sallet_3.scaffold.fasta.s108.2.7.7.80.10.50.500.1.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: scaffold44
Parameters: 2 7 7 80 10 50 500
Length:  500465

Tables:   1   

This is table  1  of  1  ( 117 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)
11045--11082	12	3.2	12	88	0	58	7	28	52	10	1.64
16857--16884	12	2.3	12	100	0	56	32	57	10	0	1.33
27906--27971	21	3.1	21	84	2	87	22	27	25	24	2.00
109419--109478	18	3.3	18	88	4	86	0	25	40	35	1.56
109401--109478	36	2.2	36	84	9	97	0	28	38	33	1.57
109513--109546	15	2.3	15	89	0	50	0	26	29	44	1.55
109613--109647	15	2.3	15	95	0	61	0	34	34	31	1.58
109713--109741	12	2.4	12	100	0	58	0	27	34	37	1.57
109841--109888	9	5.3	9	89	0	60	0	31	35	33	1.58
127949--128001	17	3.1	17	81	13	63	37	5	37	18	1.75
128065--128127	19	3.3	19	93	0	108	30	15	26	26	1.96
128097--128173	28	2.8	27	84	5	82	37	11	24	25	1.90
128064--128173	38	2.9	38	81	5	118	36	13	24	25	1.92
128122--128173	9	5.7	9	97	2	95	40	11	23	25	1.88
130543--130576	9	3.8	9	92	0	50	11	50	26	11	1.73
133257--133287	12	2.6	12	100	0	62	41	35	22	0	1.54
133320--133349	15	2.0	15	100	0	60	26	26	6	40	1.81
135064--135108	10	4.5	10	88	0	63	46	24	6	22	1.75
136140--136206	15	4.7	14	80	12	75	14	50	20	13	1.77
136140--136206	30	2.4	27	85	9	89	14	50	20	13	1.77
136182--136207	12	2.2	12	100	0	52	15	61	15	7	1.55
176538--176562	13	1.9	13	100	0	50	88	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
198727--198825	28	3.4	28	88	4	135	18	41	13	27	1.87
198852--198885	9	3.7	9	92	4	50	0	2	38	58	1.13
201193--201315	32	3.8	32	83	5	133	21	32	13	31	1.93
201298--201342	23	2.0	23	95	0	81	26	33	13	26	1.93
201269--201405	53	2.5	52	81	10	152	28	35	8	27	1.87
201436--201463	14	2.0	14	100	0	56	35	35	0	28	1.58
201396--201483	44	2.0	44	86	0	122	29	35	7	27	1.85
203794--203846	11	4.8	11	88	0	79	33	26	28	11	1.91
204216--204255	21	1.9	21	84	0	53	7	40	45	7	1.61
204647--204687	19	2.2	19	86	0	55	41	21	21	14	1.89
204711--204753	23	1.9	22	86	13	61	25	25	30	18	1.98
204721--204798	23	3.3	23	82	7	77	30	28	25	15	1.96
204737--204806	25	3.0	23	82	4	77	31	25	25	17	1.97
221648--221771	18	6.6	19	74	14	80	33	20	20	26	1.97
221709--221773	18	3.6	19	83	8	91	33	21	20	24	1.97
221709--221779	37	1.9	36	91	2	115	32	21	22	23	1.98
221826--221884	20	3.0	20	90	2	84	25	22	13	38	1.90
221921--221964	20	2.2	20	95	0	79	36	18	18	27	1.94
221953--221988	18	2.0	18	100	0	72	27	27	16	27	1.97
221995--222035	20	2.0	20	85	0	55	24	26	12	36	1.91
222332--222383	22	2.4	22	80	0	68	30	19	17	32	1.95
222369--222415	23	2.0	23	87	8	67	23	25	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
224483--224527	11	3.9	12	80	11	58	35	8	44	11	1.71
224562--224655	14	6.7	14	90	7	147	35	14	41	8	1.77
224876--225007	14	9.1	14	86	7	158	18	3	56	21	1.56
225072--225128	8	7.4	8	92	4	91	14	0	63	22	1.30
225063--225128	30	2.1	33	88	8	102	15	0	62	22	1.32
225125--225195	36	2.0	36	88	2	108	26	21	18	33	1.96
226473--226644	17	10.4	17	79	8	135	27	26	25	20	1.99
226483--226621	16	8.4	16	77	10	113	28	24	24	22	1.99
226641--226705	15	4.2	15	92	4	103	32	35	6	26	1.81
227084--227137	18	3.1	18	91	5	92	31	16	27	24	1.96
228257--228300	12	3.7	12	81	9	54	18	54	0	27	1.44
228265--228363	12	8.8	12	80	12	88	18	51	1	29	1.53
228402--228505	12	8.6	12	84	4	111	19	52	0	26	1.52
228414--228505	36	2.6	35	89	3	130	19	53	1	26	1.52
228497--228540	18	2.3	20	81	14	58	27	59	0	13	1.35
229427--229483	18	3.2	18	89	0	96	17	22	33	26	1.96
229423--229497	36	2.1	36	84	0	96	16	24	32	28	1.96
229732--229777	12	3.8	12	88	0	65	19	56	19	4	1.58
229784--229823	15	2.6	15	88	4	53	22	55	17	5	1.61
231054--231092	18	2.2	18	95	0	69	23	12	61	2	1.43
231215--231264	24	2.1	24	92	7	84	6	40	26	28	1.79
231920--231971	21	2.5	21	96	0	95	13	40	32	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
233622--233715	15	6.3	15	78	10	77	24	6	48	20	1.72
233641--233729	47	2.0	44	91	6	142	22	6	48	22	1.74
233752--233796	10	4.4	10	94	5	81	28	28	31	11	1.91
233752--233796	21	2.2	20	96	4	81	28	28	31	11	1.91
234448--234527	18	4.6	18	76	9	85	32	16	16	35	1.91
234448--234578	51	2.6	51	90	0	190	32	19	15	32	1.93
234449--234542	18	5.4	17	73	19	79	32	17	13	36	1.89
234613--234654	15	2.9	15	86	10	52	26	50	7	16	1.71
235590--235624	10	3.5	10	96	0	61	20	8	40	31	1.82
235585--235632	20	2.4	20	78	0	60	16	6	39	37	1.74
237284--237318	18	1.9	18	94	0	61	11	57	5	25	1.56
241254--241307	20	2.7	20	85	8	74	18	16	33	31	1.93
241279--241405	20	6.5	19	78	3	101	22	16	29	30	1.96
241279--241405	39	3.2	39	82	1	137	22	16	29	30	1.96
246701--246734	9	3.8	9	84	0	50	20	32	44	2	1.67
246750--246793	9	4.9	9	77	0	52	36	40	22	0	1.54
246720--246764	21	2.1	21	91	0	72	24	31	37	6	1.81
268467--268501	12	2.9	12	91	0	52	0	60	31	8	1.27
314359--314404	18	2.6	18	79	10	58	8	39	36	15	1.78
332076--332131	3	18.7	3	88	0	76	1	35	25	37	1.66
332223--332425	99	2.1	99	89	1	309	15	35	16	32	1.90
354782--354882	9	11.2	9	72	16	57	21	23	34	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354783--354856	18	4.1	18	85	3	87	25	22	29	21	1.99
355154--355217	21	3.0	21	86	0	83	28	37	26	7	1.84
355008--355426	231	1.8	231	88	2	653	23	31	29	15	1.95
355389--355529	36	4.1	36	81	10	159	34	34	24	7	1.82
355413--355507	15	5.9	15	83	13	118	34	33	24	7	1.83
355385--355467	21	4.2	21	72	19	79	27	31	31	9	1.89
355014--355487	231	2.1	227	83	6	578	24	32	28	14	1.94
355586--355622	12	3.2	12	88	3	58	24	18	40	16	1.90
355749--355813	21	3.4	21	76	24	88	32	36	23	7	1.83
355764--355847	15	5.3	15	75	17	71	32	32	27	8	1.86
355740--355829	36	2.5	36	94	0	162	32	34	25	7	1.85
355954--355990	9	4.1	9	92	0	56	16	24	40	18	1.90
355977--356029	18	2.9	18	71	0	52	20	24	33	20	1.97
356517--356563	15	3.1	15	90	0	76	40	38	14	6	1.72
356532--356608	36	2.1	36	92	0	127	29	35	25	9	1.87
356721--356755	15	2.3	15	100	0	70	11	28	40	20	1.87
357439--357570	12	10.5	12	80	9	120	40	43	15	0	1.53
357485--357561	18	4.3	18	66	12	59	37	44	18	0	1.50
361088--361125	20	1.9	20	94	0	67	39	31	7	21	1.82
368807--368880	39	2.0	38	84	7	98	39	24	31	5	1.78
381742--381771	15	2.0	15	100	0	60	33	40	20	6	1.78
393234--393273	21	1.9	21	89	0	62	40	12	25	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470620--470647	13	2.2	13	100	0	56	7	14	42	35	1.73
472349--472398	16	3.1	16	85	0	64	18	10	32	40	1.83
473216--473289	30	2.5	30	95	0	139	18	12	27	41	1.86
481134--481162	14	2.1	14	100	0	58	13	20	13	51	1.75
492687--492783	9	10.8	9	88	0	140	0	37	5	57	1.21
492681--492783	18	5.7	18	94	0	170	0	36	4	58	1.20
492687--492782	27	3.6	27	92	0	165	0	37	4	58	1.18

Tables:   1

The End!