genome.fa.s7832.2.7.7.80.10.50.1000.17.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  17  of  21  ( 2482 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)
3086899--3086956	21	2.8	21	84	5	73	24	1	3	70	1.12
3087926--3087970	18	2.5	17	82	7	54	24	6	0	68	1.13
3087992--3088047	19	3.0	18	76	21	53	28	1	0	69	0.98
3090689--3090755	28	2.4	28	97	0	125	29	34	17	17	1.94
3090775--3090862	45	1.9	46	88	2	133	28	23	19	28	1.98
3096336--3096416	23	3.7	23	73	14	80	25	25	23	24	2.00
3098147--3098184	20	1.9	20	94	0	67	31	34	15	18	1.92
3098204--3098299	46	2.2	43	83	10	131	25	25	18	31	1.98
3100158--3100350	95	2.0	95	90	0	305	33	19	18	29	1.95
3101521--3103057	84	18.5	84	83	3	1635	31	24	19	24	1.98
3103647--3104065	36	11.7	34	81	11	366	44	4	6	44	1.47
3103649--3104069	71	5.9	72	84	10	478	44	3	6	45	1.47
3103625--3104069	107	4.2	109	80	11	462	44	3	6	45	1.48
3105210--3105252	17	2.5	17	84	0	59	23	6	0	69	1.12
3105229--3105320	25	3.8	24	75	16	82	19	4	4	71	1.20
3105261--3105328	20	3.3	20	77	20	70	22	2	1	73	1.05
3107417--3107446	15	2.0	15	93	0	51	30	13	16	40	1.87
3107605--3107657	24	2.2	25	82	3	63	41	1	5	50	1.36
3119009--3119076	29	2.3	29	92	0	118	25	19	19	36	1.94
3119270--3119298	2	14.5	2	100	0	58	51	0	0	48	1.00
3127022--3127082	23	2.7	22	80	5	86	26	29	26	18	1.98
3129234--3129260	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3136337--3136372	10	3.6	10	88	0	54	66	0	0	33	0.92
3136337--3136393	20	3.0	20	77	17	75	63	0	0	36	0.95
3136337--3136392	17	3.0	19	79	12	71	64	0	0	35	0.94
3136703--3136749	19	2.5	19	86	6	60	65	2	2	29	1.15
3144440--3144477	20	1.9	20	94	0	67	44	10	23	21	1.83
3144440--3144483	20	2.3	19	88	7	63	45	9	25	20	1.80
3147520--3147559	2	20.0	2	100	0	80	50	0	0	50	1.00
3150431--3150470	3	13.3	3	84	10	55	65	2	0	32	1.06
3150431--3150484	15	3.5	16	82	12	60	62	3	0	33	1.12
3150535--3150561	3	9.0	3	100	0	54	66	0	0	33	0.92
3157244--3157268	13	1.9	13	100	0	50	40	8	8	44	1.63
3159499--3159577	21	3.6	22	73	18	67	15	22	36	25	1.93
3163375--3163415	21	2.0	21	85	9	57	36	9	2	51	1.48
3194791--3194823	16	2.0	17	94	5	59	75	12	6	6	1.16
3196062--3196145	23	3.6	23	88	6	107	40	2	7	50	1.43
3201232--3201433	102	2.0	102	88	3	300	19	17	19	42	1.89
3203734--3203767	11	3.0	11	91	4	50	61	8	8	20	1.52
3206224--3206285	26	2.2	29	83	11	76	58	3	4	33	1.36
3207723--3207766	3	16.0	3	82	17	51	68	2	0	29	1.02
3207723--3207769	16	3.0	15	81	3	58	68	2	0	29	1.02
3207733--3207776	23	2.0	23	91	8	74	72	4	0	22	1.02
3208022--3208246	122	1.8	122	86	3	328	27	18	15	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3208247--3208650	113	3.5	113	81	8	497	28	20	14	36	1.92
3208669--3208949	112	2.5	113	92	1	469	26	18	16	38	1.92
3208394--3208931	288	1.8	294	83	7	727	28	19	15	37	1.92
3209709--3209811	53	1.9	54	84	2	136	29	17	14	38	1.89
3210675--3211004	76	4.4	75	88	1	365	30	23	15	30	1.95
3210680--3211004	151	2.2	150	81	2	382	31	22	15	31	1.95
3214639--3214680	2	21.0	2	100	0	84	50	0	0	50	1.00
3216298--3216369	14	5.2	14	69	15	51	56	4	13	25	1.55
3216316--3216345	15	2.0	15	93	0	51	63	6	10	20	1.47
3216405--3216446	7	6.0	7	78	10	50	54	14	16	14	1.71
3218902--3218945	15	2.9	15	83	16	56	61	4	4	29	1.36
3218907--3218946	14	2.7	15	88	7	55	62	5	5	27	1.37
3218902--3218946	16	2.9	15	83	12	56	62	4	4	28	1.34
3220395--3220438	3	16.0	3	82	17	51	68	2	0	29	1.02
3220395--3220441	16	3.0	15	81	3	58	68	2	0	29	1.02
3220405--3220448	23	2.0	23	91	8	74	72	4	0	22	1.02
3222043--3222101	28	2.1	28	96	0	109	37	11	15	35	1.84
3224353--3224387	15	2.3	15	90	0	52	37	8	5	48	1.58
3227039--3227068	14	2.1	14	93	0	51	40	0	0	60	0.97
3227462--3227548	9	9.0	11	67	30	65	55	2	0	42	1.12
3227463--3227548	7	13.3	7	73	23	73	54	2	0	43	1.13
3227469--3227548	34	2.4	33	82	15	87	55	2	0	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3227469--3227534	32	2.1	32	83	11	82	56	1	0	42	1.08
3234005--3234069	31	2.1	31	97	0	121	49	3	16	30	1.61
3243296--3243338	23	2.0	23	82	13	56	30	20	2	46	1.63
3249096--3249195	49	2.1	49	84	1	130	30	15	19	36	1.92
3250958--3251007	21	2.4	21	93	0	82	40	20	14	26	1.90
3252435--3252480	22	2.1	22	91	0	74	21	17	21	39	1.93
3269777--3269816	21	1.9	21	100	0	80	45	5	22	27	1.73
3284572--3284639	21	3.3	19	82	12	73	76	0	7	16	1.00
3284584--3284615	9	3.6	9	95	0	55	84	0	0	15	0.63
3284572--3284639	10	6.6	10	76	20	61	76	0	7	16	1.00
3284583--3284641	21	2.8	21	89	5	84	77	0	6	15	0.96
3285623--3286371	55	13.7	55	87	1	1015	28	15	27	28	1.96
3300488--3300559	20	3.6	20	96	0	126	9	22	23	44	1.82
3308604--3308647	2	22.0	2	100	0	88	50	0	0	50	1.00
3313420--3313613	75	2.6	75	83	4	223	27	5	15	51	1.66
3314870--3314896	4	6.8	4	100	0	54	22	0	0	77	0.76
3317917--3318090	90	1.9	90	81	4	208	39	17	13	29	1.87
3318697--3318727	15	2.1	15	93	0	53	45	0	0	54	0.99
3318881--3318925	20	2.4	19	85	7	56	17	22	8	51	1.73
3325650--3325712	28	2.3	28	94	2	110	25	7	28	38	1.84
3328505--3328577	30	2.4	30	95	0	128	30	24	20	24	1.99
3328563--3328690	31	4.1	31	79	6	141	33	21	17	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328560--3328688	63	2.1	61	85	7	179	32	20	19	27	1.97
3330013--3330053	21	2.0	21	85	0	55	17	24	29	29	1.97
3343142--3343178	18	2.1	18	89	0	56	18	16	16	48	1.81
3344396--3344435	20	2.0	21	90	5	64	82	2	12	2	0.87
3345264--3345311	25	1.9	25	87	8	71	37	14	2	45	1.57
3345261--3345318	24	2.4	25	80	11	75	36	13	1	48	1.53
3345449--3345615	32	5.2	32	89	2	237	28	14	23	32	1.94
3345723--3345808	34	2.5	34	88	3	129	34	23	9	32	1.87
3346051--3346196	36	4.1	36	93	0	229	24	22	15	37	1.92
3346112--3346176	21	3.4	21	68	24	70	24	26	12	36	1.91
3346182--3346258	39	2.0	39	84	0	100	32	20	11	35	1.89
3346280--3346479	43	4.4	43	73	16	177	29	12	28	29	1.93
3346296--3346521	98	2.3	97	89	4	348	30	13	27	28	1.94
3346563--3346965	90	4.5	89	89	2	592	25	19	20	34	1.96
3346563--3346965	181	2.2	180	92	2	659	25	19	20	34	1.96
3347146--3347184	3	13.3	3	89	5	62	38	0	0	61	0.96
3352133--3352222	21	4.4	21	94	4	150	66	0	33	0	0.92
3352134--3352234	10	9.6	10	70	21	57	68	0	31	0	0.90
3352133--3352222	41	2.2	41	92	5	148	66	0	33	0	0.92
3355531--3355669	19	7.7	19	67	28	81	38	2	5	53	1.37
3355516--3355703	53	3.5	53	89	7	274	38	2	6	53	1.39
3355534--3355706	34	5.0	34	71	15	131	39	2	5	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3359075--3359132	20	2.6	22	86	10	75	31	18	22	27	1.97
3361295--3361342	17	2.8	17	84	6	53	50	4	2	43	1.33
3361677--3361746	4	16.8	4	73	24	56	0	30	0	70	0.88
3361682--3361743	10	6.1	10	75	21	58	0	30	0	69	0.89
3361667--3361746	20	4.0	19	79	12	81	0	30	0	70	0.88
3368940--3368971	16	2.0	16	93	0	55	40	0	21	37	1.54
3377397--3377455	29	1.9	29	90	10	91	33	22	15	28	1.94
3380062--3380087	13	2.0	13	100	0	52	38	0	15	46	1.46
3382211--3382260	18	2.6	19	87	9	75	42	2	0	56	1.11
3382797--3382879	29	2.7	31	92	3	134	21	31	34	12	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21