genome.fa.s8301.2.7.7.80.10.50.1000.17.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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

This is table  17  of  18  ( 2065 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)
3181697--3181785	31	2.9	29	85	8	115	25	19	19	35	1.95
3182364--3182714	173	2.0	173	97	2	670	30	12	19	37	1.89
3185023--3185056	17	2.1	17	88	5	52	35	8	5	50	1.58
3187665--3187714	24	2.1	24	100	0	100	62	6	8	24	1.46
3187852--3187915	2	33.0	2	93	6	114	51	0	0	48	1.00
3188424--3188502	5	15.6	5	74	13	56	74	1	3	20	1.04
3188476--3188505	9	3.3	9	100	0	60	90	0	0	10	0.47
3188584--3188610	3	9.0	3	100	0	54	66	0	0	33	0.92
3189269--3189296	14	2.0	14	100	0	56	14	14	28	42	1.84
3189815--3189899	33	2.4	36	81	11	97	48	12	0	38	1.42
3189815--3190302	37	13.7	35	73	17	291	44	8	2	44	1.48
3189852--3190227	108	3.5	108	74	12	319	43	7	2	45	1.47
3190287--3190355	2	34.5	2	94	5	122	47	0	1	50	1.09
3190343--3190431	38	2.3	38	84	5	117	42	7	2	47	1.45
3190600--3190694	48	2.0	48	100	0	190	30	12	23	33	1.92
3190828--3191122	150	2.0	151	80	4	337	26	20	19	34	1.96
3191373--3192060	85	8.1	85	80	4	734	27	17	18	36	1.93
3191372--3192060	168	4.1	168	85	3	857	27	17	18	36	1.93
3193480--3193680	95	2.1	97	87	2	291	32	18	15	33	1.92
3198712--3198751	14	2.6	15	85	14	55	62	0	0	37	0.95
3198784--3198872	35	2.5	35	83	1	106	46	11	2	40	1.52
3198759--3198884	35	3.6	34	76	6	101	46	10	2	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198869--3198909	22	1.9	21	90	5	64	39	12	0	48	1.41
3198858--3198924	34	2.0	34	85	5	91	43	8	1	46	1.44
3198881--3198974	46	2.1	43	84	5	116	45	5	1	47	1.32
3198925--3199040	35	3.3	35	75	7	101	43	6	4	45	1.50
3198961--3199051	33	2.8	33	88	3	130	41	6	6	45	1.56
3199019--3199074	23	2.5	24	88	8	82	44	7	3	44	1.48
3199042--3199174	38	3.7	36	80	10	139	42	8	0	48	1.38
3199176--3199206	2	15.5	2	100	0	62	51	0	0	48	1.00
3199363--3199458	50	1.9	50	86	0	138	22	30	28	18	1.98
3204879--3205252	187	2.0	187	98	1	732	28	23	19	27	1.99
3205873--3205918	2	23.5	2	95	4	85	50	0	0	50	1.00
3208659--3208771	56	2.0	56	91	0	181	46	25	7	19	1.77
3209719--3209831	59	1.9	59	96	0	208	39	7	11	41	1.68
3211438--3211468	2	15.5	2	100	0	62	51	0	0	48	1.00
3213686--3213793	27	4.0	27	85	6	137	28	13	11	46	1.78
3215428--3215467	17	2.4	17	91	0	62	32	20	30	17	1.95
3216534--3216601	35	1.9	35	91	5	111	35	16	19	29	1.93
3218580--3218625	20	2.3	19	85	14	58	26	15	8	50	1.73
3219324--3219403	27	3.0	27	86	0	115	32	11	8	47	1.70
3225249--3225282	17	2.0	17	100	0	68	52	17	11	17	1.73
3226318--3226387	27	2.6	27	81	6	88	64	0	21	14	1.29
3231316--3231340	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231403--3231445	18	2.5	17	85	7	61	67	2	4	25	1.22
3231802--3231906	37	2.8	37	85	0	129	31	12	13	42	1.81
3232449--3232974	105	5.0	105	88	3	749	21	18	26	33	1.96
3233179--3233248	36	1.9	36	91	0	113	35	15	24	24	1.94
3233247--3233328	39	2.1	40	83	2	103	40	12	20	26	1.88
3233248--3233458	105	2.0	104	95	0	377	38	11	19	29	1.88
3233361--3233435	39	1.9	39	86	5	107	38	13	21	26	1.90
3233149--3233513	195	1.9	194	87	4	536	36	12	21	29	1.90
3233575--3233688	36	3.2	36	71	7	106	44	14	15	25	1.84
3233529--3233689	72	2.2	75	83	8	197	42	13	16	27	1.85
3234843--3235379	183	2.9	183	95	0	941	31	20	20	27	1.98
3239448--3239475	2	14.0	2	100	0	56	50	0	0	50	1.00
3239665--3239723	21	2.8	21	76	23	61	71	0	3	25	1.02
3239659--3239718	32	1.9	31	86	10	86	71	0	3	25	1.01
3239965--3240003	18	2.2	18	90	4	62	66	2	5	25	1.25
3240363--3240467	37	2.8	37	86	0	138	30	13	13	42	1.82
3244946--3244974	14	2.1	14	100	0	58	34	13	20	31	1.92
3246619--3246769	61	2.5	61	98	0	293	39	17	10	32	1.84
3259349--3259387	17	2.3	17	100	0	78	38	10	0	51	1.36
3259533--3259611	12	6.6	13	68	21	57	77	7	7	7	1.14
3259514--3259611	25	4.0	24	79	15	87	75	6	9	9	1.19
3259519--3259576	29	2.0	30	82	3	73	75	3	12	8	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3261257--3261341	32	2.7	32	77	0	89	38	11	12	36	1.81
3267672--3267696	12	2.1	12	100	0	50	28	16	32	24	1.96
3271334--3271388	27	2.0	27	89	0	83	5	45	12	36	1.66
3276903--3276963	23	2.7	22	80	5	86	24	29	26	19	1.99
3280791--3280815	13	1.9	13	100	0	50	40	16	4	40	1.67
3282311--3282346	7	4.9	7	87	12	54	44	0	0	55	0.99
3282309--3282344	16	2.2	16	95	0	63	47	0	0	52	1.00
3282298--3282346	23	2.2	22	88	3	71	46	0	0	53	1.00
3285667--3285706	21	1.9	21	85	10	55	30	17	2	50	1.59
3286688--3287170	256	1.9	249	81	5	567	35	16	17	30	1.93
3287300--3287501	21	9.8	21	69	7	119	19	21	24	35	1.96
3287304--3287549	82	3.0	82	89	4	388	17	21	24	36	1.94
3287304--3287524	41	5.4	41	91	3	356	17	21	24	36	1.94
3287302--3287559	123	2.1	122	90	4	403	17	21	24	36	1.94
3287308--3287549	41	5.9	40	91	3	301	17	21	24	36	1.94
3287528--3287589	31	2.0	31	100	0	124	16	19	22	41	1.89
3287672--3287714	6	7.5	6	97	2	72	30	53	16	0	1.43
3287979--3288011	6	5.5	6	100	0	66	0	15	51	33	1.43
3288104--3288228	41	3.0	41	89	4	207	36	24	22	16	1.94
3288104--3288203	20	4.9	20	72	8	85	38	24	22	16	1.93
3288261--3288366	20	5.2	20	67	12	63	35	26	19	17	1.95
3288268--3288370	41	2.5	41	93	0	170	37	26	19	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3288159--3288346	101	1.9	101	85	7	265	35	24	22	18	1.96
3288110--3288374	21	13.0	21	65	12	104	35	24	21	18	1.95
3288128--3288399	142	1.9	142	90	3	431	34	23	22	19	1.96
3302828--3302852	9	2.8	9	100	0	50	24	0	0	76	0.80
3309126--3309168	21	2.0	21	95	0	77	27	27	20	23	1.99
3309204--3309247	21	2.1	21	100	0	88	13	27	45	13	1.81
3309281--3309356	21	4.0	20	74	22	74	13	27	35	23	1.92
3309303--3309330	14	2.0	14	100	0	56	14	28	28	28	1.95
3309282--3309350	34	2.0	35	91	2	113	14	27	33	24	1.94
3309446--3309504	29	2.0	31	93	6	104	44	16	3	35	1.65
3312596--3312635	21	1.9	22	90	10	66	12	10	40	37	1.77
3312663--3312705	21	2.0	21	95	0	77	27	27	20	23	1.99
3312741--3312785	22	2.0	22	100	0	90	13	26	46	13	1.80
3312819--3312897	21	4.0	21	78	18	98	12	27	36	22	1.91
3312820--3312891	36	2.0	36	94	0	126	13	27	34	23	1.93
3312841--3312870	15	2.0	15	100	0	60	13	26	33	26	1.93
3312987--3313046	29	2.0	31	93	6	106	43	16	6	33	1.74
3313396--3313443	3	15.3	3	87	8	69	37	0	0	62	0.95
3321206--3321392	62	3.0	62	90	2	288	32	9	14	43	1.77
3321206--3321426	62	3.6	61	82	10	208	32	9	15	42	1.78
3321533--3321641	57	1.9	57	86	3	157	32	11	15	40	1.84
3321689--3322531	240	3.5	236	88	2	1152	32	16	17	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3322558--3322600	10	4.2	10	82	5	50	81	0	13	4	0.84
3322542--3322594	21	2.7	20	82	8	65	83	0	13	3	0.79
3322547--3322624	31	2.5	32	81	6	88	78	2	14	5	1.03
3323256--3323302	3	15.0	3	82	8	58	38	0	0	61	0.96
3325086--3325173	37	2.4	36	81	7	97	13	12	9	64	1.49
3326835--3326977	59	2.4	59	92	0	250	32	41	6	18	1.78
3327005--3327109	29	3.6	29	82	1	120	26	8	13	51	1.69
3328008--3328078	23	3.2	22	79	13	76	69	1	0	29	0.98
3328066--3328102	17	2.1	18	95	5	67	64	0	16	18	1.29
3328596--3328658	2	31.5	2	100	0	126	50	0	0	49	1.00

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