343--3235397	28	2.0	28	82	7	67	29	10	21	38	1.88
3235804--3235828	2	12.5	2	100	0	50	48	0	0	52	1.00
3242425--3242450	13	2.0	13	100	0	52	38	15	23	23	1.92
3242761--3242790	11	2.7	11	100	0	60	63	20	0	16	1.31
3242772--3242916	76	1.9	75	94	1	254	48	9	13	27	1.74
3243508--3243811	152	2.0	151	97	0	572	26	24	24	24	2.00
3247177--3247271	38	2.5	38	92	0	163	54	22	10	12	1.68
3251308--3251373	10	6.1	10	80	16	78	7	10	21	60	1.54
3251305--3251375	23	3.1	23	83	4	108	7	9	19	63	1.48
3251436--3251468	16	2.1	16	100	0	66	6	12	24	57	1.57
3252266--3252334	35	2.0	35	88	0	102	39	4	18	37	1.71
3254300--3254361	29	2.1	30	82	8	74	38	3	16	41	1.64
3261193--3261273	26	3.1	26	92	0	135	23	20	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262324--3262359	2	18.0	2	100	0	72	50	0	0	50	1.00
3265905--3266045	31	4.6	31	79	6	137	43	9	5	41	1.60
3265905--3266045	61	2.3	61	82	4	160	43	9	5	41	1.60
3266327--3266364	15	2.4	16	82	4	51	36	0	5	57	1.21
3275365--3275469	52	2.0	52	100	0	210	32	9	25	32	1.88
3283818--3283846	2	14.5	2	100	0	58	0	48	0	51	1.00
3285435--3285461	13	2.1	13	100	0	54	29	0	0	70	0.88
3286106--3286144	16	2.4	16	78	0	51	58	15	17	7	1.59
3290456--3290498	12	3.6	12	90	0	68	25	9	18	46	1.79
3292463--3292587	31	4.0	31	90	2	189	37	23	19	20	1.94
3293391--3293435	21	2.1	21	87	0	63	15	24	28	31	1.96
3296588--3296712	31	4.0	31	90	6	191	36	23	19	20	1.95
3297516--3297560	21	2.1	21	87	0	63	15	24	28	31	1.96
3300499--3300660	84	1.9	84	96	0	297	43	12	16	28	1.84
3302590--3302616	3	9.0	3	100	0	54	0	33	0	66	0.92
3307343--3307417	38	2.0	37	84	5	98	48	4	1	46	1.29
3328667--3328706	3	13.3	3	89	0	62	65	5	0	30	1.14
3328766--3328881	53	2.2	53	95	1	207	39	24	7	28	1.83
3335961--3336003	18	2.6	16	85	7	50	53	0	0	46	1.00
3339263--3339288	3	8.7	3	100	0	52	69	0	30	0	0.89
3344989--3345018	12	2.5	12	100	0	60	26	43	0	30	1.55
3346231--3346384	69	2.2	69	80	6	186	45	7	9	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346634--3346785	76	2.0	78	84	2	200	40	11	14	34	1.82
3346712--3346904	100	1.9	100	87	0	278	43	10	12	33	1.77
3347528--3347903	109	3.5	107	87	2	484	35	13	12	38	1.83
3349550--3349575	2	13.0	2	100	0	52	50	0	0	50	1.00
3349666--3349704	19	2.1	19	85	0	51	38	5	2	53	1.37
3355632--3355672	17	2.4	17	100	0	82	19	24	39	17	1.92
3355666--3355755	19	4.7	19	91	4	128	26	30	25	17	1.98
3355668--3355755	9	9.1	10	77	12	94	27	30	23	18	1.97
3362911--3362937	7	3.9	7	100	0	54	29	29	25	14	1.95
3362931--3362971	17	2.4	17	100	0	82	19	24	39	17	1.92

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