genome.fa.s8312.2.7.7.80.10.50.1000.1.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: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1258310

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 670 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)
10534--10800	105	2.7	96	88	10	435	20	17	42	19	1.90
10680--10704	9	2.8	9	100	0	50	8	12	60	20	1.57
10584--10839	105	2.4	105	98	0	494	19	17	40	22	1.92
10785--10809	9	2.8	9	100	0	50	8	12	60	20	1.57
12936--13003	2	34.0	2	100	0	136	50	0	0	50	1.00
17944--18068	31	4.0	31	92	2	198	20	19	22	37	1.94
22184--22308	31	4.0	31	93	2	198	20	18	23	38	1.93
26217--26271	27	2.0	27	100	0	110	43	25	7	23	1.79
27428--27476	25	2.0	25	88	8	73	32	14	12	40	1.83
35071--35153	30	2.8	30	96	0	157	46	18	9	25	1.79
35242--35272	15	2.1	15	100	0	62	45	6	29	19	1.75
49086--49125	21	2.0	20	85	5	53	42	10	20	27	1.83
53704--53741	2	19.5	2	94	5	69	50	0	0	50	1.00
53741--53775	2	17.5	2	100	0	70	51	0	48	0	1.00
54938--54974	19	1.9	19	100	0	74	40	10	21	27	1.86
57059--57100	3	13.7	3	80	14	50	30	0	2	66	1.04
63504--63528	2	12.5	2	100	0	50	52	0	0	48	1.00
75859--75977	60	2.0	60	88	0	175	39	10	15	35	1.81
84448--84514	27	2.5	27	87	0	107	50	5	13	29	1.65
87486--87804	166	1.9	169	89	5	495	44	1	8	45	1.43
90396--90423	13	2.2	13	100	0	56	39	0	0	60	0.97
90528--90571	21	2.1	22	91	8	74	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)
93820--93911	31	3.0	30	81	12	100	41	0	3	55	1.16
94633--94707	31	2.4	31	80	4	80	52	4	2	41	1.34
96110--96201	46	2.0	46	100	0	184	36	17	6	39	1.76
99447--99737	21	14.3	21	86	5	199	26	21	17	34	1.96
99507--99642	20	6.8	20	87	4	161	32	19	19	28	1.96
100597--100650	24	2.2	24	93	0	90	20	18	20	40	1.91
100840--100877	14	2.9	13	81	11	51	47	28	15	7	1.74
102308--102401	20	4.7	20	82	2	125	21	19	20	39	1.93
102310--102443	61	2.2	61	81	2	153	26	17	20	34	1.96
102391--102442	20	2.5	20	81	3	59	36	17	23	23	1.95
106596--106788	79	2.4	79	81	3	210	38	23	6	31	1.81
111128--111220	21	4.5	21	75	4	91	40	18	23	17	1.90
111128--111220	41	2.3	41	98	0	177	40	18	23	17	1.90
111209--111323	20	5.7	20	84	2	122	33	25	18	23	1.97
111206--111343	41	3.4	41	79	2	152	35	23	17	23	1.95
111511--111554	22	2.0	22	95	0	79	20	45	15	18	1.85
111834--111876	20	2.2	20	95	0	77	9	18	18	53	1.70
113193--113237	18	2.5	18	88	0	72	26	44	15	13	1.83
113719--113785	20	3.4	20	81	2	73	38	23	22	14	1.92
113774--113831	14	3.9	14	79	16	62	48	22	17	12	1.80
113758--113848	32	2.8	33	93	3	157	47	20	18	13	1.82
113860--113968	19	5.7	19	84	4	121	13	21	23	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
113860--113968	39	2.8	38	78	5	121	13	21	23	41	1.89
115822--115857	14	2.6	14	90	0	54	30	0	22	47	1.52
115945--116010	33	2.0	33	87	0	96	43	21	22	12	1.85
115974--116011	19	2.0	19	89	0	58	50	15	21	13	1.78
117271--117295	12	2.1	12	100	0	50	72	0	28	0	0.86
119586--119712	33	3.8	33	83	2	175	42	18	22	15	1.89
119587--119719	66	2.0	66	92	2	223	41	18	22	17	1.90
119712--119754	20	2.2	20	87	4	61	16	18	23	41	1.89
119740--119773	14	2.4	14	85	0	50	8	23	20	47	1.78
119895--119931	14	2.6	14	91	0	65	45	24	0	29	1.53
121328--121411	42	2.0	42	85	0	114	22	16	39	21	1.92
123440--123538	33	3.0	33	89	1	144	39	26	23	11	1.88
123415--123619	20	11.1	19	78	13	178	44	21	20	12	1.84
124199--124247	20	2.5	20	93	0	80	24	20	30	24	1.98
124256--124309	20	2.7	20	91	0	90	27	18	22	31	1.97
124195--124330	61	2.2	60	76	5	139	24	19	23	33	1.97
124380--124420	21	2.0	21	85	0	55	34	31	17	17	1.93
127838--128044	57	3.6	57	72	10	177	34	23	3	38	1.71
127810--128080	57	4.6	60	67	14	163	35	21	4	39	1.73
127810--128080	117	2.3	117	89	3	429	35	21	4	39	1.73
128193--128373	60	3.0	58	81	4	200	39	5	23	31	1.77
128213--128300	29	2.9	30	67	16	74	39	5	22	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131532--131582	21	2.4	22	74	9	52	43	0	9	47	1.36
138311--138351	20	2.0	20	85	4	55	26	0	34	39	1.57
139148--140382	3	412.7	3	81	10	1318	0	38	0	61	0.97
141175--141221	2	24.0	2	86	4	69	48	0	0	51	1.00
143594--143618	2	12.5	2	100	0	50	48	0	0	52	1.00
144541--144642	50	2.0	50	98	0	195	25	2	15	55	1.54
145189--145284	30	3.2	30	95	0	174	17	37	23	20	1.94
145764--145827	33	1.9	33	83	3	83	31	0	25	43	1.55
146466--146558	7	13.4	7	68	6	55	26	1	27	44	1.61
146500--146566	28	2.3	29	84	2	82	25	1	26	46	1.62
146498--146559	21	3.0	21	72	9	63	22	1	30	45	1.62
146577--146620	24	2.0	22	82	13	54	40	2	11	45	1.53
146968--146998	16	1.9	16	93	0	53	32	12	25	29	1.93
148880--148916	2	18.5	2	100	0	74	48	0	0	51	1.00
157631--157683	21	2.5	21	75	6	54	22	24	16	35	1.95
158371--158415	19	2.4	19	92	0	72	48	26	15	8	1.74
158411--158542	19	7.1	19	79	11	139	12	23	20	43	1.86
160657--160723	21	3.2	21	66	6	55	23	35	20	19	1.95
160630--160723	42	2.2	42	79	7	102	23	35	20	21	1.96
162082--162117	14	2.6	14	95	0	63	30	0	25	44	1.54
162276--162393	19	6.7	19	66	19	76	16	21	21	41	1.90
162273--162372	33	3.0	33	89	4	157	18	21	20	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165693--165742	20	2.5	20	80	0	73	38	22	18	22	1.94
165956--166023	20	3.4	20	66	8	57	41	22	19	17	1.91
166054--166127	19	4.5	16	83	16	66	13	20	18	47	1.82
166050--166117	19	3.8	19	87	12	101	13	22	17	47	1.82
168136--168201	20	3.3	20	84	0	69	40	25	18	15	1.89
168155--168210	20	2.8	20	86	2	69	37	23	23	16	1.93
168195--168273	19	4.5	18	77	16	94	44	21	20	13	1.86
168175--168292	51	2.3	52	86	2	166	43	22	21	12	1.86
168195--168310	51	2.2	52	86	4	164	44	23	18	12	1.84
168327--168379	14	3.4	14	72	22	52	11	15	22	50	1.75
168304--168395	33	2.8	33	96	0	166	14	17	20	47	1.82
168299--168395	19	5.6	19	70	22	88	14	18	20	46	1.84
168380--168423	20	2.2	20	88	4	63	18	25	20	36	1.95
168389--168434	20	2.3	20	84	0	56	17	21	23	36	1.94
168916--168960	18	2.5	18	88	0	72	13	15	44	26	1.83
170280--170338	20	3.0	20	87	0	73	42	22	18	16	1.89
170602--170645	22	2.0	22	95	0	79	18	15	45	20	1.85
170813--170947	20	6.7	20	80	7	121	24	17	24	33	1.96
170813--170950	61	2.3	61	85	0	195	23	17	23	34	1.96
170813--170968	61	2.6	61	82	2	161	23	19	23	33	1.97
171018--171058	21	2.0	21	85	0	55	34	29	17	19	1.94
171445--171531	43	2.0	43	86	0	120	28	10	9	51	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189317--189357	19	2.2	19	86	0	55	48	17	26	7	1.73
189296--189323	3	9.3	3	100	0	56	64	0	35	0	0.94
189449--189489	19	2.2	19	86	0	55	48	17	26	7	1.73
189309--189580	132	2.1	132	97	0	517	37	10	30	21	1.87
192511--192537	3	9.0	3	100	0	54	33	0	0	66	0.92
195994--196034	21	2.0	22	85	9	59	48	0	0	51	1.00
200087--200207	31	4.0	29	81	6	143	61	2	2	33	1.23
200089--200207	60	2.0	60	88	3	175	61	2	2	33	1.23
207255--207284	2	15.0	2	100	0	60	50	0	0	50	1.00
219752--219779	14	2.0	14	100	0	56	42	14	14	28	1.84

Tables:   1   2   3   4   5   6