genome.fa.s8001.2.7.7.80.10.50.1000.15.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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

This is table  15  of  18  ( 2081 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)
3145276--3145306	15	2.1	15	100	0	62	32	32	0	35	1.58
3157348--3157406	29	2.0	29	96	0	109	23	18	20	37	1.94
3161910--3161985	33	2.3	33	95	0	134	28	40	15	14	1.87
3166580--3166619	18	2.2	19	86	4	55	42	2	17	37	1.63
3176649--3176715	35	1.9	35	100	0	134	47	11	11	28	1.76
3178528--3178646	43	2.8	42	87	3	175	25	17	26	30	1.97
3181134--3181169	17	2.2	16	95	5	63	69	16	5	8	1.33
3189852--3189910	20	2.7	23	78	19	72	22	30	22	25	1.99
3191792--3191871	27	2.9	27	92	1	124	18	3	25	52	1.62
3193776--3193828	22	2.4	22	80	0	70	32	22	3	41	1.72
3194472--3194566	41	2.3	42	80	5	104	33	21	11	33	1.89
3194502--3194645	42	3.5	40	68	16	96	31	23	15	28	1.96
3206441--3206549	48	2.3	48	85	6	141	22	14	15	47	1.81
3206457--3206549	24	3.9	24	79	0	96	23	13	15	47	1.81
3208739--3208764	2	13.0	2	100	0	52	50	0	0	50	1.00
3211026--3211071	4	11.5	4	85	0	65	26	17	23	32	1.97
3211026--3211068	12	3.6	12	100	0	86	25	16	25	32	1.96
3212513--3212590	39	2.0	39	87	5	113	29	1	33	35	1.66
3212573--3212601	11	2.6	11	100	0	58	41	0	48	10	1.37
3215645--3215700	26	2.2	26	83	0	67	17	12	8	60	1.57
3218120--3218234	10	10.7	11	77	18	102	80	0	20	0	0.72
3218120--3218233	22	5.3	21	81	13	135	79	0	20	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3218113--3218233	42	2.9	42	81	13	144	80	0	19	0	0.72
3218113--3218235	9	13.1	9	78	15	108	80	0	19	0	0.71
3218113--3218235	31	4.0	29	82	15	131	80	0	19	0	0.71
3218115--3218240	5	24.6	5	70	24	77	79	0	19	0	0.78
3219770--3219823	28	1.9	28	92	7	92	27	25	24	22	2.00
3221168--3221357	23	9.3	22	60	27	71	32	14	11	41	1.82
3221449--3221517	23	3.3	23	61	23	60	28	11	17	42	1.84
3221515--3221579	20	3.2	20	65	16	53	26	16	10	46	1.80
3221116--3221684	40	14.2	40	94	1	888	29	16	12	41	1.85
3221116--3221819	40	17.8	38	89	3	272	29	16	13	40	1.86
3221822--3221936	36	3.2	36	77	4	106	26	20	15	37	1.92
3221957--3222066	28	3.9	28	88	7	143	30	13	16	40	1.87
3221972--3222043	15	5.1	14	68	22	53	29	9	16	44	1.80
3221993--3222043	16	3.4	16	71	20	56	27	11	15	45	1.81
3221957--3222066	57	1.9	57	87	7	161	30	13	16	40	1.87
3222140--3222185	24	1.9	24	81	0	56	26	17	17	39	1.91
3222042--3222281	120	2.0	122	90	3	378	31	17	12	37	1.88
3222042--3222265	61	3.7	61	92	1	380	31	17	12	38	1.88
3222538--3222602	20	3.3	20	66	12	53	40	10	23	26	1.87
3222618--3223097	136	3.6	136	93	1	799	33	17	22	26	1.96
3223035--3223327	117	2.6	111	84	8	371	39	14	21	24	1.91
3243752--3244051	152	2.0	150	94	4	527	41	10	8	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3245934--3245972	18	2.2	18	90	0	60	23	46	20	10	1.81
3245971--3246103	29	4.7	29	80	10	159	34	1	15	48	1.55
3245971--3246103	28	4.8	28	82	4	144	34	1	15	48	1.55
3252682--3252766	41	2.1	41	100	0	170	41	21	20	17	1.91
3253282--3253449	29	6.0	29	87	8	222	35	0	17	46	1.53
3253383--3253430	26	1.9	26	87	8	73	41	2	14	41	1.57
3254927--3255215	144	2.0	144	100	0	578	33	8	12	44	1.74
3271973--3272022	19	2.6	19	81	12	66	74	2	4	20	1.08
3272608--3272778	64	2.7	64	96	1	308	55	12	0	31	1.38
3272672--3272769	19	4.8	19	65	20	54	55	13	0	31	1.39
3274431--3274483	5	10.8	5	82	11	65	75	0	5	18	0.99
3274431--3274482	14	3.6	14	84	5	68	75	0	5	19	1.01
3280612--3280884	81	3.4	81	83	5	342	14	24	12	48	1.78
3297255--3297369	29	4.0	29	80	4	106	40	15	23	20	1.91
3298878--3299522	54	11.9	54	90	0	932	33	17	17	30	1.94
3303535--3303573	15	2.6	15	100	0	78	25	15	28	30	1.96
3306064--3306627	54	10.5	54	87	1	803	33	17	18	29	1.94
3306083--3306627	161	3.4	161	89	2	821	33	17	19	29	1.94
3306064--3306627	107	5.2	108	88	2	832	33	17	18	29	1.94
3307044--3307093	21	2.4	21	86	3	66	32	28	12	28	1.92
3312823--3312853	2	15.5	2	100	0	62	48	0	0	51	1.00
3314203--3314263	23	2.7	23	85	7	72	54	3	0	42	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3314760--3314863	48	2.2	48	98	0	199	48	0	27	24	1.52
3317928--3317984	20	2.9	20	94	2	98	28	17	24	29	1.97
3323357--3323390	14	2.3	15	90	5	52	61	11	8	17	1.54
3331069--3331113	12	3.5	12	80	16	54	46	17	20	15	1.84
3333391--3333430	21	1.9	21	94	0	71	30	15	7	47	1.72
3333425--3333523	33	3.0	33	94	1	164	32	7	15	45	1.73
3333509--3333563	13	4.2	13	75	13	58	36	3	10	49	1.56
3333976--3334009	18	1.9	18	88	5	52	41	11	8	38	1.73
3333957--3334013	15	3.7	15	77	9	51	35	12	10	42	1.77
3334103--3334134	16	2.0	17	88	11	50	43	21	21	12	1.86
3341637--3341675	17	2.4	17	95	4	71	51	5	0	43	1.24
3343282--3343320	17	2.4	17	95	4	71	51	5	0	43	1.24
3347371--3347412	15	2.9	15	82	3	59	47	38	0	14	1.44
3356858--3356939	31	2.7	31	96	1	148	31	25	17	25	1.97
3363435--3363485	22	2.3	22	96	0	93	15	37	17	29	1.91
3365481--3365513	15	2.2	15	94	0	57	6	24	15	54	1.63
3366246--3366286	18	2.3	18	86	0	55	39	7	7	46	1.60
3366329--3366353	13	1.9	13	100	0	50	56	32	0	12	1.36
3372021--3372181	64	2.5	63	84	7	182	34	17	21	27	1.95
3376967--3377080	59	1.9	60	83	5	151	44	19	3	32	1.67
3386453--3386497	22	2.1	21	84	12	56	48	20	6	24	1.73
3393899--3393950	19	2.7	19	72	16	54	36	11	3	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421884--3421922	16	2.4	16	87	8	53	7	5	0	87	0.68
3421869--3421920	24	2.2	24	82	0	59	5	3	5	84	0.86
3421898--3421962	21	3.1	21	75	12	64	6	10	4	78	1.07
3424925--3425000	21	3.9	21	66	22	58	15	28	34	21	1.94
3424927--3424998	36	2.0	36	97	0	135	16	29	33	20	1.95
3425400--3425441	20	2.0	20	86	9	57	50	4	14	30	1.63
3425605--3425639	15	2.3	15	95	0	61	17	22	31	28	1.96
3431091--3431160	35	2.0	35	94	0	122	17	32	30	20	1.95
3431764--3431822	15	3.9	15	90	0	91	16	23	30	28	1.97
3447864--3447932	16	4.4	15	70	14	50	20	4	0	75	0.97
3447839--3447897	28	2.1	28	84	6	75	22	6	0	71	1.09
3447903--3447938	11	3.4	11	92	3	56	16	2	0	80	0.83
3447902--3447938	5	7.0	5	90	9	56	18	2	0	78	0.87
3453098--3453173	38	2.0	38	100	0	152	39	7	15	36	1.77
3457347--3457430	43	2.0	43	87	0	123	28	10	23	36	1.89
3460158--3460209	21	2.5	21	81	3	61	38	19	25	17	1.93
3460198--3460332	20	6.7	20	78	7	112	34	23	17	24	1.96
3460195--3460326	61	2.2	61	85	0	174	36	23	16	23	1.94
3460500--3460543	22	2.0	22	100	0	88	22	45	13	18	1.84
3460981--3461035	25	2.2	24	78	15	58	20	9	18	52	1.71
3462666--3462711	20	2.3	20	84	0	56	36	23	21	17	1.94
3462677--3462732	20	2.8	20	81	2	69	39	21	23	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3462721--3462777	14	3.7	14	75	20	60	50	22	15	10	1.74
3462705--3462796	33	2.8	33	98	0	175	46	20	19	13	1.83
3462705--3462801	19	5.6	19	71	22	97	45	20	20	13	1.85
3462813--3462870	14	3.9	14	75	16	62	12	17	22	48	1.80
3462808--3462919	33	3.4	33	92	1	172	13	18	20	47	1.82
3462835--3462919	19	5.0	19	71	25	82	14	18	18	48	1.81
3462845--3462902	14	3.8	14	73	20	53	13	17	18	50	1.79
3462867--3462908	21	2.0	20	82	13	50	14	16	14	54	1.71
3462904--3462959	20	2.8	19	81	7	67	16	23	23	37	1.93
3464962--3465008	20	2.3	20	100	0	94	14	23	25	36	1.93

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