genome.fa.s85.2.7.7.80.10.50.1000.3.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: Scaffold85
Parameters: 2 7 7 80 10 50 1000
Length:  1350895

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 625 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)
468103--468155	20	2.6	20	84	3	70	33	16	11	37	1.85
468723--468957	68	3.5	68	76	9	214	19	22	27	31	1.98
468895--469200	37	8.6	37	73	10	217	21	22	25	30	1.99
469032--469171	68	2.1	68	83	2	174	22	20	25	32	1.97
468895--469200	142	2.2	139	80	10	318	21	22	25	30	1.99
469180--469280	31	3.3	31	69	5	87	13	23	32	29	1.94
468880--469239	105	3.4	105	82	0	425	21	22	25	31	1.98
469325--469418	34	2.8	34	83	0	116	39	13	21	25	1.90
469480--469582	43	2.4	43	83	0	125	43	10	27	18	1.83
469542--469617	35	2.2	35	82	0	89	36	11	28	22	1.90
475136--475163	14	2.0	14	100	0	56	42	21	14	21	1.88
477301--477348	24	2.0	25	87	4	71	58	8	27	6	1.51
478779--478810	12	2.4	14	85	15	50	71	0	0	28	0.86
478774--478805	16	1.9	17	93	6	57	75	0	0	25	0.81
481725--481749	13	1.9	13	100	0	50	36	16	16	32	1.90
481705--481774	33	2.1	33	89	0	104	34	11	14	40	1.82
481815--481839	13	1.9	13	100	0	50	32	16	16	36	1.90
481848--481972	52	2.4	52	94	0	214	37	17	16	28	1.92
490376--490424	20	2.5	20	86	0	62	22	16	12	48	1.79
490921--491090	89	1.9	89	88	0	259	28	27	15	28	1.96
490937--491127	89	2.1	89	82	3	224	27	27	15	29	1.96
491708--492608	43	21.2	42	73	4	335	21	25	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491748--492619	85	10.3	85	74	6	374	21	25	18	34	1.96
491710--492619	255	3.6	256	72	6	725	21	25	18	34	1.96
491708--492619	170	5.4	168	75	6	719	21	25	18	34	1.96
491708--492662	128	7.5	128	75	4	459	21	25	18	34	1.96
492348--492704	170	2.1	171	78	6	375	21	25	17	35	1.95
492798--493060	43	6.1	42	80	9	257	19	30	14	35	1.92
492798--493060	86	3.1	86	87	3	379	19	30	14	35	1.92
493179--493312	42	3.2	42	71	8	119	20	29	14	35	1.93
493172--493341	85	2.0	85	79	6	184	20	29	14	35	1.93
493568--493877	84	3.7	83	81	4	356	22	28	14	34	1.93
493568--493878	167	1.9	168	85	4	432	22	28	14	35	1.93
494868--494995	51	2.4	50	81	10	139	34	23	11	30	1.91
495010--495182	52	3.3	52	79	8	199	28	26	11	32	1.91
495173--495239	28	2.4	27	85	7	82	23	37	17	20	1.94
508846--509364	102	4.7	116	79	12	472	27	28	21	23	1.99
508841--509364	55	9.4	55	82	10	507	27	27	20	24	1.99
509192--509286	47	2.0	47	93	4	165	32	29	20	17	1.96
510163--510230	19	3.9	19	78	21	85	35	11	14	38	1.83
510184--510208	13	1.9	13	100	0	50	36	16	16	32	1.90
510165--510227	32	2.0	32	96	0	117	34	12	15	36	1.86
510250--510316	33	2.0	33	85	0	89	25	13	17	43	1.86
512663--512790	51	2.4	50	81	10	139	34	23	11	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512805--512975	52	3.3	52	82	6	220	30	25	11	32	1.91
512670--512923	136	1.9	131	80	9	298	30	24	12	32	1.92
512988--513191	79	2.6	79	82	2	241	24	30	16	27	1.97
518359--518403	10	4.8	10	76	15	51	17	2	0	80	0.82
518365--518405	18	2.4	18	88	8	59	17	2	0	80	0.82
518360--518405	18	2.7	16	86	10	56	17	2	0	80	0.81
518619--518672	22	2.5	21	79	8	63	12	3	5	77	1.07
519708--519769	14	4.6	14	82	11	76	33	0	0	66	0.92
520278--520354	36	2.1	36	87	0	109	40	19	23	16	1.91
520747--520793	24	2.0	24	83	8	60	53	6	29	10	1.60
524806--524952	44	3.4	43	72	16	135	25	21	10	42	1.84
524793--525129	178	1.9	173	82	5	417	26	20	11	41	1.86
524792--525156	89	4.1	88	79	6	337	26	20	12	41	1.87
525714--525785	13	5.3	13	75	18	67	80	2	8	8	0.99
525713--525762	14	3.6	14	77	20	59	80	4	6	10	1.02
525724--525772	22	2.3	22	89	3	73	81	4	6	8	0.97
525731--525796	26	2.6	24	83	9	69	80	4	9	6	1.02
525811--525835	11	2.3	11	100	0	50	68	0	16	16	1.22
526804--526839	14	2.7	13	87	8	54	33	25	5	36	1.79
527506--527782	32	8.7	32	71	9	135	30	27	16	25	1.97
527505--527782	127	2.2	125	81	11	300	30	27	16	25	1.97
527845--527980	52	2.7	49	77	6	128	23	25	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527930--528150	61	3.8	60	74	11	181	22	23	16	37	1.94
528691--528741	20	2.5	21	90	3	77	37	11	17	33	1.86
528800--528935	52	2.6	52	83	1	166	32	13	11	42	1.80
530757--530805	18	2.7	18	100	0	98	77	6	10	6	1.11
531562--531643	9	9.8	9	71	19	70	41	0	45	13	1.43
531562--531648	24	3.9	24	70	20	71	42	0	43	13	1.44
531553--531671	42	2.8	42	90	0	184	42	0	45	11	1.40
531628--531677	18	2.8	18	81	6	57	44	0	46	10	1.37
537930--538083	70	2.2	69	77	5	157	31	24	7	37	1.84
542845--543428	294	2.0	294	98	0	1123	34	19	21	25	1.96
543732--543769	19	2.0	19	100	0	76	36	21	21	21	1.95
544793--544924	65	2.0	65	92	2	221	41	20	11	26	1.86
551132--551162	15	2.1	15	100	0	62	29	25	19	25	1.99
551883--552057	28	6.2	28	78	5	190	29	32	17	20	1.96
551879--552049	56	3.0	56	84	6	218	30	32	15	20	1.94
551888--552057	86	2.0	86	84	2	225	30	32	17	20	1.95
552053--552146	31	2.9	33	82	7	131	32	29	12	24	1.92
552211--552563	103	3.4	102	77	3	330	23	24	15	35	1.94
552156--552576	155	2.7	156	81	4	478	23	25	14	36	1.93
552192--552573	52	7.4	52	80	3	378	23	25	14	35	1.93
554933--555090	70	2.3	70	82	4	176	29	21	10	37	1.87
556434--556505	21	3.5	21	86	7	85	37	9	19	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556434--556487	20	2.7	20	91	8	83	38	11	18	31	1.86
556544--556680	52	2.8	49	85	6	161	32	13	10	42	1.80
556646--556699	20	2.7	20	91	0	90	35	14	9	40	1.78
560171--560490	92	3.6	88	78	4	293	30	24	15	30	1.95
560189--560524	92	3.7	92	75	8	253	30	26	13	30	1.94
560657--560740	30	2.9	29	71	13	73	25	19	10	45	1.82
560850--561277	44	9.7	43	71	14	200	21	23	17	37	1.93
560902--561330	132	3.3	131	81	5	361	21	23	16	37	1.94
560785--561325	88	6.2	86	73	12	228	21	23	16	37	1.93
561130--561411	44	6.4	44	75	8	216	21	25	15	36	1.93
560990--561360	132	2.8	132	84	3	372	22	24	16	37	1.94
560988--561411	132	3.2	132	82	3	345	22	24	16	37	1.93
561130--561446	88	3.6	85	73	10	262	21	25	15	37	1.93
561130--561530	44	9.1	42	72	10	169	21	23	16	37	1.93
562927--563334	165	2.5	160	80	5	419	33	11	7	47	1.68
564591--565438	154	5.4	155	73	11	570	26	16	18	38	1.92
567651--567705	20	2.8	20	88	5	76	32	14	12	40	1.84
575331--575356	13	2.0	13	100	0	52	30	15	15	38	1.88
576004--576336	108	3.1	108	97	0	632	36	23	5	35	1.77
576129--576318	59	3.4	59	68	14	184	34	23	5	36	1.78
577499--577541	20	2.1	20	82	4	50	11	30	41	16	1.83
577984--578008	13	1.9	13	100	0	50	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578703--578728	13	2.0	13	100	0	52	38	15	15	30	1.88
583595--583628	12	2.8	12	90	0	50	23	35	0	41	1.55
585242--585267	13	2.0	13	100	0	52	30	15	15	38	1.88
587808--587853	14	3.4	13	85	11	65	82	17	0	0	0.67
587808--587853	17	3.1	15	87	12	60	82	17	0	0	0.67
587808--587853	15	3.1	15	84	9	60	82	17	0	0	0.67
589125--589205	30	2.6	31	88	7	119	20	28	16	34	1.94
590330--590443	51	2.2	51	84	0	147	32	10	27	29	1.90
590435--590502	28	2.4	27	85	9	84	32	17	25	25	1.97
590463--590711	79	3.2	78	84	7	299	31	13	26	29	1.94

Tables:   1   2   3   4   5   6