genome.fa.s392.2.7.7.80.10.50.1000.4.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: Scaffold392
Parameters: 2 7 7 80 10 50 1000
Length:  803515

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 687 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)
351393--351439	3	15.7	3	100	0	94	65	0	0	34	0.93
351991--352051	32	1.9	32	89	0	95	47	3	0	49	1.18
352453--352498	23	1.9	25	91	8	78	34	0	0	65	0.93
352447--352534	46	2.0	44	82	8	106	39	0	1	59	1.05
353192--353238	14	3.4	14	80	16	53	57	2	0	40	1.11
353260--353305	25	1.9	24	83	16	60	41	0	2	56	1.11
353216--353310	42	2.3	40	76	18	104	47	0	1	51	1.07
354603--354633	16	1.9	16	100	0	62	25	0	6	67	1.14
354604--354639	16	2.2	16	90	0	54	27	2	8	61	1.39
360278--360314	3	12.3	3	100	0	74	67	0	0	32	0.91
360648--360687	14	2.8	14	88	3	53	47	2	0	50	1.14
360597--360813	114	1.9	111	83	8	278	43	2	0	53	1.19
360747--360791	23	2.0	23	82	8	56	53	0	0	46	1.00
360735--360808	29	2.6	27	76	19	71	41	0	0	58	0.98
360735--360819	30	2.9	28	77	17	77	42	0	0	57	0.98
360836--360875	14	2.6	16	80	15	57	37	0	0	62	0.95
361067--361129	32	2.0	32	84	6	83	41	1	1	55	1.19
361184--361225	14	3.1	14	80	13	52	52	2	0	45	1.13
362801--363038	129	1.8	132	81	6	297	44	11	9	34	1.73
363314--363368	16	3.5	16	80	11	60	63	0	0	36	0.95
363324--363389	23	2.8	23	84	11	73	65	0	0	34	0.93
363314--363403	31	3.0	28	84	11	92	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363640--363678	19	2.0	20	90	5	62	53	2	0	43	1.14
366389--366420	16	2.0	16	93	0	55	46	0	0	53	1.00
368996--369034	17	2.3	17	86	8	53	48	2	0	48	1.15
369374--369440	13	5.3	13	71	8	50	46	1	1	50	1.19
372829--373331	251	2.0	251	99	0	997	28	14	20	36	1.92
374916--374941	3	8.7	3	100	0	52	34	0	0	65	0.93
378942--379004	20	2.9	22	72	18	60	31	3	7	57	1.43
379394--379468	25	3.1	24	72	22	66	58	5	0	36	1.21
379716--379740	3	8.3	3	100	0	50	0	32	0	68	0.90
380869--380912	22	2.0	22	86	8	63	59	0	0	40	0.98
382820--382884	6	10.8	6	75	15	55	52	0	0	47	1.00
382852--383045	16	12.0	16	68	24	81	52	4	1	41	1.31
382866--382914	25	2.0	25	88	8	73	59	6	0	34	1.22
382955--382979	13	1.9	13	100	0	50	56	0	0	44	0.99
386314--386349	11	3.0	12	92	8	56	66	0	0	33	0.92
386804--386849	23	2.0	22	84	16	58	58	0	0	41	0.98
386926--387049	46	2.6	47	79	12	114	46	6	1	45	1.38
387056--387086	16	1.9	16	93	0	53	19	3	0	77	0.90
387705--387785	39	2.0	41	81	9	96	48	0	0	51	1.00
387726--387794	28	2.5	28	88	9	97	43	0	0	56	0.99
387730--387797	27	2.4	28	83	13	95	42	0	0	57	0.98
387890--387923	14	2.4	14	90	5	50	52	2	0	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388343--388386	2	21.5	2	90	4	70	50	2	0	47	1.13
388992--389035	22	2.0	22	81	0	52	45	0	6	47	1.29
389845--389887	14	3.0	15	83	6	54	53	0	0	46	1.00
390656--390712	27	2.1	27	81	12	64	40	0	5	54	1.23
391212--391253	21	2.0	21	90	9	68	59	0	0	40	0.97
391661--391700	21	1.9	21	89	0	62	60	0	0	40	0.97
391659--391701	11	4.0	11	78	6	52	60	0	0	39	0.97
395635--395673	17	2.4	17	86	4	53	53	2	0	43	1.14
397266--397290	12	2.1	12	100	0	50	40	0	16	44	1.47
400833--400883	24	2.1	25	82	10	61	45	1	1	50	1.24
400883--400920	17	2.2	17	86	9	51	28	0	0	71	0.87
400923--400972	14	3.5	13	79	15	55	64	0	0	36	0.94
400924--400968	21	2.1	21	88	8	65	64	0	0	35	0.94
401229--401285	13	4.2	13	76	20	55	33	0	0	66	0.92
401240--401277	17	2.2	17	95	0	67	31	0	0	68	0.90
401219--401285	30	2.3	28	89	7	98	35	0	0	64	0.94
401237--401286	17	3.2	17	72	21	63	36	0	0	64	0.94
401233--401298	30	2.2	30	81	7	82	36	0	1	62	1.05
401240--401327	17	4.9	17	70	15	52	34	3	3	59	1.31
401814--401861	16	3.0	16	78	6	53	29	4	0	66	1.10
403149--403206	20	3.0	21	78	12	61	43	0	0	56	0.99
403163--403206	21	2.0	22	87	12	65	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406114--406242	27	4.8	26	68	15	84	38	0	1	59	1.07
406139--406240	50	2.0	50	83	3	125	38	0	1	59	1.09
406155--406243	26	3.5	26	71	13	85	35	0	3	60	1.13
408478--408647	50	3.4	50	88	3	252	30	21	19	28	1.98
413071--413353	50	5.6	50	91	0	422	28	18	20	32	1.96
414174--414213	2	20.0	2	100	0	80	50	0	0	50	1.00
415450--415489	15	2.7	14	85	11	53	67	2	0	30	1.04
415431--415472	20	2.0	21	86	4	59	64	0	0	35	0.94
416252--416287	17	2.1	18	89	5	56	47	2	0	50	1.15
416263--416312	13	3.9	13	82	12	52	60	0	0	40	0.97
421789--422106	160	2.0	161	91	1	514	32	17	22	26	1.97
422253--422348	14	6.5	14	66	16	52	39	1	4	55	1.26
422312--422384	36	2.1	35	84	7	94	42	2	1	53	1.23
423527--423596	26	2.7	26	73	8	70	42	0	1	55	1.08
430449--430485	2	18.5	2	100	0	74	51	0	48	0	1.00
432995--433019	2	12.5	2	100	0	50	52	0	48	0	1.00
433384--433425	17	2.4	17	84	11	50	45	0	0	54	0.99
434347--434374	2	14.0	2	100	0	56	0	50	0	50	1.00
436091--436142	23	2.3	23	86	6	70	44	0	0	55	0.99
436104--436145	20	2.1	20	86	0	57	47	0	0	52	1.00
436484--436513	15	2.0	15	93	0	51	36	13	26	23	1.92
438580--438622	2	21.5	2	95	0	77	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438736--438768	17	1.9	18	88	11	52	36	3	15	45	1.61
441082--441139	28	2.1	28	93	0	98	43	15	15	25	1.86
445901--446012	43	2.7	43	77	13	110	51	2	0	45	1.15
447608--447656	23	2.1	23	92	0	80	24	20	32	22	1.98
448031--448076	17	2.7	18	87	9	62	34	0	0	65	0.93
448083--448137	16	3.4	17	78	16	71	40	0	0	60	0.97
448092--448146	16	3.4	16	75	9	58	45	0	0	54	0.99
452750--452780	2	15.5	2	100	0	62	48	0	0	51	1.00
454931--454957	2	13.5	2	100	0	54	51	0	0	48	1.00
456821--456868	23	2.1	22	88	3	69	70	0	0	29	0.87
456821--456868	11	4.2	12	87	10	66	70	0	0	29	0.87
456827--456881	19	2.7	21	81	13	71	69	0	0	30	0.89
456823--456881	10	5.7	10	74	21	50	69	0	0	30	0.89
457551--457640	32	2.8	32	71	15	87	43	0	1	55	1.07
458169--458223	22	2.5	22	72	18	53	43	0	0	56	0.99
458895--458940	24	1.9	24	90	0	74	47	19	8	23	1.77
458930--458998	27	2.6	27	88	0	93	49	18	10	21	1.77
464669--464797	52	2.5	52	94	0	231	28	17	17	35	1.93
464806--464830	13	1.9	13	100	0	50	36	16	16	32	1.90
464875--464958	13	5.5	13	71	28	60	35	17	13	33	1.89
464883--464979	19	5.8	18	71	27	88	38	17	11	32	1.85
464875--464977	32	3.2	32	97	0	188	36	18	11	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467151--467217	27	2.4	28	85	2	82	50	14	5	28	1.66
472748--472773	2	13.0	2	100	0	52	50	0	50	0	1.00
472986--473019	2	17.0	2	93	0	59	47	0	2	50	1.16
477834--477866	16	2.0	17	94	5	59	36	0	0	63	0.95
477844--477904	29	2.4	24	75	21	61	32	1	0	65	1.02
477943--478013	30	2.4	30	87	0	97	47	1	5	45	1.35
477967--478044	30	2.6	30	84	11	90	56	0	3	39	1.18
478474--478528	21	3.1	17	72	22	51	38	0	0	61	0.96
478617--478663	17	2.5	20	83	10	55	42	4	0	53	1.20
478920--478945	6	4.3	6	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6