genome.fa.s323.2.7.7.80.10.50.1000.4.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: Scaffold323
Parameters: 2 7 7 80 10 50 1000
Length:  1512004

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1052 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)
479170--479207	20	2.0	20	89	5	60	78	0	21	0	0.74
482597--482672	38	2.0	38	84	5	100	38	13	14	34	1.85
483050--483099	19	2.6	19	93	0	82	34	12	16	38	1.85
483124--483164	21	2.0	21	100	0	82	43	9	19	26	1.82
485525--485757	51	4.6	51	80	6	256	29	24	12	33	1.92
485529--485761	102	2.3	101	84	5	308	28	25	12	33	1.93
485693--485863	76	2.2	76	83	4	209	25	28	15	29	1.96
485820--485893	28	2.6	28	86	0	112	20	28	22	28	1.99
485713--486128	188	2.2	185	81	5	475	26	24	14	33	1.94
485848--486029	79	2.3	81	82	3	217	26	24	15	33	1.95
485848--486048	81	2.5	79	80	4	208	26	23	16	33	1.96
486065--486230	51	3.3	51	84	6	212	31	25	9	33	1.88
488314--488380	33	2.0	32	86	11	91	37	13	11	37	1.82
488342--488379	20	1.9	20	88	0	58	39	15	10	34	1.82
494668--494716	20	2.4	22	80	13	59	51	6	6	36	1.52
495584--495700	38	3.1	38	77	4	137	31	12	17	37	1.88
495698--495828	38	3.5	37	80	5	120	27	13	17	41	1.87
500192--500540	177	2.0	177	91	0	563	36	17	14	30	1.91
506034--506088	20	2.8	20	91	0	83	40	10	14	34	1.81
512145--512246	38	2.7	38	74	18	104	43	15	11	29	1.82
513734--513802	32	2.2	32	89	0	102	36	8	18	36	1.82
522834--522861	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524516--524699	49	3.7	49	77	9	176	33	19	25	22	1.97
524516--525183	48	14.5	47	69	16	361	30	19	24	25	1.98
524656--525004	87	4.0	87	92	2	542	29	20	24	25	1.99
524831--525183	135	2.6	135	86	4	496	30	18	24	26	1.98
524966--525135	87	2.0	87	90	2	270	29	18	25	25	1.98
525061--525183	50	2.5	49	86	5	160	30	16	25	27	1.96
525237--525539	28	10.7	28	80	7	308	21	17	29	31	1.97
525257--525534	57	4.9	57	84	6	298	21	18	29	30	1.97
525257--525534	86	3.3	86	88	5	388	21	18	29	30	1.97
526976--527148	1	173.0	1	66	0	85	1	8	6	83	0.88
526979--527145	8	20.9	8	74	15	96	1	8	7	82	0.90
526976--527145	47	3.6	47	80	13	195	1	8	7	82	0.89
526967--527125	39	4.1	37	79	15	155	1	6	8	83	0.88
526967--527146	48	3.7	45	79	16	152	1	7	7	82	0.90
526995--527145	78	1.9	78	83	10	193	1	8	7	82	0.91
539084--539108	13	1.9	13	100	0	50	36	16	16	32	1.90
544503--544573	32	2.2	32	92	0	124	35	19	12	32	1.90
544511--544573	19	3.6	19	70	24	66	34	19	12	33	1.89
551524--551563	19	2.1	19	100	0	80	27	5	42	25	1.75
552056--552112	22	2.8	20	87	10	87	38	10	15	35	1.82
554140--554174	15	2.3	15	95	0	61	42	0	28	28	1.56
558370--558706	79	4.3	80	81	7	393	34	13	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561117--561168	20	2.6	20	87	0	77	46	11	15	26	1.80
561067--561203	70	1.9	71	88	4	206	42	14	16	26	1.87
561619--561679	3	20.7	3	96	3	115	32	0	0	67	0.91
561926--562025	41	2.4	41	88	5	139	36	17	26	21	1.94
562009--562623	61	10.2	60	84	3	716	26	17	27	27	1.98
563578--563647	17	4.2	16	76	16	72	1	10	4	84	0.82
563588--563649	10	5.8	11	77	17	60	1	8	6	83	0.86
568409--568435	13	2.1	13	100	0	54	29	14	14	40	1.86
568420--568476	19	2.9	19	87	5	87	35	15	14	35	1.88
568390--568454	32	2.0	33	87	3	96	29	13	15	41	1.86
568421--568474	20	2.8	19	91	2	81	35	14	12	37	1.85
572478--572579	38	2.7	38	92	3	172	43	5	4	46	1.49
572511--572582	22	3.5	22	66	21	66	44	5	5	44	1.50
572894--572955	32	1.9	33	83	9	83	30	14	12	41	1.83
582254--582297	21	2.1	21	82	0	52	15	2	11	70	1.26
583025--583058	18	2.0	18	88	11	54	47	5	0	47	1.26
583208--583252	2	23.0	2	95	4	83	51	0	0	48	1.00
584043--584074	17	1.9	17	93	6	57	37	6	15	40	1.73
586115--586295	92	2.0	92	80	2	202	34	7	12	45	1.69
587221--587260	21	2.0	21	85	14	57	50	7	15	27	1.70
587502--587577	19	3.9	19	89	1	89	30	17	14	38	1.89
593802--593841	13	3.1	13	85	0	62	32	12	15	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595658--595733	30	2.4	33	86	8	104	40	2	26	30	1.69
596270--596296	13	2.1	13	100	0	54	29	14	14	40	1.86
596280--596332	19	2.7	19	85	2	70	35	16	11	35	1.85
605059--605345	155	1.9	155	85	2	389	29	15	15	39	1.88
609674--610126	162	2.8	162	90	0	712	40	12	12	34	1.81
611030--611090	31	2.0	31	81	12	72	9	18	0	72	1.11
611061--611101	12	3.4	12	90	9	66	2	21	0	75	0.92
611038--611099	22	2.7	22	85	9	72	8	19	0	72	1.09
612853--612935	40	2.0	40	88	2	121	37	8	20	33	1.83
612867--612964	40	2.5	38	82	6	115	35	10	18	35	1.85
613773--613940	59	2.8	59	80	9	173	32	13	22	31	1.92
613773--613940	30	5.7	29	81	8	153	32	13	22	31	1.92
614235--614335	42	2.4	42	81	3	105	41	12	18	26	1.87
615953--615980	13	2.2	13	100	0	56	46	0	25	28	1.53
617978--618002	13	1.9	13	100	0	50	36	16	16	32	1.90
620549--620587	13	3.0	13	92	0	60	33	17	17	30	1.94
624554--624587	16	2.1	17	88	5	52	17	8	0	73	1.08
633513--634203	149	4.6	152	80	6	692	36	17	19	27	1.93
635852--635888	19	2.0	20	84	10	51	40	10	2	45	1.53
647232--647263	12	2.7	12	95	0	55	31	28	9	31	1.88
653335--653370	18	2.0	18	88	0	54	25	30	5	38	1.78
654931--654995	32	2.0	33	87	3	96	41	16	13	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658358--658917	28	19.5	28	81	5	450	22	16	30	30	1.96
658358--658917	56	9.8	57	82	6	546	22	16	30	30	1.96
658367--658914	84	6.4	85	80	6	552	22	16	29	30	1.96
659965--659995	13	2.4	13	94	0	53	35	16	12	35	1.87
667964--667998	17	2.1	17	89	5	54	34	0	34	31	1.58
668437--668579	39	3.4	39	76	15	151	27	25	20	26	1.99
668437--668735	101	3.2	88	84	9	366	25	25	18	30	1.98
668548--668878	52	6.6	50	77	7	298	23	25	17	33	1.96
668548--668833	101	2.8	101	90	1	421	23	26	17	33	1.96
672815--672841	13	2.1	13	100	0	54	29	14	14	40	1.86
672825--672880	19	2.9	19	81	2	67	33	14	16	35	1.88
674281--674345	13	5.2	13	82	12	75	1	0	12	86	0.65
674281--674343	20	3.3	20	84	6	78	1	0	12	85	0.66
678597--678650	19	2.8	19	94	0	90	33	12	16	37	1.87
689642--689718	20	3.8	20	77	6	84	42	12	12	31	1.81
691434--691497	33	2.0	32	87	3	92	26	12	20	40	1.88
691539--691590	20	2.5	21	78	3	61	32	21	11	34	1.89
691579--691603	13	1.9	13	100	0	50	32	16	20	32	1.94
691683--691734	20	2.6	20	96	0	95	40	17	11	30	1.85
694088--694125	13	2.9	13	96	0	67	34	21	13	31	1.91
700271--700296	13	2.0	13	100	0	52	38	15	15	30	1.88
700355--700407	20	2.6	21	84	3	72	33	16	13	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705354--705386	7	4.6	7	92	7	57	84	0	0	15	0.61
705424--706261	166	5.1	160	73	10	491	50	7	10	30	1.65
710784--710840	19	3.0	19	82	7	71	36	24	0	38	1.56
710815--710928	57	2.0	57	94	0	201	28	24	1	44	1.64
712223--712270	20	2.4	20	96	0	87	10	16	39	33	1.83
718965--719014	19	2.6	19	81	9	57	40	18	14	28	1.89
720034--720183	67	2.3	65	77	10	160	35	18	11	34	1.87
720792--720834	20	2.2	20	87	4	61	39	16	11	32	1.84
720913--720937	13	1.9	13	100	0	50	36	16	16	32	1.90
720892--720956	33	2.0	32	87	3	94	30	16	16	35	1.92

Tables:   1   2   3   4   5   6   7   8   9