genome.fa.s485.2.7.7.80.10.50.1000.5.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: Scaffold485
Parameters: 2 7 7 80 10 50 1000
Length:  999764

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 928 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)
473984--474047	32	2.0	32	96	0	119	31	17	28	23	1.97
477839--478039	53	3.8	52	76	9	183	39	14	11	34	1.83
477820--478032	106	2.0	105	81	7	243	39	14	10	35	1.80
478771--478795	6	4.2	6	100	0	50	32	0	0	68	0.90
478992--479041	16	3.2	16	77	5	57	60	4	0	36	1.16
479224--479267	21	2.2	20	83	4	52	43	13	6	36	1.71
480158--480203	24	1.9	24	81	0	56	56	0	10	32	1.34
490705--490766	19	3.3	19	80	11	74	59	0	0	40	0.97
491038--491090	27	2.0	27	85	7	72	39	1	1	56	1.21
491240--491300	28	2.3	27	80	5	70	39	1	0	59	1.08
491665--491703	20	2.0	20	90	9	64	20	7	5	66	1.36
492386--492412	2	13.5	2	100	0	54	48	0	0	51	1.00
492647--492683	16	2.3	16	90	0	56	54	2	0	43	1.14
492838--492870	17	2.0	17	94	5	59	57	0	0	42	0.98
493123--493181	14	3.9	15	75	18	59	47	0	0	52	1.00
493117--493166	18	2.9	18	77	11	52	48	0	0	52	1.00
493087--493176	32	2.7	34	80	13	98	45	1	0	53	1.07
497842--497930	8	10.8	8	71	18	58	38	0	0	61	0.96
497845--497931	32	2.7	32	77	12	79	37	0	0	62	0.96
497910--497965	24	2.4	22	82	14	67	32	1	0	66	1.03
497838--497962	51	2.4	52	77	15	127	36	0	0	63	1.00
498015--498052	16	2.4	17	83	16	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499011--499035	4	6.2	4	100	0	50	76	0	0	24	0.80
499031--499063	3	11.0	3	100	0	66	66	0	0	33	0.92
502961--503004	20	2.0	22	83	12	56	63	4	0	31	1.14
503016--503055	19	2.0	20	90	4	64	32	7	5	55	1.50
504378--504433	10	5.7	10	76	17	55	64	0	0	35	0.94
504378--504436	20	3.0	20	83	11	68	64	0	0	35	0.94
504760--504795	16	2.2	16	95	0	63	55	0	2	41	1.14
504760--504803	16	2.8	16	89	3	54	56	0	2	40	1.11
511655--511714	21	2.9	21	79	16	63	58	1	0	40	1.08
511699--511741	21	2.0	21	86	8	61	55	0	0	44	0.99
512371--512426	16	3.5	16	76	16	62	46	0	0	53	1.00
512350--512427	32	2.3	34	85	10	99	46	0	0	53	1.00
512371--512437	32	2.1	32	83	10	84	47	0	0	52	1.00
512399--512447	24	2.1	23	84	3	62	48	0	0	51	1.00
512967--513093	61	2.1	60	85	8	168	43	0	4	51	1.28
513088--513151	17	3.6	17	69	19	58	31	3	4	60	1.32
513149--513179	15	2.1	15	93	0	53	67	0	3	29	1.06
513993--514034	22	1.9	22	85	9	59	40	2	0	57	1.12
517109--517140	16	2.0	16	100	0	64	56	18	12	12	1.67
518412--518478	31	2.3	30	82	7	75	43	0	0	56	0.99
518556--518622	13	5.5	13	71	10	52	49	4	0	46	1.22
518564--518622	23	2.4	25	81	13	70	50	5	0	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518778--518807	2	15.0	2	100	0	60	50	0	0	50	1.00
519878--519945	29	2.4	28	76	11	75	36	29	1	32	1.67
527468--527521	25	2.3	25	84	9	69	57	0	0	42	0.98
527499--527547	19	2.6	18	78	12	53	61	2	0	36	1.08
527603--527639	2	18.5	2	100	0	74	51	0	0	48	1.00
534253--534308	16	3.8	15	75	13	53	48	0	0	51	1.00
534258--534306	13	3.9	12	82	12	55	48	0	0	51	1.00
540102--540151	16	3.0	17	75	21	52	48	0	0	52	1.00
540132--540182	22	2.2	24	79	10	61	50	0	0	49	1.00
540182--540232	18	2.8	18	75	21	61	56	0	1	41	1.10
546603--546650	21	2.4	19	83	13	60	62	0	0	37	0.95
554405--554501	51	1.9	51	86	0	140	43	15	9	31	1.78
555932--556023	37	2.6	38	80	14	101	48	0	0	51	1.00
555966--556023	16	3.3	18	75	18	59	50	0	0	50	1.00
555934--556023	36	2.6	37	85	15	113	50	0	0	50	1.00
555947--556027	17	4.6	18	70	17	62	53	0	0	46	1.00
556301--556351	22	2.3	22	86	3	66	60	0	0	39	0.97
556311--556363	28	1.9	27	88	3	79	62	0	0	37	0.96
556309--556353	11	4.1	11	80	11	56	62	0	0	37	0.96
556882--556924	12	3.3	13	90	6	61	46	9	0	44	1.35
556894--556927	2	16.5	2	93	6	59	50	2	0	47	1.16
557872--557928	28	2.0	28	86	0	78	42	8	7	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559841--559882	21	2.0	21	85	4	57	47	0	0	52	1.00
560018--560058	13	3.1	13	79	6	55	34	0	0	65	0.93
560098--560145	19	2.5	20	83	10	55	60	0	0	39	0.97
562072--562115	15	3.3	15	70	29	53	52	0	0	47	1.00
562291--562356	23	3.0	22	79	14	66	48	0	6	45	1.27
562384--562429	20	2.3	20	96	0	83	52	0	2	45	1.13
562959--563032	33	2.3	33	83	2	87	36	1	0	62	1.04
562914--563002	37	2.4	38	81	7	103	35	1	1	61	1.11
563563--563656	16	5.6	18	62	22	51	59	0	0	40	0.97
563556--563663	36	3.1	35	76	20	111	59	0	0	40	0.98
563555--563608	13	4.6	11	80	17	56	59	0	0	40	0.98
563573--563621	24	1.9	26	88	12	75	59	0	0	40	0.98
563556--563655	32	3.0	33	80	15	107	59	0	0	41	0.98
563554--563658	18	6.2	17	71	20	62	60	0	0	40	0.97
563599--563690	43	2.1	45	84	8	118	55	0	0	44	0.99
563808--563873	20	3.6	18	72	15	64	59	0	1	39	1.07
566217--566348	66	2.0	66	90	0	210	26	19	13	40	1.89
568131--568182	7	7.0	7	77	12	50	76	1	5	15	1.05
568131--568181	15	3.3	15	80	2	66	76	1	5	15	1.07
568219--568248	16	1.9	15	93	6	51	73	0	20	6	1.05
568463--568498	15	2.3	15	90	4	54	5	13	0	80	0.88
569102--569156	22	2.5	22	82	11	67	43	1	0	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569111--569172	22	2.8	23	81	13	69	45	0	1	53	1.10
569141--569191	20	2.5	20	84	12	59	37	1	3	56	1.29
575757--575799	18	2.4	18	92	0	68	25	34	13	25	1.93
579336--579388	22	2.4	22	78	6	63	41	0	0	58	0.98
579466--579513	22	2.1	23	88	3	71	66	0	2	31	1.03
580143--580232	16	5.6	16	74	0	90	52	3	0	44	1.17
580167--580215	22	2.2	23	82	10	57	59	2	0	38	1.09
580129--580242	16	7.2	16	72	5	72	53	4	0	41	1.27
580129--580234	32	3.4	32	88	2	162	53	2	0	42	1.22
580129--580256	32	4.1	32	84	4	127	51	3	0	43	1.25
580370--580453	44	1.9	44	95	0	150	57	0	2	40	1.12
580372--580442	16	4.7	16	73	19	62	56	0	1	42	1.08
580918--580955	18	2.1	18	85	14	51	57	0	0	42	0.98
580958--580984	6	4.5	6	100	0	54	18	0	0	81	0.69
581298--581334	11	3.4	11	84	0	56	37	0	0	62	0.96
582263--582348	43	2.0	43	97	0	163	34	12	9	43	1.75
584888--585087	87	2.2	90	85	5	271	35	18	7	39	1.79
585088--585422	122	2.8	115	79	14	276	52	2	2	42	1.26
585238--585297	21	2.9	20	76	16	59	58	3	0	38	1.15
585122--585472	122	2.9	122	84	10	417	52	2	2	43	1.27
585764--585816	23	2.3	23	80	3	63	28	3	3	64	1.28
585823--585904	37	2.2	38	82	14	107	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585792--586176	112	3.4	113	85	9	428	43	1	2	52	1.19
585851--585922	35	2.1	35	82	10	85	52	1	0	45	1.09
585905--585962	21	2.7	20	77	15	55	41	1	0	56	1.09
585865--586000	73	1.9	73	82	11	174	44	1	0	53	1.09
585860--586024	78	2.2	71	77	14	165	46	1	0	52	1.08
586021--586081	22	2.7	21	78	14	61	39	0	1	59	1.08
585894--586184	113	2.5	119	89	7	433	43	0	2	53	1.17
585894--586221	113	2.9	115	73	17	283	44	0	1	53	1.16
586556--586612	24	2.2	25	81	9	62	52	0	3	43	1.18
587822--587870	13	3.9	13	84	7	66	32	0	0	67	0.91

Tables:   1   2   3   4   5   6   7   8