genome.fa.s4096.2.7.7.80.10.50.1000.1.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: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961865

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 546 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)
2563--2675	28	4.0	30	82	13	141	22	29	31	16	1.96
2563--2675	57	2.0	57	84	6	149	22	29	31	16	1.96
2796--2877	23	3.6	23	91	0	128	19	18	18	43	1.88
2981--3023	21	2.0	22	86	13	63	55	2	41	0	1.12
3100--3181	37	2.2	39	89	6	125	37	3	15	42	1.65
3170--3205	18	2.1	18	94	5	65	27	0	13	58	1.36
3365--3431	34	1.9	35	81	6	82	43	0	11	44	1.41
3517--3556	21	1.9	21	100	0	80	30	0	15	55	1.41
3783--3809	4	6.8	4	100	0	54	25	0	22	51	1.48
3937--3984	15	3.3	14	80	8	51	52	0	6	41	1.27
10822--10883	23	2.7	23	100	0	124	20	33	25	19	1.96
10822--10905	23	3.8	21	87	7	80	22	34	25	17	1.96
15439--15480	17	2.5	17	84	0	66	59	2	0	38	1.10
15458--15588	11	10.7	11	75	16	91	46	9	0	43	1.41
15488--15579	14	7.1	14	78	12	99	44	7	1	46	1.39
15488--15628	26	5.6	26	78	5	146	46	9	1	43	1.44
15488--15649	49	3.2	50	83	11	188	46	9	1	41	1.46
16015--16210	49	4.0	49	94	0	329	45	10	0	43	1.41
16067--16150	28	3.2	28	65	22	83	45	11	0	42	1.41
16124--16200	21	3.3	21	67	27	57	46	9	1	42	1.43
17091--17184	26	3.5	26	76	12	66	41	2	6	50	1.40
17135--17188	26	2.1	24	86	10	72	42	1	5	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17382--17442	18	3.4	17	70	14	50	47	11	0	40	1.40
18073--18182	50	2.3	49	81	9	129	48	10	0	41	1.37
18160--18208	21	2.3	21	85	3	71	53	16	0	30	1.43
18357--18388	12	2.7	12	95	0	55	6	34	9	50	1.60
18640--18753	29	3.9	29	82	8	135	15	31	31	21	1.94
18770--18837	28	2.4	29	87	9	88	29	32	16	22	1.95
18786--18841	28	2.0	28	100	0	112	28	32	17	21	1.96
19280--19367	37	2.4	37	84	9	108	22	11	29	36	1.89
19305--19378	38	2.0	37	86	2	103	22	10	31	35	1.89
25692--25734	22	2.0	22	90	0	68	27	16	9	46	1.77
25693--25740	22	2.2	22	84	0	60	29	16	6	47	1.71
29769--29822	22	2.4	24	78	15	69	44	0	0	55	0.99
30095--30136	19	2.2	19	95	0	75	26	23	7	42	1.80
33874--33931	24	2.4	24	97	0	107	34	15	24	25	1.95
33874--33948	24	3.3	23	89	7	93	33	14	24	28	1.94
34146--34190	20	2.2	20	84	0	54	48	24	13	13	1.78
58671--58736	27	2.4	27	89	0	105	46	30	3	19	1.65
58763--58820	22	2.6	22	88	0	89	20	43	17	18	1.89
59196--59269	20	3.7	20	85	0	85	14	18	24	41	1.89
59186--59272	20	4.4	20	82	1	77	14	17	24	43	1.86
59236--59279	20	2.2	20	87	0	61	11	15	20	52	1.74
61183--61229	20	2.3	20	92	0	76	40	23	21	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61236--61274	19	2.0	20	90	5	62	51	20	15	12	1.76
61280--61354	33	2.2	33	85	2	105	13	20	18	48	1.81
61387--61424	20	1.9	20	100	0	76	15	10	23	50	1.75
61900--62002	21	4.9	21	71	4	82	21	33	20	24	1.97
61900--62022	42	2.9	41	80	4	138	21	34	19	23	1.96
63525--63602	20	3.9	20	78	6	77	43	24	16	15	1.86
63641--63831	20	9.9	20	82	6	223	28	18	19	32	1.96
64002--64036	18	1.9	18	94	0	61	17	2	25	54	1.57
66992--67029	17	2.2	17	100	0	76	26	5	36	31	1.79
66989--67039	17	2.6	20	76	23	63	25	7	39	27	1.83
67158--67244	20	4.3	20	75	5	86	26	17	25	31	1.97
70973--71305	111	3.0	111	95	0	612	35	7	11	45	1.68
72827--72889	27	2.3	27	86	0	90	19	34	17	28	1.94
73452--73536	35	2.4	32	76	17	89	25	7	10	56	1.58
78679--78704	2	13.0	2	100	0	52	50	0	0	50	1.00
81943--82002	10	6.0	10	77	14	52	26	1	0	71	0.95
81947--81991	19	2.4	18	82	13	56	28	2	0	68	1.01
82609--82656	4	12.5	4	82	12	57	27	0	0	72	0.84
82608--82657	12	4.0	12	82	17	66	28	0	0	72	0.86
84296--84333	18	2.0	20	85	10	53	44	18	15	21	1.86
87580--87617	19	2.0	20	94	5	69	28	15	28	26	1.96
87585--87743	63	2.5	61	87	8	205	32	18	22	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89060--89095	18	2.0	18	100	0	72	11	22	33	33	1.89
89031--89218	62	3.1	62	61	26	137	24	14	25	36	1.93
88958--89320	121	3.0	121	96	0	647	25	14	24	36	1.93
88972--89156	59	3.1	59	62	26	134	25	15	23	35	1.94
89181--89216	18	2.0	18	88	0	54	11	16	33	38	1.84
89328--89385	23	2.5	23	91	0	89	18	22	29	29	1.98
89321--89395	23	3.3	23	83	3	73	22	17	24	36	1.95
90654--90762	36	3.0	37	93	2	184	29	22	11	35	1.90
90841--90925	31	2.6	34	77	12	104	40	18	10	30	1.85
90925--91152	83	2.7	83	86	2	296	31	26	18	23	1.98
91343--91393	25	2.0	25	100	0	102	23	23	23	29	1.99
91543--91598	3	18.7	3	89	10	80	32	0	0	67	0.91
92199--92252	7	7.9	7	80	19	69	29	0	0	70	0.88
92200--92249	4	13.2	4	80	16	54	28	0	0	72	0.86
92207--92249	11	4.1	11	79	11	54	27	0	0	72	0.85
92200--92257	27	2.1	28	90	6	91	27	1	0	70	0.97
106707--106734	2	14.0	2	100	0	56	50	0	0	50	1.00
111285--111329	24	2.0	23	91	8	74	37	2	0	60	1.09
111309--111337	14	2.0	15	93	6	51	41	0	0	58	0.98
112097--112252	65	2.4	64	84	3	206	31	17	22	28	1.96
113261--113416	65	2.4	64	86	3	215	31	16	22	29	1.96
119175--119201	2	13.5	2	100	0	54	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121450--121531	2	41.0	2	100	0	164	50	0	0	50	1.00
122551--122608	29	2.0	29	89	0	89	13	36	27	22	1.92
122684--122730	14	3.4	14	93	0	76	21	38	31	8	1.83
122713--122762	23	2.2	23	88	0	73	22	26	40	12	1.88
122720--122771	23	2.3	23	82	0	68	26	23	36	13	1.92
130002--130027	3	8.7	3	100	0	52	65	0	34	0	0.93
134156--134236	13	5.8	15	68	18	50	51	0	0	48	1.00
134723--134777	20	2.8	20	97	0	101	21	32	29	16	1.95
140478--140557	20	3.8	21	76	11	74	23	35	25	16	1.95
143172--143226	21	2.5	22	97	2	103	18	41	25	14	1.88
149563--149606	19	2.3	19	100	0	88	27	18	29	25	1.98
150639--150746	31	3.5	31	91	1	173	17	24	26	31	1.97
150641--150768	31	4.2	30	87	1	103	18	24	25	31	1.98
150720--150791	29	2.4	30	86	6	94	19	20	26	33	1.97
154843--154938	31	3.1	31	89	0	147	20	18	25	35	1.95
155294--155355	2	31.0	2	100	0	124	50	0	0	50	1.00
157202--157251	24	2.1	24	85	7	66	60	14	2	24	1.45
165854--165903	24	2.1	24	85	7	66	60	14	2	24	1.45
167325--167369	18	2.5	18	96	0	81	28	31	11	28	1.91
169159--169329	85	2.0	85	100	0	342	33	3	19	42	1.69
169824--169871	23	2.1	23	88	0	69	35	12	18	33	1.89
170297--170359	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170728--170790	23	2.7	23	92	0	99	38	20	4	36	1.74
169938--170992	429	2.5	429	98	0	2051	37	12	7	41	1.72
171210--171295	39	2.2	39	93	0	145	18	13	18	48	1.80
171553--171589	18	2.1	18	89	0	56	51	10	5	32	1.60
172027--172089	23	2.7	23	92	0	99	38	20	4	36	1.74
172435--172500	25	2.6	25	80	0	87	42	13	9	34	1.76
174966--175457	183	2.7	182	93	1	844	33	16	15	34	1.90
176941--177020	9	8.6	9	72	8	61	22	33	6	37	1.79
176944--177044	12	8.4	12	88	0	121	20	33	7	37	1.82
176944--177047	6	17.3	6	81	0	91	20	33	7	38	1.81

Tables:   1   2   3   4   5