genome.fa.s8531.2.7.7.80.10.50.1000.1.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  1  of  19  ( 2279 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)
478--535	31	1.9	30	82	10	73	43	8	20	27	1.81
899--960	30	2.0	31	93	3	108	24	3	33	38	1.71
2541--2641	38	2.6	39	78	10	127	22	14	28	33	1.94
2542--2618	36	2.1	37	85	4	102	23	15	27	33	1.95
3937--4016	18	4.3	19	72	17	60	51	1	1	46	1.17
3895--3999	13	7.8	13	65	24	58	48	0	1	49	1.12
4135--4170	18	1.9	19	88	5	56	52	0	0	47	1.00
4117--4224	44	2.4	47	78	9	107	44	0	3	51	1.19
18439--18482	22	2.0	22	82	13	54	54	4	11	29	1.56
23110--23178	31	2.5	28	74	19	72	52	2	8	36	1.47
27159--27190	16	2.0	16	93	0	55	21	6	15	56	1.62
29183--29231	17	3.0	16	79	11	55	71	8	16	4	1.26
29421--29465	17	2.6	17	92	0	72	11	26	0	62	1.29
33625--33666	2	21.5	2	85	4	59	47	4	0	47	1.23
39832--39887	21	2.7	21	97	0	103	32	16	10	41	1.82
44254--44292	21	1.9	20	89	5	60	38	20	15	25	1.92
44444--44574	65	2.0	65	96	0	244	32	17	23	25	1.97
45600--45637	18	2.1	18	100	0	76	42	10	15	31	1.81
45661--45739	26	3.0	26	96	1	140	56	7	16	18	1.63
46081--46159	20	3.8	20	76	6	61	36	18	10	34	1.85
46395--46421	2	13.5	2	100	0	54	51	0	0	48	1.00
46578--46669	29	3.2	29	78	3	96	41	8	25	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51027--51063	2	18.5	2	100	0	74	51	0	0	48	1.00
57679--57740	10	5.6	11	72	25	51	56	1	6	35	1.35
57719--57805	4	21.8	4	75	15	56	64	1	1	33	1.09
57679--57745	35	1.9	34	84	3	89	56	1	5	35	1.33
57717--57817	12	8.5	12	77	14	70	64	0	0	33	1.07
57691--57821	20	6.4	20	70	24	71	61	1	2	35	1.18
58338--58397	11	5.6	10	74	18	50	81	1	5	11	0.91
58338--58397	20	2.9	21	78	14	70	81	1	5	11	0.91
58345--58414	28	2.5	28	84	11	90	78	4	5	11	1.06
58338--58413	29	2.8	28	82	13	95	78	3	6	10	1.05
60252--60344	31	3.0	31	95	1	161	24	3	33	38	1.72
65733--66011	59	4.7	59	94	0	477	34	12	21	31	1.91
67875--67936	30	2.0	31	93	3	108	24	3	33	38	1.71
69543--69652	40	2.7	40	91	1	175	21	13	30	34	1.92
70969--71053	26	3.1	26	73	15	66	52	1	1	44	1.16
70974--71046	19	3.8	20	75	8	62	52	1	1	45	1.18
71187--71240	27	2.0	28	85	10	76	55	0	0	44	0.99
71204--71262	22	2.7	23	79	12	61	54	0	3	42	1.17
73425--73459	8	4.1	8	92	7	52	34	25	22	17	1.96
79177--79382	105	2.0	105	84	0	268	27	30	16	26	1.96
85571--85614	22	2.0	22	82	13	54	54	4	11	29	1.56
89847--89872	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92864--92915	26	2.0	27	84	3	70	42	15	15	26	1.87
96521--96565	17	2.6	17	92	0	72	13	24	0	62	1.31
100700--100735	2	18.5	2	88	5	56	47	2	0	50	1.15
106978--107033	21	2.7	21	100	0	112	32	16	8	42	1.79
112375--112505	65	2.0	65	95	0	235	32	18	23	25	1.97
115503--115535	15	2.2	15	89	10	50	48	12	18	21	1.80
116308--116427	29	4.2	30	86	9	144	41	21	5	30	1.77
116308--116427	58	2.1	57	85	4	161	41	21	5	30	1.77
123361--123500	29	4.8	29	81	2	147	40	24	4	30	1.74
123361--123487	58	2.2	58	84	2	166	40	25	4	29	1.76
123441--123510	29	2.4	29	92	0	104	44	24	1	30	1.62
123402--123517	58	2.0	59	81	5	137	39	25	3	31	1.72
125376--125685	46	6.7	46	87	1	442	21	22	11	43	1.84
125442--125666	26	9.6	25	66	22	132	21	22	11	44	1.83
126572--126628	14	4.0	14	75	11	53	26	29	19	24	1.98
135015--135057	16	2.6	16	82	17	52	0	18	0	81	0.69
135027--135058	11	2.8	11	95	4	55	0	18	0	81	0.70
135015--135058	14	3.2	14	83	3	54	0	18	0	81	0.68
142343--142386	16	2.8	16	96	3	81	4	18	0	77	0.94
142337--142426	30	3.1	28	74	17	78	3	14	1	81	0.88
142342--142426	23	3.5	23	76	17	82	3	15	1	80	0.92
142380--142426	24	2.0	24	87	8	69	2	12	2	82	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
142337--142426	6	14.7	6	69	17	51	3	14	1	81	0.88
143093--143122	14	2.1	14	93	0	51	0	16	0	83	0.65
143094--143134	19	2.2	19	86	0	55	2	14	2	80	0.92
147183--147220	14	2.5	15	87	12	60	81	0	18	0	0.69
151225--151249	13	1.9	13	100	0	50	24	36	0	40	1.55
166268--166307	20	2.1	19	95	4	71	27	25	20	27	1.99
166394--166458	22	3.0	21	73	13	60	29	20	13	36	1.91
171134--171161	12	2.3	12	100	0	56	85	0	0	14	0.59
171733--171768	16	2.2	16	90	0	54	25	22	25	27	2.00
177012--177054	19	2.2	20	87	4	61	48	6	9	34	1.62
177900--177941	20	2.0	20	82	13	50	47	14	14	23	1.80
180515--180570	18	2.8	20	76	17	55	1	19	3	75	1.05
181276--181318	19	2.2	20	87	4	61	48	6	9	34	1.62
184697--184939	4	61.5	4	67	19	57	71	0	6	21	1.13
184744--184790	15	3.2	15	77	14	53	72	0	14	12	1.13
184820--184950	39	3.4	36	75	18	97	66	1	3	29	1.16
184820--184950	19	6.8	19	69	11	79	66	1	3	29	1.16
184825--184950	43	3.1	41	78	13	111	65	1	3	29	1.17
185507--185615	37	2.9	37	94	0	191	31	14	14	39	1.87
187164--187194	2	15.5	2	93	0	53	48	3	0	48	1.17
187700--187825	20	5.7	20	72	20	99	21	24	10	43	1.83
187722--187863	26	6.0	25	74	19	151	21	21	9	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
187692--187851	46	3.5	46	93	0	275	20	22	10	46	1.81
189124--189185	22	2.8	23	82	4	65	19	17	22	40	1.91
189137--189185	23	2.2	22	88	3	71	20	14	22	42	1.88
190450--190785	43	7.8	43	87	1	449	34	23	21	19	1.97
190450--190786	130	2.6	129	87	1	451	34	23	21	19	1.96
193227--193272	20	2.2	21	84	7	67	56	13	10	19	1.66
193536--193608	30	2.4	30	93	0	119	30	21	26	21	1.99
193656--193692	18	2.0	19	89	5	58	18	32	24	24	1.97
196777--197200	138	3.1	136	83	4	473	29	15	11	43	1.82
199618--199671	20	2.7	21	80	11	60	24	0	5	70	1.08
205281--205392	21	5.4	21	76	15	99	29	11	31	27	1.92
205870--206104	47	5.0	47	87	2	355	44	10	23	21	1.83
206071--206124	20	2.7	20	94	0	90	40	11	27	20	1.86
210195--210259	18	3.9	16	74	18	53	78	4	15	1	0.99
210200--210259	20	3.1	19	77	15	68	80	3	15	1	0.93
218482--218526	22	2.0	23	86	4	65	33	13	26	26	1.93
219033--219099	20	3.3	20	95	0	125	40	10	28	20	1.86
222471--222583	51	2.2	51	85	3	147	37	4	7	50	1.52
229670--229703	16	2.1	17	88	5	52	26	23	2	47	1.66
232120--232167	22	2.1	24	84	7	64	27	0	18	54	1.44
233563--233631	24	2.9	24	93	0	120	26	13	17	43	1.85
235128--235211	23	3.7	23	95	0	141	17	40	16	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
235996--236028	17	1.9	17	93	0	57	39	6	15	39	1.72
242660--242722	28	2.2	28	83	5	74	11	14	14	60	1.59
252110--252223	53	2.2	53	88	0	165	25	16	21	35	1.94
263783--263887	53	2.0	53	86	0	147	25	13	20	40	1.89
266039--266212	95	1.8	94	87	3	260	32	16	23	27	1.96
266141--266212	22	3.5	20	82	12	76	30	16	30	22	1.96
266546--267067	59	8.8	59	88	3	737	33	12	19	34	1.89
268552--269908	55	24.6	55	83	4	1493	30	19	26	23	1.98
268552--269890	168	8.1	166	83	3	1520	30	19	25	23	1.98
268552--269890	223	6.1	223	85	2	1661	30	19	25	23	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19