genome.fa.s305.2.7.7.80.10.50.1000.4.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: Scaffold305
Parameters: 2 7 7 80 10 50 1000
Length:  704983

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 600 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)
465413--465498	19	4.7	19	73	19	85	33	12	15	38	1.85
465455--465479	13	1.9	13	100	0	50	36	16	16	32	1.90
465434--465506	32	2.3	32	100	0	146	34	12	16	36	1.86
465523--465564	21	2.0	21	100	0	84	42	9	19	28	1.82
467922--468280	51	6.9	52	69	16	181	30	27	11	31	1.91
468087--468272	51	3.6	51	83	1	185	29	26	11	32	1.91
468089--468272	102	1.8	102	83	2	244	29	26	10	33	1.90
468571--468643	20	3.6	20	79	17	96	34	13	19	32	1.91
468589--468664	21	3.7	21	76	16	86	40	11	17	30	1.85
468571--468664	41	2.3	41	96	0	170	38	12	18	30	1.88
468703--468728	13	2.0	13	100	0	52	38	15	15	30	1.88
470939--470983	21	2.1	21	84	8	56	53	4	20	22	1.63
474823--474900	20	3.6	21	74	15	70	26	14	15	43	1.85
477351--477423	20	3.6	20	79	17	96	34	13	19	32	1.91
477369--477444	21	3.7	21	76	16	86	40	11	17	30	1.85
477351--477444	41	2.3	41	96	0	170	38	12	18	30	1.88
477483--477508	13	2.0	13	100	0	52	38	15	15	30	1.88
484934--485008	1	75.0	1	74	0	51	85	9	4	1	0.78
484935--485031	26	3.8	26	73	8	83	82	10	6	1	0.88
484964--485040	14	5.4	14	71	24	54	79	15	3	1	0.95
484933--485040	9	11.9	9	72	15	64	81	12	5	0	0.90
486464--486671	28	7.4	28	86	4	276	36	29	15	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486698--487290	49	12.7	48	73	13	411	26	26	17	29	1.98
486796--487093	87	3.4	87	93	0	499	25	26	20	27	1.99
487012--487089	39	2.0	39	87	0	111	29	29	20	20	1.98
487052--487250	101	2.0	101	95	0	362	27	26	14	31	1.95
487051--487392	101	3.4	100	81	5	359	26	25	15	32	1.96
488154--488179	13	2.0	13	100	0	52	38	15	15	30	1.88
493729--493753	13	1.9	13	100	0	50	32	16	16	36	1.90
493830--493869	10	4.3	10	78	18	50	17	30	10	42	1.82
493835--493867	17	1.9	17	93	0	57	12	30	12	45	1.78
497511--497535	13	1.9	13	100	0	50	36	16	16	32	1.90
497578--497630	20	2.7	20	85	2	81	39	15	11	33	1.83
500941--500997	18	3.2	17	74	13	53	66	0	1	31	1.02
503938--503994	21	2.7	21	86	2	78	24	24	0	50	1.49
508042--508089	20	2.3	20	85	3	69	27	16	10	45	1.80
512836--512900	21	3.1	21	88	0	94	18	23	3	55	1.56
512844--512908	21	3.1	20	82	8	76	18	23	1	56	1.49
513338--513366	3	9.7	3	100	0	58	31	0	0	68	0.89
515245--515302	20	3.0	20	78	11	59	31	0	1	67	1.01
516723--516757	17	1.9	19	88	11	56	54	5	2	37	1.39
516784--516832	25	2.0	25	100	0	98	38	12	4	44	1.61
517369--517464	28	3.4	30	74	17	89	40	4	1	54	1.27
517528--517580	25	2.1	26	89	10	83	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517523--517639	28	4.0	29	73	23	102	42	0	0	56	1.05
517544--517630	35	2.4	38	75	15	101	41	0	1	57	1.06
517597--517654	28	2.1	28	93	0	98	46	1	0	51	1.11
517532--517842	62	4.9	62	73	15	208	42	1	0	54	1.16
517547--517837	101	2.9	97	84	9	374	42	2	0	54	1.17
517693--517751	26	2.2	26	85	11	84	40	1	0	57	1.09
519644--519687	22	2.0	22	90	0	70	52	6	2	38	1.41
520181--520215	15	2.2	16	90	10	54	60	0	5	34	1.21
520570--520667	42	2.2	46	81	13	109	57	1	1	40	1.12
520853--520907	16	3.5	15	80	9	65	58	3	1	36	1.26
520845--520912	32	2.2	31	84	12	86	61	2	2	32	1.26
523506--523539	3	11.3	3	100	0	68	64	0	0	35	0.94
523636--523673	3	12.7	3	100	0	76	65	0	0	34	0.93
523506--523774	134	2.0	134	95	0	484	46	12	10	31	1.74
525870--525915	23	2.0	23	100	0	92	39	13	26	21	1.90
527004--527036	15	2.2	15	94	0	57	42	0	21	36	1.53
527554--527748	85	2.3	85	80	7	198	45	5	15	33	1.68
528338--528481	78	1.8	78	86	2	209	40	16	11	31	1.84
528443--528528	38	2.2	39	85	4	120	40	15	15	29	1.87
528437--528589	39	3.9	39	66	11	107	39	14	15	30	1.87
528695--528828	58	2.3	58	85	2	180	47	13	11	27	1.78
528825--529015	57	3.3	57	81	5	172	41	14	14	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528882--529050	57	3.0	56	79	6	144	42	14	15	27	1.87
529700--529748	11	4.4	11	82	5	53	2	22	0	75	0.90
529707--529749	12	3.8	12	84	9	54	2	18	0	79	0.85
529707--529777	27	2.7	25	78	16	72	2	15	1	80	0.90
529723--529780	19	3.1	18	83	11	73	3	13	1	81	0.91
530863--531185	159	2.0	159	90	3	515	32	15	15	35	1.90
531791--531847	15	3.8	14	81	11	60	3	24	0	71	1.01
531802--531859	19	3.3	19	75	18	63	3	25	0	70	1.03
531796--531853	15	3.6	15	74	21	55	1	22	0	75	0.89
535185--535218	6	6.0	6	86	13	54	0	14	0	85	0.60
535186--535219	16	2.1	16	94	5	59	0	11	0	88	0.52
535706--535813	28	3.9	28	81	1	101	47	3	6	42	1.47
535747--535852	14	7.4	14	74	14	74	50	2	4	42	1.38
535729--535852	15	8.6	14	73	15	85	48	4	4	42	1.43
536505--536535	15	2.1	15	100	0	62	32	6	0	61	1.21
539090--539114	11	2.3	11	100	0	50	0	8	0	92	0.40
541568--541614	14	3.6	14	75	21	57	25	17	12	44	1.84
541564--541628	24	2.7	24	90	0	94	24	16	12	46	1.82
543764--543812	20	2.4	21	86	3	64	55	2	20	22	1.54
543756--543812	21	2.8	20	81	5	69	56	1	21	21	1.52
544313--544562	38	6.6	38	86	0	261	32	28	9	29	1.88
544313--544562	114	2.2	114	82	2	297	32	28	9	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544775--544879	38	2.8	38	80	0	111	33	25	10	30	1.90
544466--545085	311	2.0	311	95	0	1107	30	23	15	30	1.95
547567--547762	38	5.2	38	90	2	259	27	10	30	31	1.90
547980--548009	15	2.0	15	100	0	60	13	6	26	53	1.64
549259--549499	122	2.0	121	84	8	321	42	5	12	39	1.67
552378--552431	9	6.0	9	80	8	65	85	11	0	3	0.73
552399--552430	16	1.9	16	93	6	55	87	9	0	3	0.64
552380--552436	27	2.1	28	90	9	91	82	12	0	5	0.82
556347--556372	13	2.0	13	100	0	52	38	15	15	30	1.88
556424--556485	19	3.6	19	72	28	75	35	17	12	33	1.88
556411--556485	31	2.4	32	95	2	134	34	17	14	33	1.90
557281--557445	49	3.3	49	79	5	141	36	16	23	23	1.94
557463--558251	49	16.8	49	75	13	667	30	18	25	25	1.98
557323--557553	122	1.9	122	91	0	381	35	17	24	22	1.95
557759--557999	39	5.7	39	70	18	167	27	19	26	26	1.99
557710--558250	88	6.0	88	91	1	769	29	18	25	25	1.98
558061--558251	52	3.9	52	81	12	258	31	17	26	24	1.97
558113--558256	43	3.1	43	77	17	153	31	17	27	23	1.97
558251--558317	33	2.0	33	91	0	107	22	17	31	28	1.97
558428--558548	33	3.6	34	88	5	167	33	13	32	20	1.91
558528--558587	27	2.2	27	84	0	84	35	15	28	21	1.93
558733--559334	32	18.9	32	81	9	635	34	14	28	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558733--559334	95	6.3	95	84	6	660	34	14	28	21	1.93
558736--559345	127	4.8	124	84	6	701	34	14	28	21	1.93
572106--572176	1	71.0	1	82	0	79	90	8	1	0	0.52
572105--572176	31	2.4	29	86	8	108	88	8	2	0	0.59
572108--572176	36	1.9	35	91	8	113	89	8	1	0	0.53
572108--572175	11	5.9	11	86	10	100	89	8	1	0	0.54
577903--577987	19	4.7	19	72	19	74	32	16	15	35	1.90
577890--577965	32	2.4	32	90	0	125	32	17	15	34	1.91
578724--579490	28	26.6	28	85	5	922	29	30	17	22	1.97
578724--579493	200	3.8	197	85	5	981	29	30	17	22	1.97

Tables:   1   2   3   4   5