genome.fa.s160.2.7.7.80.10.50.1000.20.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  20  of  30  ( 3592 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)
3206376--3206451	20	3.8	20	80	0	98	34	14	10	40	1.80
3208593--3208828	97	2.4	97	89	0	355	30	28	12	29	1.93
3210925--3210974	20	2.4	21	83	3	57	28	18	14	40	1.89
3211701--3211998	52	5.8	52	76	7	214	37	15	22	25	1.93
3211805--3211990	51	3.6	51	76	6	153	36	14	23	25	1.93
3211766--3211998	103	2.3	101	77	7	247	37	14	22	25	1.92
3212066--3212351	32	8.9	31	77	8	236	21	16	29	33	1.95
3212066--3212351	65	4.4	64	77	9	242	21	16	29	33	1.95
3212066--3212352	33	8.9	33	78	6	275	21	16	29	33	1.95
3212139--3212382	128	1.9	129	81	9	302	22	15	30	31	1.95
3212535--3213091	31	18.5	31	78	10	405	32	11	29	26	1.91
3212536--3213091	91	6.2	89	75	10	402	32	11	29	26	1.91
3212535--3213119	122	4.9	121	81	8	536	32	11	29	26	1.91
3212532--3213078	60	9.1	60	75	9	215	32	11	29	26	1.91
3213007--3213197	31	6.4	31	79	7	164	30	16	27	25	1.96
3213053--3213197	60	2.4	60	83	2	175	30	17	25	26	1.98
3213053--3213201	29	5.0	28	77	9	102	30	17	26	25	1.97
3221113--3221142	10	3.0	10	90	0	51	23	0	36	40	1.55
3221481--3221873	60	6.4	60	88	6	529	24	27	19	27	1.99
3221920--3222152	61	3.8	61	83	5	301	25	27	19	27	1.99
3221925--3222150	122	1.9	122	89	0	353	26	26	20	26	1.99
3221646--3222150	277	1.8	277	85	6	716	25	27	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3222139--3222270	42	3.1	42	80	7	131	18	28	12	40	1.87
3223090--3223163	20	3.7	20	87	3	105	27	16	13	43	1.85
3227419--3227542	51	2.4	51	75	0	131	29	24	10	35	1.89
3227683--3227802	51	2.4	52	84	5	165	29	27	12	30	1.93
3227737--3227953	79	2.7	77	82	6	263	27	26	13	32	1.94
3229138--3229257	51	2.4	51	84	6	154	40	12	15	32	1.84
3229235--3229312	39	2.0	38	87	2	111	42	11	17	28	1.84
3229365--3229405	20	2.0	20	95	0	73	34	19	9	36	1.85
3230527--3230553	13	2.1	13	100	0	54	25	29	7	37	1.83
3232359--3232751	79	5.0	78	81	2	376	35	10	23	29	1.89
3232400--3232766	158	2.3	156	82	5	425	35	10	23	29	1.89
3232732--3232822	28	3.2	28	85	0	110	35	17	23	24	1.95
3235658--3235791	58	2.3	58	81	6	139	31	8	10	49	1.68
3236060--3236208	77	1.9	77	83	4	192	32	16	17	34	1.92
3239834--3239962	52	2.5	52	96	0	240	28	18	17	34	1.94
3239982--3240040	21	2.8	21	100	0	118	33	10	16	38	1.83
3240062--3240146	32	2.7	32	92	0	143	38	16	12	31	1.87
3240088--3240144	13	3.9	13	74	24	51	35	15	14	35	1.88
3240182--3240223	21	2.0	21	90	0	66	35	14	14	35	1.86
3240867--3241258	49	7.8	49	82	4	390	32	16	26	25	1.96
3240867--3241258	150	2.6	147	80	5	392	32	16	26	25	1.96
3240867--3241258	98	3.9	99	82	3	437	32	16	26	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3241262--3241346	28	2.9	31	78	18	101	18	18	28	34	1.95
3241321--3241575	29	8.7	29	85	2	341	21	17	30	30	1.96
3241321--3241575	59	4.4	58	88	2	341	21	17	30	30	1.96
3241593--3241806	34	6.5	33	82	10	219	33	11	32	22	1.90
3241593--3241678	35	2.5	35	92	1	138	33	10	34	20	1.87
3243232--3243300	25	2.9	22	84	16	93	2	7	8	81	0.97
3243245--3243301	12	4.8	12	75	14	55	3	7	5	84	0.87
3249760--3249793	7	4.9	7	100	0	68	26	29	29	14	1.95
3257920--3258048	52	2.5	52	93	0	231	28	17	17	35	1.93
3258134--3258196	19	3.7	18	74	24	64	38	19	11	31	1.86
3258126--3258211	32	2.7	32	90	0	145	38	18	11	31	1.87
3261500--3261548	2	24.5	2	100	0	98	51	0	0	48	1.00
3261994--3262021	2	14.0	2	100	0	56	50	0	0	50	1.00
3262613--3262639	14	1.9	14	100	0	54	18	0	0	81	0.69
3266430--3266462	2	16.5	2	100	0	66	48	0	51	0	1.00
3268517--3268573	11	5.1	11	74	18	55	31	0	7	61	1.23
3268823--3268885	17	4.0	15	81	12	65	71	0	25	3	1.01
3268829--3268886	31	1.9	31	86	10	84	75	0	20	3	0.94
3268824--3268872	14	3.3	14	81	18	55	73	0	26	0	0.83
3269961--3270009	26	1.9	25	84	12	64	44	0	0	55	0.99
3269960--3270019	15	4.3	15	76	19	60	45	0	0	55	0.99
3270315--3270607	149	2.0	149	87	2	428	46	8	3	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3272764--3273214	163	2.7	170	80	6	512	43	10	10	35	1.73
3274669--3274701	17	1.9	17	88	11	50	60	3	6	30	1.36
3277253--3277314	33	1.9	32	86	3	88	30	12	12	43	1.81
3283454--3283503	19	2.6	19	81	6	57	44	10	8	38	1.68
3286076--3286100	13	1.9	13	100	0	50	32	16	16	36	1.90
3286057--3286118	32	1.9	33	90	3	99	29	16	14	40	1.88
3286170--3286268	52	1.9	52	91	0	162	34	17	18	30	1.94
3287009--3287040	2	16.0	2	100	0	64	50	0	0	50	1.00
3291125--3291173	23	2.1	24	84	3	64	57	4	2	36	1.30
3292527--3292591	20	3.3	20	80	4	69	49	1	3	46	1.27
3292548--3292591	19	2.3	19	84	4	52	47	2	2	47	1.27
3293914--3294520	79	7.7	78	82	5	582	35	13	22	27	1.92
3293885--3294520	158	4.0	158	81	4	678	35	13	22	27	1.92
3302044--3302075	15	2.1	16	94	5	57	53	21	0	25	1.46
3302314--3302354	21	2.0	20	85	4	55	43	2	29	24	1.67
3311772--3311812	20	2.0	21	90	9	66	46	7	7	39	1.60
3311881--3311921	20	2.0	21	85	4	57	34	17	17	31	1.93
3311929--3311953	13	1.9	13	100	0	50	32	16	16	36	1.90
3311908--3311971	33	2.0	33	90	3	103	28	15	17	39	1.90
3314726--3314770	20	2.2	21	77	14	51	62	2	31	4	1.27
3321282--3321334	18	2.8	19	83	13	65	77	0	13	9	0.99
3321282--3321334	19	2.8	19	83	13	65	77	0	13	9	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321255--3321335	32	2.5	31	79	13	85	77	0	13	8	0.98
3323621--3323664	22	2.1	21	91	8	72	45	6	9	38	1.63
3323781--3323805	13	1.9	13	100	0	50	32	16	16	36	1.90
3323760--3323823	33	2.0	32	87	3	92	28	14	17	40	1.88
3323887--3323937	20	2.5	20	87	0	75	33	11	17	37	1.86
3330510--3330565	24	2.3	24	78	0	67	60	5	1	32	1.29
3330932--3330997	17	3.8	17	73	11	62	48	0	0	51	1.00
3331277--3331324	16	3.0	16	79	11	53	45	0	0	54	0.99
3331277--3331353	16	5.0	15	68	21	52	48	1	0	50	1.09
3332479--3332504	13	2.0	13	100	0	52	30	15	15	38	1.88
3334889--3334935	21	2.3	21	76	23	55	42	4	19	34	1.70
3335056--3335081	13	2.0	13	100	0	52	38	15	15	30	1.88
3337161--3337191	15	2.1	15	93	0	53	12	22	16	48	1.80
3338995--3339039	21	2.1	21	84	8	56	22	20	4	53	1.63
3341258--3341283	13	2.0	13	100	0	52	30	15	15	38	1.88
3342271--3342337	20	3.1	22	77	20	70	70	0	1	28	0.96
3345332--3345388	28	2.0	29	86	6	80	66	0	3	29	1.08
3345408--3345437	14	2.1	14	93	0	51	60	0	0	40	0.97
3345592--3345670	38	2.1	38	95	0	140	58	6	11	24	1.56
3345700--3345755	16	3.5	15	75	20	51	58	3	0	37	1.15
3345755--3345794	20	2.1	19	85	4	53	57	0	0	42	0.98
3347271--3347299	7	4.1	7	100	0	58	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347643--3347700	27	2.1	27	96	0	107	25	31	17	25	1.97
3347703--3347734	2	16.5	2	93	6	57	53	0	0	46	1.00
3348263--3348368	47	2.3	45	82	9	117	43	0	0	54	1.13
3348282--3348368	45	1.9	46	83	6	115	44	0	1	54	1.07
3348322--3348380	30	2.0	30	90	6	93	47	0	0	52	1.00
3354839--3354958	52	2.3	52	94	0	204	29	17	18	35	1.94
3354841--3354979	52	2.7	52	86	4	183	30	17	17	33	1.94
3355043--3355067	13	1.9	13	100	0	50	32	16	16	36	1.90
3355021--3355087	33	2.0	33	88	0	98	40	13	11	34	1.81
3359371--3359402	11	2.8	11	95	4	55	68	0	0	31	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30