genome.fa.s8719.2.7.7.80.10.50.1000.12.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  12  of  18  ( 2140 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)
3172061--3172100	21	1.9	21	89	0	62	37	20	15	27	1.92
3172107--3172156	19	2.6	19	96	0	91	48	22	14	16	1.81
3172063--3172156	38	2.4	40	82	3	111	42	20	15	21	1.89
3175272--3175497	54	4.2	53	83	5	256	29	16	19	34	1.94
3177160--3177220	19	3.2	19	80	11	72	31	29	19	19	1.97
3184337--3184374	17	2.2	17	100	0	76	10	23	47	18	1.79
3184382--3184437	9	5.7	10	79	10	62	26	26	23	23	2.00
3184382--3184421	19	2.0	20	86	13	57	27	30	22	20	1.98
3186924--3187017	21	4.4	21	82	1	98	31	13	14	39	1.86
3189959--3190012	21	2.6	19	80	11	54	29	9	16	44	1.79
3190597--3190852	122	2.1	123	84	2	345	32	18	15	33	1.92
3190602--3190785	40	4.5	40	72	11	124	30	17	16	34	1.93
3194004--3194076	26	2.8	26	97	0	137	32	10	16	39	1.83
3194541--3194603	21	3.0	21	90	0	99	23	7	17	50	1.72
3194818--3194914	44	2.2	44	83	3	124	35	17	18	28	1.94
3196795--3196842	21	2.3	21	85	7	62	39	14	14	31	1.86
3198223--3198363	9	15.3	9	74	19	66	73	0	2	22	1.01
3198250--3198348	22	4.5	21	72	20	62	73	1	4	21	1.05
3198258--3198363	10	10.2	10	73	18	67	75	0	3	19	1.01
3199558--3199600	19	2.3	19	84	8	52	34	4	27	32	1.78
3200014--3200359	85	4.1	85	83	3	394	25	17	21	35	1.95
3200014--3200359	170	2.0	169	84	3	455	25	17	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201366--3201538	90	1.9	89	91	1	283	45	5	9	38	1.61
3208002--3208179	90	2.0	90	89	0	275	45	5	11	37	1.64
3208455--3208729	85	3.3	83	79	7	320	26	18	21	33	1.96
3209531--3209784	92	2.7	92	85	4	303	31	18	17	32	1.94
3211015--3211064	9	5.3	9	79	9	55	18	26	26	30	1.98
3211014--3211064	19	2.7	19	84	9	68	19	25	25	29	1.99
3211061--3211134	5	14.8	5	75	10	71	24	52	18	4	1.63
3211061--3211103	9	4.5	10	82	11	54	25	58	16	0	1.38
3211062--3211102	14	2.9	14	88	0	64	26	58	14	0	1.37
3211088--3211140	27	2.0	27	96	0	97	20	47	22	9	1.79
3218471--3218513	10	4.1	10	80	11	50	20	48	20	9	1.77
3218483--3218520	12	3.3	12	85	14	62	18	44	23	13	1.85
3218476--3218520	22	2.0	22	95	0	81	17	48	22	11	1.78
3219995--3220033	17	2.3	17	81	0	51	28	2	7	61	1.37
3222223--3222279	26	2.2	27	81	9	73	78	0	1	19	0.83
3222226--3222278	8	6.2	9	75	16	51	79	0	1	18	0.83
3224395--3224436	16	2.6	16	85	14	68	19	21	19	40	1.92
3229111--3229246	24	5.7	24	91	0	218	33	22	19	24	1.97
3234475--3234540	26	2.5	26	95	0	123	31	21	21	25	1.98
3243080--3243167	45	1.9	46	93	2	151	28	19	25	27	1.99
3243616--3243801	24	7.8	24	88	0	273	34	23	18	23	1.96
3245558--3245666	36	3.0	36	97	0	200	29	21	9	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254425--3254459	17	2.1	17	89	5	54	40	5	22	31	1.78
3257950--3257974	13	1.9	13	100	0	50	76	0	16	8	1.02
3258223--3258266	18	2.4	18	81	7	54	54	27	2	15	1.53
3261966--3262033	19	3.5	20	84	9	72	14	26	27	30	1.95
3261951--3262035	10	8.8	9	75	11	62	14	27	25	32	1.94
3262030--3262073	14	3.1	15	87	9	65	25	54	15	4	1.60
3262032--3262095	5	12.8	5	71	12	51	23	51	18	6	1.69
3262059--3262101	22	2.0	22	100	0	86	18	46	23	11	1.82
3264279--3264640	55	6.6	55	83	5	360	34	18	9	37	1.83
3265075--3265130	20	2.8	20	76	10	60	25	28	14	32	1.94
3268117--3268151	2	17.5	2	100	0	70	48	0	0	51	1.00
3270096--3270162	34	2.0	34	96	0	125	31	13	13	41	1.83
3270355--3270747	111	3.6	109	87	2	563	32	18	12	36	1.89
3270354--3270747	166	2.4	164	89	0	590	32	18	12	36	1.89
3270354--3270747	55	7.2	55	88	1	574	32	18	12	36	1.89
3271208--3271258	19	2.6	21	75	15	54	25	27	13	33	1.94
3274737--3274789	20	2.7	20	94	5	90	28	22	3	45	1.70
3286346--3286376	15	2.1	15	93	0	53	41	22	9	25	1.84
3291035--3291061	14	1.9	14	100	0	54	11	7	0	81	0.87
3293063--3293105	20	2.2	20	83	8	52	69	2	2	25	1.12
3296906--3297292	192	2.0	193	98	1	758	34	17	17	30	1.93
3299837--3299893	30	1.9	30	96	0	105	40	8	19	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300995--3301376	202	1.9	202	85	2	525	33	11	21	32	1.90
3308686--3308722	18	2.0	19	85	15	51	29	16	21	32	1.95
3310319--3310416	6	16.5	6	78	12	78	78	4	15	2	0.99
3310339--3310431	14	6.3	14	69	20	64	77	2	17	3	1.00
3310326--3310431	22	4.4	24	71	18	60	77	3	16	2	1.03
3310325--3310429	30	3.4	29	76	13	86	77	3	16	2	1.04
3312569--3312639	23	3.0	23	95	2	124	35	15	12	36	1.86
3313155--3313241	45	1.9	45	92	0	147	40	6	22	29	1.80
3313612--3313641	12	2.5	12	94	0	51	56	10	16	16	1.66
3313660--3313711	11	4.2	13	80	14	65	51	7	17	23	1.70
3313669--3313711	12	3.6	12	75	12	52	51	6	16	25	1.69
3318108--3318138	2	15.5	2	93	0	53	51	45	0	3	1.17
3328562--3328608	19	2.5	19	89	0	67	34	23	25	17	1.96
3342980--3343159	90	2.0	89	90	1	279	44	6	11	37	1.66
3349891--3350057	46	3.7	45	85	2	228	32	23	7	36	1.83
3350155--3350235	40	2.0	40	92	0	135	23	22	24	29	1.99
3356601--3356705	30	3.3	30	69	19	95	30	13	13	42	1.82
3356592--3356912	67	4.8	66	83	4	351	30	16	13	39	1.87
3356587--3356912	66	4.9	66	83	4	370	29	17	13	39	1.87
3356821--3357123	103	2.9	102	79	8	335	33	16	11	38	1.85
3357028--3357153	67	1.9	67	81	3	155	32	19	12	35	1.89
3358496--3358524	2	15.0	2	92	7	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367595--3367633	15	2.6	15	84	11	53	71	10	5	12	1.28
3376942--3376994	2	27.0	2	80	3	54	54	1	0	43	1.11
3377971--3377995	13	1.9	13	100	0	50	56	8	4	32	1.47
3378126--3378192	20	3.5	20	69	20	61	50	0	1	47	1.10
3378589--3378656	30	2.3	30	82	10	77	32	1	0	66	1.01
3378532--3378656	7	16.1	7	75	17	72	32	2	0	64	1.06
3378550--3378658	16	6.9	16	69	15	84	31	2	0	66	1.06
3378537--3378680	71	2.1	69	81	12	161	35	2	0	62	1.07
3380401--3380527	41	3.1	39	75	15	114	28	15	23	32	1.95
3380345--3380640	82	3.6	81	78	6	267	32	14	21	31	1.94
3380339--3380486	42	3.6	41	74	17	153	31	16	22	29	1.96
3381562--3381866	165	1.8	165	82	2	389	32	15	19	32	1.93
3386060--3386167	44	2.5	42	81	8	128	28	24	19	27	1.98
3386093--3386198	44	2.4	44	82	3	124	25	26	19	28	1.99
3395831--3396010	36	4.9	37	82	2	213	38	15	20	25	1.91
3396019--3396427	55	7.4	55	84	0	523	30	18	22	28	1.97
3402758--3402975	118	1.8	118	91	0	355	36	20	3	39	1.69
3405388--3405432	23	2.0	23	86	0	63	28	0	37	33	1.58
3410042--3410086	23	2.0	23	90	0	72	26	2	40	31	1.68
3414526--3414571	17	2.7	17	82	0	65	78	4	13	4	1.05
3414878--3414917	13	3.0	13	96	3	71	45	32	0	22	1.53
3415485--3415599	36	3.2	36	74	4	108	46	10	15	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3415438--3415599	72	2.2	75	83	8	199	41	12	17	27	1.87
3416716--3417252	183	2.9	183	95	0	950	30	20	20	27	1.98
3421072--3421111	2	21.0	2	85	10	57	47	2	0	50	1.14
3421139--3421177	2	20.0	2	94	5	71	51	0	0	48	1.00
3421060--3421185	66	1.9	67	96	1	236	57	2	4	34	1.32
3421071--3421209	66	2.1	65	86	4	199	56	2	3	37	1.32
3421674--3421707	18	1.9	17	88	5	50	61	5	5	26	1.42
3422620--3422658	2	19.5	2	83	0	51	41	7	0	51	1.31
3422772--3422800	2	14.5	2	100	0	58	48	0	0	51	1.00
3426161--3426338	15	11.5	15	85	8	232	48	0	1	50	1.11

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