genome.fa.s8364.2.7.7.80.10.50.1000.16.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  16  of  27  ( 3136 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)
3617522--3617604	29	2.9	29	83	0	94	14	24	38	22	1.92
3623284--3623363	39	2.1	39	97	0	151	32	21	21	25	1.98
3626179--3626250	32	2.2	32	95	0	135	43	18	19	19	1.89
3626259--3626307	22	2.2	23	85	3	64	44	22	8	24	1.79
3628797--3628838	22	2.0	21	86	9	59	47	11	4	35	1.61
3628882--3629075	18	11.2	18	74	11	181	42	5	6	45	1.51
3628908--3628965	17	3.5	17	69	21	50	48	5	5	41	1.48
3628893--3629052	33	4.7	33	80	10	187	43	5	6	45	1.51
3628882--3629073	51	3.7	51	78	13	221	42	5	6	45	1.51
3628994--3629276	2	135.0	2	65	23	68	43	3	6	45	1.48
3628893--3629075	69	2.6	71	83	5	225	43	4	6	45	1.50
3628993--3629080	9	10.0	9	75	21	62	43	3	4	48	1.40
3628900--3629121	104	2.1	102	80	11	229	43	4	6	45	1.49
3629204--3629327	33	4.1	33	71	21	126	42	7	8	41	1.64
3629183--3629298	55	2.1	55	90	6	184	46	6	8	38	1.59
3628986--3629221	9	27.1	9	65	27	52	43	2	6	47	1.45
3629306--3629458	18	7.9	18	75	18	112	41	6	9	41	1.64
3629304--3629458	38	4.0	38	86	7	197	41	6	9	41	1.63
3629451--3629549	33	3.1	32	73	11	96	45	5	7	42	1.53
3629632--3629686	22	2.5	22	82	11	60	49	10	1	38	1.49
3629790--3629881	20	4.8	20	65	24	56	45	6	3	44	1.45
3629814--3629888	22	3.5	22	77	15	93	45	6	2	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3629704--3629877	89	2.0	88	80	5	199	43	6	4	45	1.50
3629827--3629898	20	3.5	20	72	12	65	41	5	4	48	1.45
3629976--3630896	435	2.1	432	93	2	1573	28	12	8	50	1.69
3629976--3630896	215	4.3	217	93	2	1532	28	12	8	50	1.69
3629978--3631046	435	2.5	427	85	7	1072	30	12	8	48	1.70
3633097--3633216	51	2.4	49	86	8	165	24	24	24	27	2.00
3634925--3635131	105	1.9	108	86	5	294	46	9	7	35	1.65
3638747--3639084	2	176.0	2	71	24	209	43	1	5	50	1.31
3639163--3639239	39	2.0	39	87	5	111	35	33	22	9	1.85
3639718--3639742	12	2.1	12	100	0	50	56	8	28	8	1.57
3639917--3639941	13	1.9	13	100	0	50	16	32	52	0	1.44
3641310--3641506	40	4.8	42	75	12	131	35	20	19	24	1.96
3641361--3641522	82	2.0	83	86	6	233	37	20	17	23	1.94
3641398--3641609	42	5.1	41	72	17	152	36	19	17	26	1.94
3641534--3641692	41	3.9	41	85	3	214	35	15	18	30	1.92
3641490--3641707	82	2.7	81	81	7	235	36	16	16	29	1.91
3652220--3652296	21	3.7	21	82	0	91	38	18	40	2	1.64
3652672--3652969	43	6.9	43	78	6	219	30	23	20	25	1.99
3652657--3652969	86	3.6	85	74	8	242	29	23	21	26	1.99
3653192--3653237	22	2.1	22	95	0	83	41	2	0	56	1.11
3653376--3653435	28	2.1	28	81	6	68	53	5	3	38	1.39
3659448--3659520	7	10.6	7	82	11	57	47	27	1	23	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3659448--3659570	14	8.9	13	73	7	84	47	30	1	20	1.59
3659448--3659549	21	4.9	20	73	15	91	48	29	0	21	1.57
3659485--3659557	7	10.4	7	85	5	78	52	30	0	17	1.46
3659488--3659570	21	4.0	21	80	3	78	50	30	1	18	1.54
3661136--3661174	11	3.5	11	85	0	60	28	5	28	38	1.78
3661139--3661185	22	2.1	22	96	0	85	27	8	27	36	1.86
3668259--3668297	18	2.2	18	85	0	51	15	35	10	38	1.81
3669264--3669348	40	2.2	39	86	2	116	65	4	5	23	1.34
3669909--3670593	341	2.0	341	95	0	1219	36	18	17	28	1.93
3670724--3671723	333	3.0	329	92	4	1611	43	5	7	44	1.55
3671524--3671576	27	2.0	27	85	10	74	50	0	0	49	1.00
3672855--3672927	30	2.4	30	86	2	101	34	15	31	19	1.92
3672940--3672997	30	1.9	30	86	6	82	32	15	29	22	1.95
3680400--3680442	21	2.0	21	82	8	52	34	18	27	18	1.95
3681771--3681811	20	2.0	20	86	9	57	48	12	4	34	1.62
3684719--3684744	13	2.0	13	100	0	52	30	15	15	38	1.88
3693913--3693959	24	1.9	25	86	4	69	27	21	12	38	1.90
3694220--3694254	18	1.9	18	100	0	70	5	25	40	28	1.78
3697803--3697852	26	2.0	26	88	4	75	50	0	0	50	1.00
3702143--3702167	2	12.5	2	100	0	50	48	0	0	52	1.00
3705380--3705421	22	1.9	22	90	0	66	52	0	0	47	1.00
3705647--3705730	42	2.0	42	85	0	114	50	13	13	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3713295--3713353	28	2.0	29	83	6	75	49	8	3	38	1.50
3723049--3723112	31	2.1	31	100	0	128	21	12	18	46	1.82
3734264--3734296	16	2.2	15	89	10	50	48	12	24	15	1.78
3745622--3745654	3	11.0	3	93	0	57	33	3	0	63	1.10
3761839--3762161	173	1.9	164	94	5	565	32	10	16	40	1.83
3766371--3766460	42	2.1	42	91	0	144	26	24	16	32	1.96
3766422--3766593	80	2.2	80	97	0	326	31	19	21	27	1.97
3766582--3766606	13	1.9	13	100	0	50	32	24	20	24	1.98
3766594--3766674	42	2.0	41	90	2	126	28	22	22	27	1.99
3766594--3766696	42	2.5	42	84	7	122	26	23	22	28	1.99
3767115--3767427	53	5.9	53	86	0	403	30	19	27	22	1.98
3769966--3770061	21	4.6	21	70	12	72	41	19	13	25	1.88
3771543--3771594	20	2.6	20	88	11	72	36	17	21	25	1.94
3772481--3772537	30	1.9	30	92	0	96	24	15	28	31	1.96
3773041--3773068	2	14.0	2	100	0	56	50	0	0	50	1.00
3775198--3775229	15	2.1	16	94	5	57	78	0	0	21	0.76
3775206--3775244	19	2.1	19	85	9	53	82	0	0	17	0.68
3774738--3775325	294	2.0	294	95	1	1065	44	14	12	28	1.81
3791014--3791053	21	2.0	20	85	5	53	45	2	0	52	1.14
3803404--3803449	21	2.3	19	85	14	58	50	4	43	2	1.34
3803827--3803890	33	1.9	33	96	0	119	48	12	20	18	1.80
3809526--3809579	24	2.2	25	96	3	101	46	3	9	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3809536--3809590	25	2.2	24	83	3	65	49	7	5	38	1.54
3831222--3831333	39	2.9	39	94	2	199	20	16	18	43	1.88
3832630--3832657	2	14.0	2	100	0	56	50	0	0	50	1.00
3836766--3836860	29	3.2	29	70	21	97	37	24	6	31	1.80
3836735--3836860	60	2.1	61	96	1	236	35	23	7	33	1.84
3839591--3839633	19	2.5	18	85	14	56	27	2	2	67	1.15
3840830--3840857	14	2.0	14	100	0	56	35	0	0	64	0.94
3842202--3842243	22	1.9	22	85	0	57	42	4	14	38	1.66
3843156--3843185	3	10.0	3	92	0	51	30	0	3	66	1.07
3851005--3851126	29	4.2	29	78	6	104	39	4	22	33	1.75
3851061--3851122	28	2.2	28	82	5	72	46	6	17	29	1.73
3851019--3851168	58	2.6	57	81	3	165	40	6	19	34	1.76
3851036--3851168	29	4.6	29	71	2	115	39	6	19	34	1.76
3857552--3857687	29	4.8	29	75	10	111	36	5	22	35	1.77
3857566--3857637	27	2.6	27	74	12	65	43	2	20	33	1.67
3857552--3857672	55	2.1	58	82	8	151	38	4	23	33	1.74
3863695--3863745	3	17.0	3	100	0	102	66	0	0	33	0.92
3863744--3863785	3	14.0	3	100	0	84	33	0	33	33	1.58
3866383--3867318	106	9.0	106	86	3	1201	22	18	24	33	1.97
3867327--3867460	37	3.7	36	79	5	135	37	14	20	28	1.91
3868185--3868261	22	3.5	22	87	0	118	23	10	24	41	1.85
3868855--3868902	19	2.6	18	83	6	60	2	12	6	79	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3868868--3868911	18	2.4	18	88	7	63	0	13	6	79	0.92
3870799--3870826	5	5.6	5	100	0	56	82	0	0	17	0.68
3872247--3872279	2	16.5	2	100	0	66	51	0	0	48	1.00
3872688--3872785	37	2.6	37	88	0	133	30	14	14	40	1.85
3874139--3874197	22	2.7	22	79	10	75	30	15	13	40	1.86
3874861--3874902	2	21.0	2	90	9	68	50	0	2	47	1.14
3877569--3877617	22	2.2	22	100	0	98	36	10	12	40	1.77
3883784--3883827	22	2.0	22	100	0	88	54	9	0	36	1.32
3883788--3883835	22	2.2	22	88	0	69	58	8	2	31	1.39
3887966--3888020	2	27.5	2	100	0	110	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   19   20   21   22   23   24   25   26   27