genome.fa.s7418.2.7.7.80.10.50.1000.1.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: VEPZ01007418.1 Hibiscus syriacus cultivar Beakdansim tig00020063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1198774

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 645 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)
989--1097	8	15.1	7	80	15	75	11	17	0	70	1.16
981--1030	16	3.8	13	76	23	52	14	14	0	72	1.14
983--1022	21	1.9	21	85	10	55	15	15	0	70	1.18
999--1055	8	7.1	8	88	7	89	12	15	0	71	1.13
4612--4678	33	2.0	33	97	0	125	26	17	25	29	1.98
6764--6830	34	2.0	34	94	2	118	28	23	4	43	1.73
8646--8679	17	1.9	17	88	5	50	61	2	0	35	1.11
31468--31494	2	13.5	2	100	0	54	51	0	0	48	1.00
52039--52096	21	2.8	20	84	5	80	79	0	15	5	0.90
53000--53049	20	2.5	19	81	9	64	6	16	0	78	0.95
53004--53064	27	2.2	28	91	5	99	6	14	0	78	0.94
53014--53072	27	2.2	27	78	6	66	11	15	0	72	1.11
53884--54062	64	2.8	61	80	12	189	27	16	25	29	1.97
53905--54062	64	2.5	63	87	2	199	27	16	24	31	1.96
56651--56749	29	3.5	28	81	9	119	37	1	16	45	1.54
56651--56851	28	7.0	29	82	7	123	39	1	15	42	1.59
56756--56851	28	3.4	28	95	0	174	42	3	14	39	1.61
56809--56897	44	2.0	46	95	4	164	41	4	17	35	1.70
56853--56911	30	2.0	28	90	6	91	35	5	16	42	1.71
61026--61120	28	3.5	28	85	2	131	34	1	16	47	1.54
61108--61178	28	2.5	29	82	11	85	36	1	15	46	1.55
61126--61188	27	2.3	27	89	5	101	42	3	15	38	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61150--61232	44	1.9	44	95	2	150	39	4	18	37	1.72
61193--61272	28	2.9	28	88	1	108	38	5	13	42	1.66
61125--61262	71	1.9	71	91	2	224	42	3	15	39	1.64
62982--63057	39	2.0	37	85	10	100	67	0	10	22	1.21
62984--63047	19	3.3	19	76	6	67	68	0	7	23	1.15
64227--64310	10	8.8	9	73	12	69	17	25	27	29	1.98
64227--64284	20	2.9	20	84	7	82	18	25	24	31	1.98
64227--64284	9	5.9	10	80	15	68	18	25	24	31	1.98
64228--64316	29	3.1	28	81	10	92	16	26	26	29	1.97
64248--64314	19	3.5	19	82	11	75	16	25	29	28	1.97
64312--64350	17	2.3	17	100	0	78	17	46	23	12	1.83
71535--71587	5	9.8	5	76	15	52	18	50	22	7	1.72
71534--71594	17	3.3	17	79	20	77	18	47	22	11	1.80
71535--71601	22	3.0	22	93	4	107	17	46	23	11	1.82
71584--71614	7	4.4	7	100	0	62	16	29	29	25	1.96
75071--75108	12	3.0	13	84	3	51	76	5	5	13	1.13
78777--78990	75	2.9	76	89	6	321	57	14	0	28	1.44
78781--78990	74	2.8	75	89	6	302	57	13	0	27	1.43
80425--80463	18	2.2	18	95	0	69	41	0	20	38	1.53
87328--87367	19	2.1	19	100	0	80	15	32	5	47	1.66
89481--89665	103	1.8	102	85	1	262	30	28	18	22	1.98
95231--95268	19	2.0	19	100	0	76	31	5	26	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95913--95958	23	2.0	23	91	0	74	41	13	15	30	1.85
97957--98027	22	3.3	22	75	13	67	59	1	0	39	1.06
97966--98005	17	2.4	17	82	0	53	60	0	0	40	0.97
97966--98028	12	5.4	12	76	12	69	57	0	0	42	0.99
97937--98077	19	7.8	19	76	20	94	56	2	2	39	1.23
97967--98110	24	6.0	24	73	11	91	55	1	3	39	1.25
97955--98027	5	14.6	5	81	14	71	58	1	0	39	1.06
98075--98101	14	1.9	14	100	0	54	51	0	11	37	1.37
102767--102805	16	2.4	17	82	4	53	74	0	10	15	1.07
102772--102825	29	2.0	29	85	10	78	72	1	7	18	1.17
111843--111869	4	6.8	4	100	0	54	77	0	0	22	0.76
113213--113621	55	7.3	55	71	11	244	32	18	18	30	1.95
113190--113674	56	8.7	57	73	9	313	31	19	17	31	1.95
113189--113674	112	4.4	111	82	4	561	31	19	17	31	1.95
115140--115170	16	1.9	16	100	0	62	51	29	0	19	1.47
127073--127194	39	3.1	39	80	4	113	36	21	20	21	1.95
128228--128298	27	2.6	27	86	0	97	25	4	21	49	1.67
136320--136369	9	5.3	9	81	9	64	14	22	28	36	1.92
136320--136369	19	2.6	19	90	0	82	14	22	28	36	1.92
143602--143636	9	3.8	9	85	7	52	14	25	28	31	1.95
143601--143641	19	2.2	18	95	4	73	19	29	24	26	1.98
143660--143693	13	2.6	13	90	0	59	14	29	29	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
147535--147574	10	3.9	10	87	12	55	82	0	0	17	0.67
147621--147654	17	1.9	18	94	5	61	41	14	5	38	1.70
147635--147910	37	7.5	36	76	12	161	42	9	5	42	1.61
147637--147775	75	1.9	74	85	13	196	46	9	2	41	1.51
147637--147909	72	3.7	70	76	13	198	42	9	5	42	1.59
148492--148543	22	2.4	22	83	0	68	34	19	17	28	1.94
148931--149290	45	8.0	45	89	1	519	31	21	6	40	1.79
149064--149138	20	3.5	20	67	29	57	32	24	4	40	1.73
149398--149512	61	1.9	61	90	3	187	31	26	18	23	1.97
153101--153142	14	2.9	14	86	10	50	4	21	0	73	1.01
153098--153204	16	6.3	16	73	24	62	6	16	0	76	0.98
153116--153204	12	7.4	12	75	17	71	5	16	0	77	0.95
153117--153204	6	14.8	6	75	17	60	5	17	0	77	0.96
156197--156253	9	6.4	9	76	9	55	73	1	1	22	1.02
156223--156265	19	2.4	16	82	17	50	62	4	0	32	1.15
156279--156322	22	2.0	22	95	0	79	36	6	4	52	1.49
156249--156709	36	12.8	35	78	8	392	41	8	3	45	1.53
156306--156582	104	2.6	106	84	6	346	42	8	3	45	1.52
158224--158290	33	2.0	33	97	0	125	25	16	26	31	1.96
158390--158554	45	3.7	45	83	5	201	43	7	21	28	1.79
158390--158562	91	1.9	90	84	6	235	42	6	20	29	1.78
158996--159045	13	3.7	13	94	5	82	22	24	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161265--161343	40	2.0	40	87	0	113	41	5	13	39	1.67
161268--161352	40	2.1	40	82	0	98	44	8	11	35	1.71
161385--161451	32	2.1	32	83	5	82	23	8	11	55	1.64
164439--164534	45	2.1	46	84	9	126	25	17	11	45	1.82
164948--165041	42	2.2	43	81	5	111	26	21	13	38	1.91
173282--173332	25	2.0	25	82	14	61	47	13	0	39	1.43
173930--173958	2	14.5	2	100	0	58	48	0	0	51	1.00
174058--174266	81	2.6	81	88	0	283	32	20	11	35	1.89
174693--174759	20	3.3	20	87	0	98	38	20	17	22	1.93
174767--174897	19	6.7	19	88	9	176	35	25	9	29	1.88
175054--175091	16	2.5	15	84	12	51	28	5	0	65	1.14
175686--175719	12	2.8	12	90	0	50	55	29	0	14	1.40
178155--178189	18	1.9	18	94	0	61	54	25	2	17	1.57
178455--178481	14	1.9	14	100	0	54	14	22	22	40	1.90
178441--178534	34	2.8	33	82	6	107	27	19	22	30	1.98
178687--178847	64	2.5	64	92	1	259	49	17	1	31	1.58
180177--180295	21	5.7	21	77	3	114	21	21	35	21	1.96
180177--180298	42	2.9	41	84	4	154	22	21	35	21	1.96
180592--180711	63	1.9	63	82	3	152	33	31	11	23	1.91
180613--180669	21	2.8	20	73	7	60	36	36	8	17	1.81
182492--182545	20	2.7	20	94	0	99	51	20	18	9	1.73
182445--182565	54	2.3	54	82	4	138	52	23	14	9	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182588--182621	14	2.4	14	90	0	50	8	14	23	52	1.69
182602--182646	20	2.2	20	84	4	54	17	8	17	55	1.67
183152--183202	20	2.5	20	76	23	54	19	13	23	43	1.87
187329--187509	29	6.3	28	75	8	123	29	7	22	40	1.80
187363--187510	56	2.6	56	78	4	136	32	6	20	41	1.77
187334--187499	85	1.9	86	86	6	239	31	6	19	41	1.78
187358--187510	29	5.4	28	75	9	130	31	6	21	40	1.79
193669--193774	30	3.5	30	78	3	97	36	4	14	44	1.66
194321--194349	15	2.0	15	93	6	51	44	0	0	55	0.99
203086--203226	45	3.0	45	81	9	149	26	19	14	39	1.91

Tables:   1   2   3   4   5   6