genome.fa.s7940.2.7.7.80.10.50.1000.1.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: VEPZ01007940.1 Hibiscus syriacus cultivar Beakdansim tig00110356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1348078

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 521 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)
51--102	20	2.5	21	87	3	70	21	23	17	38	1.93
13847--13894	24	2.0	24	96	4	89	39	20	10	29	1.86
14962--15041	40	2.0	40	90	0	124	33	10	12	43	1.76
15802--15942	76	1.9	76	95	0	255	24	31	9	34	1.88
16534--16577	6	7.2	6	89	2	52	25	54	20	0	1.45
27057--27217	60	2.7	59	85	3	189	37	6	23	32	1.80
27126--27222	29	3.3	29	64	21	74	41	6	17	35	1.75
29568--29870	149	2.0	149	98	0	579	34	20	15	29	1.93
31229--31389	64	2.5	63	85	8	200	26	21	18	33	1.96
34698--35158	151	3.1	151	94	3	790	35	20	14	29	1.92
36515--36674	64	2.5	63	86	8	207	26	21	17	33	1.96
37646--38274	76	8.3	76	93	4	1060	35	21	19	22	1.96
38948--39003	23	2.5	22	80	5	67	35	12	14	37	1.84
48617--48669	11	4.9	10	79	11	52	66	0	1	32	1.03
49884--49931	3	15.0	3	83	12	60	60	4	0	35	1.16
49873--49940	27	2.6	25	90	9	102	57	2	0	39	1.14
56105--56143	2	19.5	2	100	0	78	51	0	0	48	1.00
60592--60627	17	2.1	18	89	5	56	38	0	2	58	1.13
65007--65113	24	4.5	24	65	4	63	23	10	16	49	1.76
67027--67072	19	2.4	19	85	3	56	21	17	30	30	1.96
67038--67074	19	1.9	19	94	0	65	21	16	29	32	1.95
72570--72639	8	8.8	8	98	0	131	24	25	0	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83965--84313	173	2.0	173	95	0	626	30	18	16	34	1.93
87891--87939	22	2.2	22	89	7	73	59	0	0	40	0.98
90532--90587	17	3.4	17	85	7	62	35	14	16	33	1.88
90792--90823	10	3.2	10	95	0	55	25	25	18	31	1.98
96001--96053	14	3.8	13	80	14	52	26	0	22	50	1.49
96001--96047	14	3.3	14	80	19	53	27	0	21	51	1.48
97076--97122	22	2.1	22	81	14	53	21	0	10	68	1.20
100806--100853	2	24.0	2	100	0	96	50	0	0	50	1.00
101607--101823	103	2.1	102	93	0	371	26	13	23	36	1.92
101833--101907	23	3.3	23	81	3	82	24	18	22	34	1.96
104967--105009	21	2.0	21	90	0	68	32	27	23	16	1.96
105898--105926	2	14.5	2	100	0	58	48	0	0	51	1.00
106681--106895	103	2.1	103	92	1	360	27	12	23	36	1.90
106908--106982	23	3.3	23	87	3	100	24	20	24	32	1.98
107127--107179	24	2.2	24	77	12	56	35	3	18	41	1.69
109108--109213	38	2.9	37	93	6	180	49	2	0	48	1.16
109964--109998	16	2.2	16	89	0	52	14	34	0	51	1.42
115384--115418	7	5.0	7	100	0	70	28	42	14	14	1.84
117144--117170	13	2.1	13	100	0	54	77	0	0	22	0.76
125469--125535	29	2.4	28	84	2	80	46	23	5	23	1.74
125562--125606	18	2.5	18	81	0	63	17	26	40	15	1.90
126147--126178	2	15.5	2	93	6	55	50	3	0	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
127817--127852	8	4.6	8	96	3	65	55	0	44	0	0.99
133072--133127	2	28.0	2	100	0	112	50	0	0	50	1.00
136596--136646	22	2.3	23	79	3	59	25	7	7	58	1.53
138521--138549	5	5.8	5	100	0	58	58	0	0	41	0.98
143176--143492	157	2.0	157	100	0	634	31	11	20	35	1.89
161077--161105	10	2.7	11	89	10	51	62	0	0	37	0.96
163850--164315	228	2.0	229	99	0	916	26	14	21	36	1.93
167629--167686	27	2.1	27	93	0	98	65	13	3	17	1.40
169403--169444	2	21.0	2	100	0	84	50	0	0	50	1.00
171705--171756	6	8.5	6	75	12	52	76	1	0	21	0.87
171670--171717	25	1.9	25	83	8	62	64	2	6	27	1.28
171701--171759	15	3.9	15	80	6	66	76	1	0	22	0.88
173595--174117	106	5.0	106	87	3	763	22	19	25	33	1.97
173656--174117	205	2.2	205	87	2	663	21	19	25	33	1.97
175494--175575	22	3.7	23	74	11	80	6	9	10	73	1.25
175500--175571	15	4.8	15	71	19	60	4	11	9	75	1.18
176655--176680	7	3.7	7	100	0	52	53	15	15	15	1.73
178436--178485	3	16.7	3	87	8	75	68	2	0	30	1.01
179864--179912	25	2.0	23	84	7	62	63	6	0	30	1.19
185616--185689	21	3.6	21	67	20	66	18	18	27	35	1.95
185629--185709	40	2.0	40	100	0	162	20	17	24	37	1.94
185641--185710	21	3.4	21	67	21	67	20	17	22	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186414--186460	21	2.2	21	100	0	94	42	17	19	21	1.89
186452--186506	21	2.6	21	91	0	83	30	25	21	21	1.98
188204--188239	14	2.6	14	90	0	54	25	38	13	22	1.91
196763--196798	4	9.0	4	100	0	72	25	0	0	75	0.81
207076--207845	105	7.4	105	91	2	1174	34	24	18	22	1.97
208303--208352	26	1.9	26	84	8	66	50	8	0	42	1.32
217094--217124	7	4.4	7	100	0	62	16	45	12	25	1.83
220508--220540	6	5.5	6	96	0	57	18	21	12	48	1.80
220941--220973	13	2.4	14	95	5	59	24	0	27	48	1.51
226968--227188	83	2.7	83	95	1	390	38	19	26	15	1.92
227410--227562	83	1.8	83	85	2	218	40	20	22	16	1.91
226868--227684	406	2.0	405	81	5	943	40	20	21	17	1.91
234845--234936	42	2.2	42	94	0	157	26	30	4	39	1.75
245767--245928	81	2.0	81	97	0	306	43	14	14	27	1.83
248177--248226	23	2.2	23	92	0	82	6	24	20	50	1.70
255671--255710	18	2.2	19	86	8	57	57	2	0	40	1.12
256742--256791	23	2.2	23	82	7	57	40	2	2	56	1.22
258052--258105	14	4.1	14	75	18	62	11	11	22	55	1.66
258057--258126	24	2.9	24	87	4	97	12	10	18	58	1.62
258850--258924	10	7.7	10	69	21	61	9	12	21	57	1.62
258856--258920	16	4.1	16	95	0	121	7	12	23	56	1.61
258990--259022	16	2.1	16	100	0	66	6	12	24	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262798--262838	16	2.6	16	88	0	55	36	12	17	34	1.87
273331--273385	22	2.4	22	84	6	65	60	3	0	36	1.15
273349--273402	22	2.5	23	82	14	62	64	1	0	33	1.04
276734--276816	21	3.8	21	80	13	87	20	22	31	25	1.98
276734--276815	22	3.7	22	81	9	87	20	23	31	24	1.98
282882--282939	23	2.5	23	100	0	116	41	0	0	58	0.98
288169--288318	10	13.6	10	70	18	93	14	8	16	61	1.55
288171--288308	23	6.0	23	93	1	233	15	7	15	61	1.55
288174--288318	68	2.2	66	93	2	245	15	8	15	61	1.56
289676--289720	2	22.5	2	100	0	90	51	0	0	48	1.00
299195--299233	19	2.0	20	85	5	53	43	20	10	25	1.83
300588--300684	50	1.9	50	91	0	158	20	25	17	36	1.94
301448--301507	26	2.3	26	83	13	70	55	1	0	43	1.10
301503--301529	7	3.9	7	100	0	54	44	11	0	44	1.39
314134--314183	24	2.2	22	85	7	64	50	0	4	46	1.20
320066--320113	24	2.0	24	95	0	87	31	16	12	39	1.86
320430--320493	28	2.3	28	100	0	128	51	6	23	18	1.69
326214--326285	36	2.0	36	88	0	108	26	11	20	41	1.86
337854--337889	17	2.1	17	90	10	56	52	22	0	25	1.47
340061--340098	16	2.4	17	86	8	53	5	34	0	60	1.19
341881--341922	19	2.3	18	80	8	50	45	30	7	16	1.74
342237--342293	29	2.0	29	82	0	69	42	5	3	49	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344546--344570	13	1.9	13	100	0	50	32	0	12	56	1.36
346163--346225	22	2.9	22	87	0	90	55	3	15	25	1.55
355021--355355	100	3.4	100	77	3	327	38	13	10	38	1.78
355523--355694	68	2.5	70	79	10	185	33	11	12	43	1.78
359605--359645	13	3.2	13	82	0	55	41	2	4	51	1.36
359743--359777	17	2.0	18	88	5	54	54	11	0	34	1.37
360723--360775	22	2.4	23	78	9	58	52	13	15	18	1.74
360982--361280	77	3.9	76	82	3	305	38	9	15	36	1.81
361723--362147	100	4.2	100	80	3	408	37	10	15	36	1.82
361749--362159	102	4.1	102	78	3	265	37	10	14	37	1.81

Tables:   1   2   3   4   5