genome.fa.s83.2.7.7.80.10.50.1000.4.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: Scaffold83
Parameters: 2 7 7 80 10 50 1000
Length:  1211110

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 847 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)
524975--525014	14	2.9	14	84	0	53	42	0	5	52	1.23
525957--526004	3	15.7	3	83	12	62	27	0	4	68	1.07
525965--526015	22	2.3	22	93	3	84	27	0	7	64	1.21
531538--531602	2	32.5	2	100	0	130	49	0	0	50	1.00
532197--532238	3	14.0	3	100	0	84	33	0	0	66	0.92
533490--533536	18	2.6	18	83	12	60	34	0	2	63	1.06
536971--537014	14	3.2	13	78	9	52	52	0	0	47	1.00
537321--537363	16	2.6	17	82	10	54	53	2	0	44	1.13
537416--537486	24	3.0	24	84	8	76	63	0	1	35	1.03
537418--537486	35	2.0	35	85	5	95	65	0	1	33	1.02
538304--538367	25	2.7	24	72	18	62	64	1	3	31	1.19
538398--538438	16	2.4	17	88	8	57	0	21	0	78	0.76
538031--539356	496	2.7	480	81	9	1502	50	8	7	34	1.60
538794--538854	30	2.0	30	81	9	70	67	3	1	27	1.16
538876--538928	9	5.8	9	80	4	61	0	16	0	83	0.66
538876--538912	19	1.9	19	94	0	65	0	13	0	86	0.57
539273--539333	10	5.3	11	75	21	54	68	0	0	31	0.89
539280--539376	31	3.4	28	76	16	99	65	0	0	34	0.93
539281--539374	29	3.2	29	71	14	84	64	0	0	35	0.94
539348--539372	6	4.2	6	100	0	50	68	0	0	32	0.90
539279--539376	27	3.4	28	77	15	110	66	0	0	33	0.92
539790--539851	32	1.9	32	83	6	81	56	4	3	35	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545974--546342	53	6.9	53	77	4	350	27	28	14	29	1.95
545974--546342	106	3.5	106	84	2	427	27	28	14	29	1.95
551965--552224	50	5.2	50	87	2	362	28	18	19	33	1.95
556390--556648	50	5.2	50	87	0	365	30	19	19	30	1.96
561720--561772	27	2.0	27	85	3	72	26	16	30	26	1.97
572633--573318	342	2.0	342	99	0	1354	34	17	16	31	1.93
572702--573398	342	2.0	341	88	2	1033	35	18	16	30	1.93
576443--576487	22	2.2	20	84	8	54	48	15	0	35	1.45
582435--582508	20	3.7	20	87	3	105	35	17	13	33	1.89
582558--582584	13	2.1	13	100	0	54	40	14	14	29	1.86
593306--593362	20	2.8	20	81	0	69	50	8	12	28	1.69
593332--593522	102	1.9	102	89	0	301	34	11	19	35	1.88
594013--594209	75	2.6	75	81	4	216	40	14	26	18	1.89
594143--594328	42	4.3	42	83	4	194	40	10	24	23	1.86
594143--594328	85	2.2	85	81	5	214	40	10	24	23	1.86
594317--594514	61	3.3	58	80	10	220	29	17	25	27	1.98
594317--594513	60	3.3	60	82	8	224	29	17	25	27	1.98
595488--595519	7	4.6	7	92	0	55	0	15	0	84	0.63
595493--595542	16	3.1	16	82	5	57	2	10	4	84	0.84
605777--605804	4	7.0	4	100	0	56	75	0	0	25	0.81
607840--608056	79	2.8	78	79	7	172	32	13	26	27	1.94
607880--608056	78	2.3	79	84	4	216	33	13	27	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608021--608086	28	2.4	28	89	0	105	30	18	25	25	1.98
610498--610611	50	2.3	51	84	4	151	42	15	15	25	1.87
617516--617601	27	3.2	26	79	14	95	47	4	3	44	1.40
617515--617601	26	3.3	26	80	12	95	48	4	3	43	1.40
617530--617617	26	3.3	25	74	15	70	48	5	5	39	1.50
618365--618530	84	2.0	83	91	1	269	34	13	19	31	1.91
618795--618835	16	2.6	16	84	0	55	51	0	0	48	1.00
619114--619381	135	2.0	132	83	2	329	39	8	10	41	1.70
621717--621757	15	2.7	16	74	14	50	58	0	0	41	0.98
628776--628853	39	2.0	39	100	0	156	38	33	17	10	1.84
630023--630052	14	2.1	15	93	6	53	33	6	0	60	1.23
631313--631418	38	2.8	38	72	16	112	36	1	16	44	1.59
631389--631442	20	2.6	20	82	11	56	44	0	9	46	1.35
631591--631625	2	17.5	2	100	0	70	51	0	0	48	1.00
634511--634544	16	2.1	16	94	0	59	44	5	8	41	1.60
637816--637913	48	2.0	49	84	4	126	37	2	4	56	1.30
637825--637924	48	2.1	48	82	0	119	36	3	5	56	1.37
638005--638059	24	2.4	23	79	11	60	43	0	3	52	1.18
639768--639821	17	2.9	18	74	15	56	55	1	5	37	1.34
640062--640086	3	8.3	3	100	0	50	36	0	0	64	0.94
640887--640925	19	2.1	19	85	0	51	43	10	7	38	1.67
643112--643172	20	3.3	19	76	17	65	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644754--644791	15	2.5	15	87	8	51	31	5	2	60	1.33
645016--645069	25	2.3	21	77	22	54	48	1	1	48	1.23
646108--646194	39	2.2	39	100	0	174	35	2	6	55	1.40
646113--646177	22	3.2	22	66	20	68	38	3	9	49	1.51
649773--649800	7	4.0	7	100	0	56	14	42	14	28	1.84
651290--651331	2	21.0	2	95	0	75	52	0	0	47	1.00
651945--651985	2	20.5	2	100	0	82	48	0	0	51	1.00
653458--653617	80	2.0	80	98	0	311	32	11	18	36	1.88
653654--653700	20	2.3	20	85	3	58	40	14	17	27	1.89
653670--653767	20	4.8	20	85	1	124	35	9	19	35	1.84
655512--655587	28	2.7	28	87	0	116	25	27	18	28	1.98
655540--656028	79	6.2	77	82	4	496	26	23	12	37	1.91
655542--656028	158	3.1	158	82	2	584	26	23	12	37	1.90
658967--659032	28	2.2	31	78	10	75	40	4	3	51	1.38
661963--662058	47	2.0	47	95	0	174	33	19	10	36	1.86
663432--663474	20	2.1	21	91	4	70	9	32	41	16	1.80
663915--663952	13	2.9	13	96	0	67	31	15	18	34	1.92
666032--666062	15	2.1	15	93	0	53	12	22	16	48	1.80
667860--667909	21	2.3	21	79	3	55	24	14	4	58	1.53
670119--670144	13	2.0	13	100	0	52	30	15	15	38	1.88
670099--670162	32	2.0	33	90	3	103	28	14	15	42	1.86
672224--672291	33	2.1	32	86	2	91	33	13	17	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672247--672271	13	1.9	13	100	0	50	36	16	16	32	1.90
672323--672375	20	2.6	21	84	3	72	28	16	15	39	1.89
672363--672387	13	1.9	13	100	0	50	36	16	16	32	1.90
681079--681151	20	3.6	20	75	7	58	28	16	15	39	1.89
683327--683365	19	1.9	19	85	10	51	17	15	2	64	1.41
685100--685580	248	2.0	244	83	4	619	35	17	19	27	1.94
686077--686109	13	2.5	13	95	0	57	33	15	15	36	1.88
686057--686123	33	2.0	33	91	5	109	32	16	13	37	1.88
686152--686208	19	2.9	19	89	5	78	35	17	15	31	1.92
686174--686238	32	2.0	32	84	3	85	40	15	15	29	1.88
686762--686825	17	3.5	17	75	19	65	26	37	0	35	1.57
688623--688651	13	2.2	13	100	0	58	41	17	13	27	1.87
693368--693649	49	5.8	48	79	9	234	29	17	26	26	1.98
693322--693649	93	3.5	92	78	11	328	29	17	26	26	1.98
693671--693778	28	3.8	28	77	7	103	20	17	31	30	1.96
693712--693798	27	3.1	27	82	11	104	26	17	32	24	1.97
693671--693798	56	2.3	56	81	5	134	22	15	32	29	1.95
693766--694007	70	3.5	69	85	5	301	38	11	29	20	1.88
693766--694002	34	6.8	36	73	11	165	38	11	29	20	1.88
693977--694064	29	3.1	27	72	15	63	22	15	32	28	1.95
699736--699791	21	2.6	22	94	5	96	28	25	8	37	1.86
699864--699888	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700360--700426	37	1.9	35	88	11	102	32	11	25	29	1.92
701517--701546	3	10.0	3	92	0	51	36	0	33	30	1.58
708481--708542	33	1.9	33	86	3	90	30	14	16	38	1.88
709306--709331	13	2.0	13	100	0	52	30	15	15	38	1.88
709286--709349	32	2.0	33	84	3	85	29	14	15	40	1.86
716437--716470	12	2.8	12	90	0	50	23	35	0	41	1.55
729450--729491	10	4.1	10	82	17	59	88	7	2	2	0.69
729464--729493	1	30.0	1	93	0	51	96	3	0	0	0.21
729452--729493	19	2.2	19	91	0	66	90	4	2	2	0.60
730442--730525	30	2.8	30	83	1	96	25	25	17	32	1.97

Tables:   1   2   3   4   5   6   7   8