genome.fa.s9023.2.7.7.80.10.50.1000.1.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: VEPZ01009023.1 Hibiscus syriacus cultivar Beakdansim tig00112416_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  540103

Tables:   1   2   3   

This is table  1  of  3  ( 243 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)
2008--2042	16	2.1	17	94	5	63	34	25	8	31	1.86
16706--16791	30	2.9	30	75	5	84	22	8	8	61	1.50
20925--20999	32	2.3	32	90	0	114	33	10	22	33	1.89
21401--21621	120	1.8	120	85	5	313	31	26	20	21	1.98
21580--21733	43	3.6	43	85	3	211	29	32	16	20	1.95
21581--21746	86	1.9	86	87	2	244	30	30	18	20	1.96
21824--22359	83	6.4	83	84	1	640	33	23	18	25	1.97
21824--22359	167	3.2	166	84	1	640	33	23	18	25	1.97
23541--23626	30	2.9	30	75	5	84	22	8	8	61	1.50
26166--26253	24	3.7	24	95	0	140	35	22	20	21	1.96
26166--26248	12	6.8	13	68	15	70	36	24	19	20	1.95
28716--28757	13	3.2	13	93	0	66	14	19	47	19	1.82
29975--30064	42	2.2	42	89	2	137	23	14	28	33	1.94
30066--30129	28	2.3	28	86	2	94	23	7	34	34	1.84
30884--30994	20	5.3	20	76	10	80	26	24	18	30	1.98
30899--30959	23	2.7	23	92	2	97	22	26	19	31	1.98
31815--31868	24	2.2	24	90	6	83	22	16	20	40	1.91
34129--34163	18	1.9	18	94	0	61	54	22	2	20	1.58
34341--34582	20	12.7	20	77	11	222	35	21	20	22	1.96
34346--34561	54	3.9	54	88	3	279	36	22	19	22	1.95
34341--34520	74	2.4	74	84	5	213	36	22	19	21	1.95
34717--34796	30	2.4	34	78	20	105	55	15	2	27	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34732--34797	30	2.2	30	97	0	123	54	13	1	30	1.48
36814--36881	20	3.4	20	85	0	91	19	17	25	38	1.93
37029--37078	18	2.8	18	96	0	91	44	6	18	32	1.74
38799--38885	20	4.4	20	84	4	106	50	22	14	11	1.75
39756--39912	64	2.4	65	79	7	169	33	20	19	26	1.97
40676--40893	103	2.1	103	93	0	373	26	12	23	36	1.91
40909--40977	23	3.0	23	91	0	111	23	20	26	30	1.98
42387--42462	20	3.8	20	78	0	80	27	22	25	25	2.00
44978--45048	23	3.1	23	97	0	133	54	16	15	12	1.70
44947--45064	23	4.9	23	79	9	101	55	15	14	14	1.69
45238--45291	24	2.2	24	93	0	90	61	14	9	14	1.57
46408--46433	3	8.7	3	100	0	52	69	0	0	30	0.89
46465--46508	18	2.4	18	78	10	54	77	0	6	15	0.97
46516--46553	16	2.4	16	86	8	51	73	2	7	15	1.17
46518--46573	17	3.3	17	75	9	51	78	1	10	8	1.03
47810--48058	35	6.8	35	75	11	196	46	5	3	44	1.41
47850--48118	37	7.0	38	75	11	192	43	8	3	44	1.50
53561--53593	6	5.7	6	89	3	50	0	3	15	81	0.80
53560--53601	22	1.9	22	85	9	59	0	4	16	78	0.91
56212--56240	6	4.8	6	100	0	58	51	34	13	0	1.42
59867--59948	42	2.0	40	85	4	110	47	6	10	35	1.64
61312--61364	21	2.5	21	81	6	72	45	13	15	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67556--67594	20	2.0	20	85	10	53	23	0	35	41	1.55
70341--70397	24	2.4	24	80	14	64	47	1	14	36	1.54
70600--70634	18	1.9	18	94	0	61	17	20	34	28	1.95
70620--70667	23	2.0	23	84	8	60	22	16	25	35	1.95
75974--76026	19	2.8	19	75	13	56	49	1	18	30	1.59
75977--76063	37	2.4	37	82	3	95	44	5	19	29	1.74
76013--76078	19	3.5	19	77	4	71	42	9	21	27	1.83
76006--76086	37	2.2	37	95	0	144	39	9	19	30	1.84
76134--76178	13	3.6	12	82	8	54	53	0	26	20	1.46
76205--76242	14	2.7	14	95	0	67	36	5	23	34	1.78
77491--77927	127	3.5	126	83	2	511	27	16	17	37	1.92
82971--83005	15	2.2	17	90	10	56	68	0	0	31	0.90
83115--83151	17	2.3	15	90	9	56	37	0	0	62	0.96
83180--83229	15	3.3	16	73	21	54	30	2	0	68	1.01
83243--83284	13	3.0	14	80	20	52	71	0	0	28	0.86
84261--84502	121	2.0	121	99	0	477	28	28	14	28	1.95
88964--89197	118	2.0	115	95	4	425	49	10	9	31	1.69
90026--90059	2	17.0	2	100	0	68	50	0	0	50	1.00
94089--94136	25	1.9	25	83	8	62	52	2	0	45	1.12
94208--94245	2	19.5	2	89	5	60	52	0	2	44	1.14
98750--98803	23	2.3	23	80	0	63	35	27	18	18	1.94
104276--104316	20	2.0	20	95	0	73	14	29	39	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106321--106360	15	2.6	15	84	4	53	17	7	5	70	1.30
111683--111750	35	1.9	35	93	0	118	55	13	4	26	1.56
111797--111866	35	2.0	35	97	0	131	52	14	8	24	1.69
111683--111911	116	2.0	116	93	1	397	44	15	6	33	1.73
118656--118704	20	2.4	21	83	10	66	28	12	30	28	1.93
118893--118933	13	3.1	14	79	10	50	31	0	0	68	0.90
118924--118981	25	2.3	25	78	0	71	36	5	0	58	1.20
120757--120815	31	1.9	31	89	0	91	40	5	10	44	1.60
120840--120882	22	2.0	22	100	0	86	51	13	0	34	1.42
120842--120890	22	2.2	22	88	3	71	57	12	0	30	1.36
120828--121327	54	9.4	54	73	17	227	53	12	0	34	1.40
120845--121230	80	4.9	80	82	13	478	53	13	0	32	1.42
120946--120995	14	3.0	18	66	22	54	56	16	0	28	1.41
120838--121253	32	15.9	27	69	27	214	53	13	0	32	1.43
120982--121034	24	2.5	20	75	21	61	54	16	0	28	1.43
120942--121275	134	2.5	133	86	6	374	53	12	0	33	1.42
121076--121118	22	2.0	22	95	0	77	51	11	2	34	1.51
121078--121126	22	2.2	22	85	3	62	55	12	2	30	1.48
120830--121257	236	1.8	234	95	1	775	53	13	0	33	1.42
121210--121312	22	4.5	22	72	7	98	51	9	0	38	1.35
121255--121357	15	6.5	15	80	15	118	52	2	0	44	1.16
121201--121357	69	2.3	67	88	5	219	52	6	0	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
122989--123027	21	1.9	19	85	10	51	61	0	2	35	1.10
142087--142120	14	2.4	14	100	0	68	47	11	29	11	1.76
144246--144402	60	2.6	58	75	8	156	41	7	18	32	1.79
150611--150784	59	2.9	58	74	10	156	40	6	19	33	1.78
156875--156948	28	2.6	28	77	14	80	36	16	8	39	1.78
158841--158900	2	30.0	2	100	0	120	50	0	0	50	1.00
162271--162439	86	2.0	85	94	2	295	33	6	7	52	1.56
162955--163068	60	1.9	60	83	3	149	35	11	14	38	1.83
163236--163326	30	3.0	30	98	0	173	39	17	13	29	1.88
163321--163372	2	27.0	2	92	7	90	48	0	0	51	1.00
163321--163372	17	3.1	17	97	2	97	48	0	0	51	1.00
163591--163617	4	6.8	4	100	0	54	25	0	0	74	0.83
165636--165735	29	3.4	29	91	1	155	24	18	3	55	1.57
166144--166185	23	1.9	22	85	9	59	50	7	4	38	1.51
168072--168101	15	2.0	15	93	0	51	56	0	3	40	1.16
168898--168966	21	3.1	21	66	18	59	43	14	14	27	1.84
168875--168966	45	2.0	45	100	0	184	45	15	13	26	1.82
168875--168946	24	3.1	24	66	18	71	47	15	12	25	1.80
170120--170168	16	3.1	16	87	0	62	48	16	14	20	1.80
171441--171698	128	2.0	129	99	0	509	32	19	14	33	1.92
171718--171779	22	3.0	20	84	11	79	29	24	20	25	1.99
180537--180585	25	2.0	25	95	0	89	6	24	16	53	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186115--186159	15	3.0	15	100	0	90	40	20	6	33	1.78
209496--209724	115	2.0	115	99	0	449	38	17	10	32	1.85
209870--209898	2	15.0	2	92	7	51	51	0	0	48	1.00
222488--222523	2	18.0	2	100	0	72	50	0	0	50	1.00
235179--235221	5	8.2	5	80	10	50	55	2	0	41	1.12
235179--235230	11	4.6	11	80	7	52	55	1	0	42	1.10
235185--235221	16	2.3	16	90	9	58	56	0	0	43	0.99
235655--235681	12	2.2	12	100	0	54	40	0	11	48	1.39
236151--236192	21	2.0	21	85	0	57	33	2	7	57	1.39
240352--240377	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3