genome.fa.s484.2.7.7.80.10.50.1000.3.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: Scaffold484
Parameters: 2 7 7 80 10 50 1000
Length:  1030986

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 680 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)
444255--444298	22	2.0	22	100	0	88	31	22	13	31	1.93
447263--447301	18	2.1	18	85	4	51	0	0	74	25	0.82
456018--456057	20	1.9	19	85	14	53	40	2	0	57	1.12
456866--456890	2	12.5	2	100	0	50	48	0	52	0	1.00
463038--463068	16	1.9	16	93	0	53	54	0	0	45	0.99
463104--463156	22	2.3	23	80	6	63	45	0	0	54	0.99
464097--464130	13	2.5	13	85	4	50	79	5	0	14	0.91
464173--464579	103	4.0	103	90	2	640	40	5	17	36	1.74
464178--464579	204	2.0	204	92	1	671	40	5	17	36	1.72
468122--468166	2	22.5	2	100	0	90	48	0	0	51	1.00
468835--468879	22	2.0	22	87	8	65	57	0	0	42	0.98
469226--469257	2	16.0	2	100	0	64	50	0	0	50	1.00
470134--470186	17	3.1	18	83	8	74	37	0	0	62	0.96
470114--470186	32	2.2	33	87	7	103	38	0	0	61	0.96
470127--470186	17	3.7	16	76	10	59	38	0	0	61	0.96
470318--470355	2	19.0	2	100	0	76	50	0	0	50	1.00
470549--470576	3	9.3	3	100	0	56	67	0	0	32	0.91
470836--470897	12	5.4	12	75	14	51	51	0	0	48	1.00
470868--470910	22	1.9	23	86	13	63	48	2	0	48	1.14
471409--471449	21	2.0	21	90	0	64	29	0	0	70	0.87
473855--473912	30	2.0	30	83	10	75	51	3	0	44	1.18
474669--474726	16	3.4	17	77	13	57	58	1	0	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477063--477119	20	2.9	21	76	10	66	56	0	0	43	0.99
477537--477651	52	2.2	51	79	15	121	46	1	0	51	1.17
478217--478264	25	1.9	25	87	8	71	37	2	0	60	1.09
478206--478264	28	2.2	25	85	8	73	40	1	0	57	1.09
481997--482087	38	2.5	37	76	7	96	49	0	0	50	1.00
482757--482794	2	19.0	2	100	0	76	50	0	0	50	1.00
490053--490081	2	14.5	2	100	0	58	48	0	51	0	1.00
490250--490276	7	3.9	7	100	0	54	44	29	14	11	1.80
494851--494899	2	24.5	2	95	0	89	51	2	0	46	1.12
496309--496345	2	18.5	2	100	0	74	51	0	0	48	1.00
499211--499245	17	2.1	17	88	0	52	54	25	2	17	1.57
506888--506926	2	20.0	2	94	5	71	51	0	0	48	1.00
509945--510022	2	39.0	2	81	0	57	47	11	2	38	1.54
509945--509995	16	3.2	16	88	0	75	49	13	0	37	1.43
509945--510022	12	6.3	12	73	5	66	47	11	2	38	1.54
509948--510016	18	3.7	18	81	7	84	47	11	2	37	1.55
515139--515164	2	13.0	2	100	0	52	0	0	50	50	1.00
516819--516843	10	2.5	10	100	0	50	76	0	0	24	0.80
517247--517271	12	2.1	12	100	0	50	24	20	32	24	1.98
532130--532167	8	4.8	8	81	12	51	57	0	0	42	0.98
532130--532168	17	2.4	16	91	8	62	56	0	0	43	0.99
536525--536554	15	1.9	16	93	6	53	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536515--536557	16	2.6	17	82	10	54	53	0	0	46	1.00
537078--537107	15	1.9	16	93	6	53	0	23	0	76	0.78
537542--537589	2	23.5	2	82	4	60	54	2	2	41	1.24
537612--537650	20	2.0	19	90	5	60	58	0	0	41	0.98
538047--538126	38	2.2	36	80	20	89	50	0	0	50	1.00
538610--538667	23	2.6	23	86	8	75	62	1	0	36	1.06
544598--544635	14	2.8	13	78	21	51	42	0	0	57	0.98
544598--544654	25	2.2	26	87	6	80	45	0	0	54	0.99
544931--545046	55	2.1	55	79	6	128	48	1	2	47	1.26
547930--547962	3	11.0	3	93	0	57	3	0	63	33	1.10
558837--558876	16	2.5	16	91	0	62	50	10	0	40	1.36
559376--559401	2	13.0	2	100	0	52	50	0	0	50	1.00
566920--566975	27	2.1	27	83	3	69	28	14	0	57	1.38
568446--568511	21	3.0	21	80	8	62	51	6	0	42	1.26
568467--568524	21	2.8	21	78	5	64	58	3	0	37	1.15
568800--568860	30	2.0	31	81	12	74	50	3	4	40	1.40
569439--569490	18	3.1	17	83	8	61	44	1	1	51	1.23
569448--569491	18	2.5	18	88	3	63	43	2	2	52	1.26
570914--571015	32	3.2	32	79	2	100	40	3	5	50	1.45
571231--571279	23	2.1	24	85	11	66	36	0	4	59	1.17
575962--576209	124	2.0	124	89	0	379	31	19	19	29	1.96
578782--578913	66	2.0	66	95	0	237	22	15	21	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581410--581455	16	2.9	16	80	0	56	43	0	0	56	0.99
590775--591082	48	6.4	48	89	4	449	9	21	28	39	1.85
598508--598579	36	2.0	36	88	0	108	26	22	25	26	2.00
599186--599267	17	4.8	16	70	18	58	37	0	1	60	1.04
599184--599244	12	5.5	12	74	16	60	37	0	1	60	1.07
600121--600191	32	2.1	36	87	10	105	59	0	0	40	0.98
600111--600171	28	2.2	27	85	8	79	59	0	0	40	0.98
600381--600430	13	4.1	12	80	12	57	32	2	0	66	1.03
600585--600614	15	2.0	15	93	0	51	50	0	0	50	1.00
612265--612333	2	34.5	2	97	0	129	49	1	0	49	1.09
612415--612461	15	3.5	15	72	27	59	19	17	14	48	1.81
612419--612468	25	2.0	25	100	0	100	20	16	16	48	1.82
613743--613792	21	2.3	20	80	10	55	66	0	4	30	1.10
618468--618708	120	2.0	121	93	0	412	34	21	19	24	1.96
619042--619067	11	2.4	11	100	0	52	38	7	38	15	1.76
624532--624582	16	3.1	16	76	15	59	37	0	0	62	0.95
625414--625478	22	2.9	22	77	6	67	41	6	1	50	1.36
625927--625951	12	2.1	12	100	0	50	56	0	0	44	0.99
625967--626012	24	2.0	21	88	12	65	56	0	0	43	0.99
626656--626697	22	1.9	22	90	0	66	54	0	0	45	0.99
632044--632145	51	2.0	51	94	0	177	40	7	10	41	1.69
633551--633607	13	4.6	12	78	12	62	56	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633532--633607	24	3.1	24	76	18	77	53	2	0	43	1.14
633963--634112	76	2.0	76	91	0	246	25	24	18	32	1.97
634643--634715	22	3.4	21	79	5	83	50	0	1	47	1.09
634639--634713	27	2.8	27	82	9	75	50	0	1	48	1.09
634781--634839	11	5.2	11	76	13	57	32	0	6	61	1.22
634786--634839	23	2.4	22	84	12	65	29	0	7	62	1.22
635552--635597	13	3.7	12	83	16	58	32	0	2	65	1.05
638479--638531	22	2.3	23	77	9	63	60	0	0	39	0.97
638472--638530	19	2.9	19	77	7	55	64	0	0	35	0.94
638579--638622	20	2.2	20	84	8	54	50	2	2	45	1.27
638896--638955	30	2.0	30	86	0	84	50	0	0	50	1.00
639268--639343	28	2.6	28	85	8	91	32	0	1	65	1.01
639318--639351	16	2.1	17	88	5	52	47	2	0	50	1.16
639411--639467	26	2.2	27	90	6	91	52	0	7	40	1.28
639421--639479	26	2.2	26	82	8	75	52	0	3	44	1.17
642480--642528	6	8.2	6	88	0	53	0	38	4	57	1.18
642480--642528	8	6.1	8	82	0	53	0	38	4	57	1.18
642484--642522	16	2.4	16	91	0	60	0	38	5	56	1.22
642480--642529	14	3.4	14	84	10	64	0	38	4	58	1.17
644055--644088	15	2.3	15	89	0	50	8	11	8	70	1.34
644826--644857	10	3.1	11	86	13	50	43	0	6	50	1.27
645642--645686	23	2.0	22	82	4	54	55	4	2	37	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649620--649655	3	12.0	3	87	0	54	30	2	2	63	1.22
651498--651526	2	14.5	2	100	0	58	51	0	0	48	1.00
661210--661292	31	2.8	28	77	18	78	38	2	1	57	1.19
661224--661294	31	2.3	31	81	13	85	42	2	1	53	1.24
662285--662337	20	2.4	24	75	18	60	56	0	0	43	0.99
662505--662589	9	9.4	9	70	13	50	60	0	1	38	1.05
662505--662549	19	2.3	19	80	7	54	66	0	0	33	0.92
664330--664360	15	2.1	15	93	0	53	61	0	0	38	0.96
665932--665997	7	9.7	7	73	22	52	62	1	0	36	1.05
665933--666010	20	4.1	20	71	22	60	61	1	0	37	1.04

Tables:   1   2   3   4   5   6