genome.fa.s273.2.7.7.80.10.50.1000.4.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: Scaffold273
Parameters: 2 7 7 80 10 50 1000
Length:  1282806

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 977 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)
475429--475459	16	1.9	16	93	0	53	41	29	6	22	1.78
476696--476844	74	2.0	74	96	0	271	26	16	13	42	1.85
478322--478368	20	2.4	21	83	13	57	38	2	0	59	1.09
478400--478470	37	1.9	37	82	5	90	32	4	0	63	1.14
478439--478471	13	2.4	14	90	5	50	33	0	0	66	0.92
478787--478838	27	2.0	27	85	7	72	50	0	0	50	1.00
478959--478990	9	3.7	9	91	8	57	68	0	0	31	0.90
479080--479138	26	2.3	26	79	5	66	71	8	1	18	1.20
479120--479152	16	2.1	16	88	11	50	78	0	0	21	0.75
480606--480638	13	2.4	14	90	10	59	12	6	6	75	1.16
480641--480702	23	2.5	25	84	10	74	16	1	8	74	1.13
484102--484375	89	3.1	89	80	5	313	32	14	14	39	1.86
487599--487724	52	2.4	52	91	0	216	28	19	17	34	1.94
487810--487874	19	3.7	19	71	23	70	40	16	10	32	1.84
487804--487872	32	2.2	32	94	0	120	39	17	10	33	1.83
488731--489535	43	17.1	52	75	14	592	32	17	23	26	1.96
488793--489535	92	8.0	92	94	0	1261	32	17	23	26	1.97
489533--489824	57	5.0	56	85	7	334	20	17	32	29	1.95
489533--489824	30	10.0	29	80	9	326	20	17	32	29	1.95
489533--489824	87	3.3	86	83	8	358	20	17	32	29	1.95
489804--489924	31	3.9	31	80	8	120	26	17	29	26	1.97
498177--498302	52	2.4	52	94	0	225	26	18	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498380--498482	32	3.2	32	87	0	161	38	17	9	33	1.83
498958--498995	15	2.5	15	88	12	60	7	21	26	44	1.79
501038--501082	21	2.1	21	87	0	63	57	2	2	37	1.23
501151--501200	22	2.3	21	86	10	73	80	12	2	6	0.98
501239--501272	13	2.8	12	86	8	50	55	0	0	44	0.99
502020--502050	16	1.9	16	93	0	53	58	3	6	32	1.40
505861--505896	12	2.9	12	91	4	54	58	2	2	36	1.27
506402--506453	25	2.0	27	85	7	72	57	0	1	40	1.10
506431--506485	26	2.1	26	83	6	67	36	3	7	52	1.47
507783--507816	2	17.0	2	93	0	59	47	0	0	52	1.00
508285--508326	11	3.9	11	81	12	52	66	0	0	33	0.92
508298--508337	19	2.0	20	90	4	64	60	0	0	40	0.97
510077--510110	13	2.4	14	90	9	52	5	14	0	79	0.91
512225--512269	20	2.3	19	84	3	63	64	0	2	33	1.06
512233--512281	18	2.6	19	87	6	64	63	2	2	32	1.17
512234--512282	19	2.5	20	81	15	59	61	2	2	34	1.19
512284--512325	18	2.4	17	81	14	50	59	2	0	38	1.10
516444--516482	21	1.9	21	89	5	62	43	12	20	23	1.86
518063--518098	16	2.2	16	90	0	54	36	8	38	16	1.79
519959--520006	22	2.2	22	100	0	96	31	25	12	31	1.92
524259--524319	31	2.0	31	83	0	77	47	0	1	50	1.10
524936--525014	16	5.0	16	81	6	90	55	0	1	43	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524911--525017	32	3.5	31	76	10	96	55	0	0	43	1.06
524911--525014	33	3.0	35	75	13	90	55	0	0	43	1.06
524916--524977	22	3.1	20	75	17	58	56	0	1	41	1.09
524897--525052	52	3.0	52	79	15	130	53	1	1	43	1.20
525451--525506	25	2.2	26	81	12	62	48	1	1	48	1.22
527315--527358	20	2.3	19	80	4	52	45	2	2	50	1.27
528701--528727	14	1.9	14	100	0	54	25	7	14	51	1.68
530877--530912	2	18.0	2	100	0	72	50	0	50	0	1.00
531953--531981	2	14.5	2	100	0	58	51	0	48	0	1.00
534258--534297	2	21.5	2	80	14	50	50	0	2	47	1.14
534258--534291	9	3.7	9	88	4	50	50	0	2	47	1.16
534259--534297	16	2.4	17	86	4	62	51	0	2	46	1.14
534594--534634	21	1.9	21	85	14	57	41	2	12	43	1.55
537223--537268	20	2.4	18	82	7	56	41	0	0	58	0.98
538532--538604	34	2.2	34	84	15	93	56	1	0	42	1.08
538558--538604	16	2.7	18	75	18	55	55	2	0	42	1.12
539774--539820	17	2.6	18	83	6	51	61	0	2	36	1.08
540954--540996	16	2.6	16	85	3	59	67	0	0	32	0.91
542098--542132	4	8.8	4	93	0	61	74	0	2	22	0.95
542562--542594	16	2.0	17	94	5	59	39	0	0	60	0.97
543954--543985	16	1.9	17	93	6	57	62	12	0	25	1.30
544504--544563	28	2.1	29	81	12	70	43	0	3	53	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544994--545254	50	5.2	51	87	5	372	31	18	19	29	1.96
544994--545254	100	2.6	101	91	2	427	31	18	19	29	1.96
546686--547002	158	2.0	158	98	0	616	32	14	29	23	1.94
551144--551191	23	2.1	22	81	14	53	47	0	4	47	1.21
552691--552739	19	2.6	19	83	6	55	53	0	0	46	1.00
554320--554354	6	6.2	6	87	12	56	14	0	17	68	1.21
554319--554351	16	2.1	16	100	0	66	12	0	21	66	1.23
555974--556031	29	2.0	30	82	3	73	44	0	3	51	1.18
557064--557101	13	2.9	13	88	7	51	39	0	2	57	1.12
557585--557652	21	3.5	19	73	13	59	52	5	2	38	1.41
557576--557664	41	2.2	39	82	11	99	49	5	2	42	1.38
557606--557664	20	3.0	21	73	26	65	49	8	1	40	1.43
561123--561174	16	3.2	16	75	5	52	36	0	0	63	0.95
561118--561205	29	3.1	29	79	11	85	40	1	0	57	1.06
564410--564444	3	11.7	3	100	0	70	34	0	0	65	0.93
565732--565756	7	3.6	7	100	0	50	84	0	0	16	0.63
566497--566541	14	3.0	15	78	21	58	57	0	0	42	0.98
568533--568577	20	2.3	20	88	7	67	48	4	0	46	1.22
569135--569191	26	2.1	27	81	15	66	47	1	7	43	1.40
570072--570116	22	2.0	22	87	8	65	68	0	6	24	1.13
570099--570141	19	2.3	19	80	8	52	79	0	6	13	0.93
570953--570987	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572119--572166	22	2.2	22	85	7	62	56	0	0	43	0.99
572429--572475	17	2.9	15	81	18	51	46	0	0	53	1.00
572431--572469	14	2.7	15	88	8	62	43	0	0	56	0.99
572605--572642	2	19.0	2	100	0	76	50	0	0	50	1.00
572885--572946	23	2.8	22	76	18	74	45	0	0	54	0.99
577952--578022	20	3.6	19	83	5	81	32	16	8	42	1.79
578433--578486	21	2.6	21	93	0	90	44	14	24	16	1.85
580427--580688	51	5.2	50	84	5	325	29	23	11	35	1.90
580427--580673	102	2.4	103	87	2	365	29	23	10	36	1.89
580631--580958	76	4.2	76	83	6	417	25	25	15	32	1.96
586284--586429	51	2.9	51	82	4	188	30	16	10	42	1.82
586284--586429	50	2.9	51	82	2	195	30	16	10	42	1.82
591302--591331	3	10.0	3	92	0	51	66	0	3	30	1.07
592210--592235	10	2.6	10	100	0	52	15	0	0	84	0.62
592537--592616	28	3.0	28	83	8	96	45	6	8	40	1.60
592546--592644	27	3.6	27	82	8	92	48	4	6	41	1.47
592556--592643	28	3.2	27	83	4	97	50	4	6	38	1.50
592605--592649	13	3.3	13	79	11	54	51	0	0	48	1.00
592603--592675	28	2.6	28	84	4	76	50	1	4	43	1.29
592578--592676	27	3.6	27	77	10	94	48	3	6	42	1.43
594229--594278	26	1.9	26	100	0	100	42	16	12	30	1.84
594750--594794	12	3.7	12	82	11	56	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594765--594792	13	2.2	13	100	0	56	50	0	0	50	1.00
595487--595536	25	2.0	26	88	4	75	52	0	0	48	1.00
597696--597743	24	1.9	26	83	8	64	45	4	2	47	1.33
598398--598431	18	1.9	17	88	5	50	23	2	11	61	1.43
598436--598494	32	1.9	30	86	6	82	37	3	0	59	1.14
599295--599341	24	2.0	24	86	0	67	48	2	2	46	1.25
599414--599481	24	2.8	23	80	6	73	38	1	0	60	1.06
599729--599757	6	4.8	6	100	0	58	0	31	17	51	1.45
604002--604033	2	16.0	2	100	0	64	50	0	0	50	1.00
606797--606837	20	2.0	20	90	0	64	34	9	14	41	1.79

Tables:   1   2   3   4   5   6   7   8   9