genome.fa.s6023.2.7.7.80.10.50.1000.2.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: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1315283

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 899 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)
129725--129768	13	3.5	13	76	17	56	50	11	11	27	1.72
129683--129782	25	3.9	25	80	9	103	46	14	10	30	1.77
131468--131543	10	7.4	11	73	20	67	0	18	0	81	0.69
131468--131530	25	2.8	21	81	15	65	0	17	0	82	0.67
131475--131535	7	8.7	7	82	10	72	0	18	0	81	0.68
131475--131535	22	2.9	21	79	11	72	0	18	0	81	0.68
131468--131543	12	5.9	13	72	20	54	0	18	0	81	0.69
135334--135523	93	2.0	93	100	0	380	43	10	4	42	1.58
136421--136463	22	1.9	23	90	4	70	32	2	4	60	1.30
139407--139448	3	14.0	3	89	0	66	61	2	0	35	1.09
142459--142549	5	19.4	5	70	29	60	60	2	0	37	1.09
142449--142545	22	4.4	21	76	18	83	60	2	0	37	1.08
142460--142549	7	12.9	7	76	16	89	60	2	0	37	1.09
144833--144885	27	2.0	27	84	0	70	20	15	18	45	1.85
145776--145818	22	2.0	22	90	0	68	30	23	25	20	1.99
145885--145914	13	2.3	13	94	0	51	16	20	53	10	1.71
146687--146780	2	48.5	2	74	21	85	50	3	2	44	1.30
146687--146781	7	13.1	7	76	16	79	50	3	2	44	1.29
146687--146781	11	8.7	11	72	19	74	50	3	2	44	1.29
157556--157617	19	3.3	19	77	8	65	67	0	4	27	1.10
166626--166805	73	2.5	72	83	7	229	33	16	11	38	1.84
166780--167154	39	9.7	39	84	3	436	31	16	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166780--167139	116	3.1	117	83	4	433	31	16	14	37	1.89
167186--167341	59	2.6	59	81	4	172	30	24	11	33	1.91
167366--167506	42	3.4	41	86	1	183	31	17	14	37	1.89
168060--168096	16	2.2	17	95	4	67	40	51	8	0	1.32
169450--169488	20	2.0	20	90	10	62	17	0	7	74	1.05
181359--181401	20	2.2	20	86	0	59	30	13	20	34	1.92
185731--186006	2	148.5	2	70	21	192	54	1	2	42	1.21
185690--185980	43	6.8	43	69	23	170	56	1	1	40	1.18
185690--185979	86	3.5	84	79	16	295	56	1	1	40	1.18
185688--186006	123	2.7	114	79	15	305	56	1	1	40	1.20
186087--186244	21	7.8	20	71	7	77	38	24	17	19	1.92
186250--186440	20	9.6	20	83	4	224	35	24	18	21	1.96
186211--186440	40	5.8	40	85	2	214	36	24	18	20	1.94
187121--187167	24	2.0	24	87	8	69	25	14	21	38	1.92
189624--189785	33	4.7	33	83	11	218	45	18	22	13	1.84
189605--189785	67	2.6	69	90	5	269	45	19	21	13	1.85
189638--189769	19	7.4	19	79	17	167	46	18	20	14	1.83
189817--189870	21	2.5	22	78	3	65	20	16	38	24	1.92
190009--190199	20	9.6	20	79	7	194	19	19	25	35	1.96
190389--190496	11	9.4	11	69	16	67	52	0	3	42	1.25
190394--190426	13	2.5	13	95	0	57	54	0	6	39	1.25
190420--190573	2	83.5	2	69	22	97	51	1	3	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
190409--190840	29	14.2	31	68	22	178	50	2	4	42	1.36
190471--190515	17	2.6	18	86	10	67	55	4	0	40	1.20
190605--190840	2	125.5	2	74	19	215	51	1	2	44	1.21
190614--190839	11	18.8	12	76	17	131	51	1	2	44	1.22
192587--192765	5	37.2	5	89	9	284	39	0	0	60	1.01
194009--194043	13	2.6	14	86	9	54	14	5	5	74	1.19
194085--194142	26	2.3	26	85	8	75	31	10	1	56	1.43
194099--194147	27	1.9	26	88	12	75	30	8	2	59	1.38
194156--194206	25	2.0	25	81	11	59	33	5	7	52	1.54
205629--206041	105	4.0	105	80	6	484	32	25	21	19	1.97
205626--205996	203	1.8	203	95	0	670	33	25	21	19	1.97
207517--207564	12	3.8	12	81	10	51	27	2	2	68	1.11
207615--207669	30	1.9	30	85	7	78	30	9	1	58	1.40
207697--207725	9	3.2	9	100	0	58	24	0	0	75	0.80
208652--208678	13	2.1	13	100	0	54	51	0	0	48	1.00
217214--217239	3	8.7	3	100	0	52	30	0	0	69	0.89
217300--217338	18	2.1	19	85	4	53	33	0	2	64	1.08
217696--217730	18	1.9	18	88	11	54	34	5	17	42	1.73
218088--218126	2	19.5	2	100	0	78	51	0	0	48	1.00
220120--220381	54	5.0	52	92	3	436	47	10	4	38	1.57
220121--220381	103	2.5	106	92	3	438	47	10	4	37	1.57
222313--222385	15	4.9	15	91	0	119	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222356--222490	32	4.4	32	71	22	110	39	0	9	51	1.35
222384--222490	32	3.7	32	75	23	135	35	0	12	52	1.39
222373--222721	54	6.5	54	74	14	276	34	0	12	52	1.44
222416--222458	22	2.0	22	100	0	86	34	0	13	51	1.42
222576--222640	22	3.0	22	100	0	130	35	0	13	50	1.42
222414--222614	80	2.5	76	79	9	249	32	0	15	51	1.47
222629--222682	14	3.6	14	72	18	54	37	0	5	57	1.22
222620--222704	32	2.7	32	92	0	134	35	1	9	54	1.41
222384--222752	134	2.8	126	78	13	395	33	0	13	52	1.45
222598--222810	80	2.6	83	83	9	299	35	0	11	52	1.42
222764--222806	22	2.0	22	100	0	86	34	0	13	51	1.42
224158--224484	173	1.9	173	93	0	564	37	8	14	39	1.77
229626--229692	34	2.0	34	96	0	125	31	7	31	29	1.85
229906--230064	48	3.3	48	85	5	205	32	14	23	29	1.94
229883--230057	97	1.8	95	82	11	223	31	16	22	29	1.95
230087--230223	48	2.9	47	91	3	204	33	17	21	27	1.96
229931--230283	159	2.2	162	89	3	536	32	16	22	28	1.95
230193--230418	65	3.5	65	90	2	355	32	18	20	29	1.96
230381--230558	48	3.7	48	89	4	277	32	18	22	26	1.97
231747--231883	9	15.1	9	77	19	119	12	10	0	76	1.02
231748--231878	14	9.3	14	73	19	103	11	10	0	77	0.98
231745--231883	54	2.5	53	82	15	176	12	10	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231753--231881	45	2.9	45	81	15	151	10	10	0	78	0.97
235313--235339	2	13.5	2	100	0	54	51	0	0	48	1.00
235368--235417	4	12.0	4	76	23	50	70	0	4	26	1.05
236944--236998	24	2.3	24	90	0	83	25	40	0	34	1.56
243548--243598	20	2.5	20	100	0	102	49	11	19	19	1.79
245061--245123	33	1.9	33	93	0	108	33	4	31	30	1.78
249725--250055	170	2.0	168	94	5	580	51	6	7	34	1.57
251751--251834	19	4.2	19	79	11	96	32	22	20	25	1.98
251752--251844	19	4.7	19	75	11	71	34	22	19	23	1.96
252749--252789	2	20.5	2	100	0	82	48	0	0	51	1.00
255544--255583	3	12.7	3	89	10	62	67	0	0	32	0.91
255544--255583	16	2.5	16	92	8	64	67	0	0	32	0.91
255544--255583	19	2.1	19	95	0	71	67	0	0	32	0.91
258699--258816	60	2.0	60	83	3	148	35	4	27	33	1.76
260062--260139	26	3.0	25	79	5	75	25	7	33	33	1.84
270478--270631	59	2.6	59	80	11	188	31	22	5	40	1.77
270478--270659	60	3.1	59	80	12	194	31	21	5	40	1.76
270848--270973	61	2.1	61	83	8	159	41	4	23	30	1.75
275660--275720	30	2.0	30	96	0	113	26	13	3	57	1.51
280416--280489	35	2.1	35	85	5	96	40	18	1	39	1.60
280887--281134	130	1.9	130	92	0	415	35	15	12	36	1.86
280901--281165	130	2.0	129	81	4	300	38	13	13	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281580--281613	16	2.0	18	88	11	54	64	5	2	26	1.30
284991--285021	3	10.3	3	100	0	62	64	0	0	35	0.94
285331--285380	25	2.0	25	88	0	73	32	24	26	18	1.97
291338--291428	39	2.3	39	86	3	121	34	21	26	17	1.96
293987--294011	2	12.5	2	100	0	50	52	0	0	48	1.00
294266--294338	24	3.0	24	84	4	58	10	13	24	50	1.74
294276--294332	14	4.4	14	76	17	59	8	12	24	54	1.65
294277--294351	24	3.1	24	88	3	89	12	10	21	56	1.66
295075--295149	10	7.7	10	69	21	61	9	12	21	57	1.62
295081--295145	16	4.1	16	95	0	121	7	12	23	56	1.61

Tables:   1   2   3   4   5   6   7   8