genome.fa.s479.2.7.7.80.10.50.1000.4.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: Scaffold479
Parameters: 2 7 7 80 10 50 1000
Length:  1265690

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1016 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)
429199--429293	20	4.7	20	80	6	102	31	17	11	38	1.86
429987--430137	53	2.8	53	85	4	180	39	16	20	23	1.92
436783--436825	22	2.0	22	90	0	68	55	2	20	20	1.54
439090--439123	16	2.1	17	88	5	52	17	44	0	38	1.49
448704--448768	33	2.0	33	87	6	96	41	16	12	29	1.85
450347--450380	6	5.7	6	96	0	50	41	0	35	23	1.55
454911--454948	13	2.9	13	96	0	67	31	15	18	34	1.92
456763--456918	73	2.1	73	96	0	285	41	1	27	29	1.67
457462--457486	13	1.9	13	100	0	50	32	16	16	36	1.90
457472--457526	20	2.7	21	80	11	69	36	16	16	30	1.91
457577--457602	13	2.0	13	100	0	52	30	15	15	38	1.88
457556--457624	33	2.1	33	89	5	104	37	15	15	30	1.90
458429--458483	20	2.7	20	82	5	65	30	12	12	43	1.80
460709--460738	11	2.7	11	89	0	51	80	0	0	20	0.72
460821--460875	21	2.7	21	80	5	69	34	12	14	38	1.84
460900--460940	21	2.0	21	95	0	73	41	9	21	26	1.84
461369--461393	13	1.9	13	100	0	50	32	16	16	36	1.90
464112--464137	13	2.0	13	100	0	52	30	15	15	38	1.88
464091--464155	32	2.0	34	87	6	98	26	13	16	43	1.86
466189--466231	20	2.1	20	86	4	59	9	25	44	20	1.81
466672--466707	13	2.8	13	95	0	63	33	16	16	33	1.92
466696--466773	20	3.7	20	73	15	66	38	15	16	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472852--472877	13	2.0	13	100	0	52	30	15	15	38	1.88
472831--472895	32	2.0	34	87	6	98	26	13	16	43	1.86
473654--473701	21	2.3	22	92	7	82	66	4	8	20	1.35
477367--477391	8	3.1	8	100	0	50	12	0	24	64	1.27
477922--478096	61	3.0	61	80	13	222	26	29	19	24	1.98
478117--478314	55	3.5	55	78	10	218	26	27	22	24	2.00
478290--478427	43	3.1	43	80	13	172	17	28	13	41	1.86
478288--478421	46	3.0	44	80	14	166	18	26	13	41	1.88
478977--482069	474	6.5	475	86	1	4055	36	14	19	29	1.91
481878--482357	158	3.0	157	64	9	335	38	15	18	26	1.91
481724--482364	316	2.0	315	85	1	845	37	15	18	28	1.91
482019--483686	472	3.5	474	85	4	2118	37	14	19	29	1.91
483887--483941	21	2.7	21	80	5	69	34	12	14	38	1.84
484622--484655	12	2.7	13	86	4	52	58	35	0	5	1.22
486312--486411	51	1.9	53	87	4	150	33	23	7	37	1.81
486476--486696	51	4.3	50	80	6	221	29	26	11	32	1.92
486515--486696	52	3.5	50	79	9	195	29	26	10	33	1.90
486318--486806	262	1.9	261	91	0	798	28	28	11	31	1.92
486902--486941	20	2.0	20	100	0	80	25	40	5	30	1.77
491819--492348	32	16.6	31	81	8	544	29	31	17	21	1.96
491831--492354	65	8.2	65	82	5	572	30	31	16	21	1.96
491819--492343	161	3.3	160	84	4	650	29	31	17	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492436--492998	52	10.2	52	71	14	231	23	25	14	37	1.92
492554--493014	61	8.0	61	72	13	375	23	26	13	36	1.92
492596--493033	113	3.9	113	89	2	612	23	26	14	36	1.93
492491--492881	174	2.3	173	82	5	467	23	26	14	35	1.93
498694--499142	80	5.7	78	82	4	490	28	26	11	33	1.91
498735--499142	159	2.6	159	83	3	509	28	27	11	32	1.91
499090--499193	53	2.0	53	88	0	154	31	25	7	34	1.85
499125--499454	81	4.1	80	79	9	316	29	26	10	34	1.89
499127--499435	80	3.9	79	79	10	301	30	26	8	34	1.87
498835--499433	293	2.1	291	82	5	728	29	26	10	33	1.89
503182--503206	13	1.9	13	100	0	50	36	16	16	32	1.90
503195--503243	19	2.6	19	96	3	91	32	12	18	36	1.88
503298--503333	13	2.8	13	100	0	72	33	16	13	36	1.89
503349--503468	50	2.4	51	92	2	206	35	18	18	27	1.94
510855--510885	16	1.9	16	93	0	53	51	0	0	48	1.00
514479--514503	5	5.0	5	100	0	50	80	0	20	0	0.72
525702--526046	156	2.2	155	85	6	448	39	20	14	26	1.90
526590--526785	31	6.2	31	80	12	184	20	29	16	33	1.94
526590--526761	96	1.8	94	83	6	231	19	29	16	34	1.94
526598--526794	96	2.1	96	79	5	211	19	30	14	35	1.92
526738--526890	34	4.5	34	86	4	177	16	37	13	32	1.88
526884--527668	49	16.9	48	78	8	658	25	24	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526884--527668	228	3.4	229	86	6	934	25	24	18	31	1.98
527429--527538	39	2.8	39	90	0	166	30	22	20	26	1.99
526950--527668	267	2.6	270	85	4	917	25	24	18	31	1.98
528416--528441	13	2.0	13	100	0	52	30	15	15	38	1.88
528480--528555	21	3.7	21	80	3	100	28	17	11	42	1.84
528501--528573	20	3.6	20	81	3	101	31	19	13	35	1.91
528480--528573	41	2.3	41	98	0	179	29	18	12	39	1.88
531017--531055	13	3.0	13	96	0	69	35	15	17	30	1.91
531041--531119	20	3.7	20	75	18	70	45	15	13	25	1.83
533135--533165	15	2.1	15	93	0	53	12	22	16	48	1.80
534968--535012	21	2.1	21	84	8	56	22	20	4	53	1.63
537227--537252	13	2.0	13	100	0	52	30	15	15	38	1.88
537291--537366	21	3.7	21	80	3	100	28	17	11	42	1.84
537312--537384	20	3.6	20	81	3	101	31	19	13	35	1.91
537291--537384	41	2.3	41	98	0	179	29	18	12	39	1.88
537676--538256	49	12.3	49	78	6	474	23	25	19	31	1.98
537799--537916	39	3.0	39	94	0	200	28	23	21	26	1.99
539109--539134	9	2.9	9	100	0	52	23	0	23	53	1.46
541470--541842	165	2.3	161	82	6	439	45	16	5	31	1.71
543774--543807	3	11.7	3	93	6	61	32	0	0	67	0.91
544131--544414	148	1.9	149	86	3	371	38	11	10	39	1.76
545191--545225	10	3.3	10	85	14	52	11	11	0	77	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545193--545249	22	2.6	21	78	15	53	8	19	1	70	1.23
547359--547792	84	5.2	84	77	5	349	34	17	27	19	1.95
547359--547792	42	10.3	42	72	9	258	34	17	27	19	1.95
547487--547792	167	1.8	169	80	4	377	35	17	26	19	1.94
548673--548901	97	2.4	96	91	2	368	28	12	29	29	1.93
551072--551185	31	3.5	30	72	17	93	41	11	18	28	1.85
551328--553694	28	83.0	28	83	4	2355	23	18	30	27	1.98
551328--553694	57	41.5	57	86	3	3056	23	18	30	27	1.98
551328--553694	200	11.9	201	87	3	3109	23	18	30	27	1.98
559631--559684	18	2.8	20	80	13	76	46	11	16	25	1.80
559709--559763	22	2.7	19	74	17	56	34	10	14	40	1.81
562141--562609	158	3.0	157	83	1	598	27	24	12	34	1.92
562169--562609	237	1.9	236	84	0	603	27	25	13	33	1.93
562145--562584	79	5.6	79	82	0	513	28	25	12	34	1.91
562145--562633	79	6.2	78	79	3	406	27	24	12	35	1.92
564800--565371	164	3.5	162	81	8	529	39	12	11	35	1.80
565831--565855	12	2.1	12	100	0	50	52	16	16	16	1.76
574708--574748	21	2.0	21	85	9	57	39	12	9	39	1.76
574788--574858	20	3.5	20	77	11	74	39	15	14	30	1.87
574828--574964	53	2.6	53	96	1	247	37	18	17	27	1.93
575014--575055	21	2.0	21	100	0	84	28	23	9	38	1.86
575151--575176	13	2.0	13	100	0	52	30	15	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575646--575712	37	1.9	35	88	11	102	32	11	25	29	1.92
578885--578909	13	1.9	13	100	0	50	36	16	16	32	1.90
580556--580596	21	2.0	21	85	9	57	39	12	9	39	1.76
580636--580706	20	3.6	19	77	7	70	39	16	14	29	1.88
580676--580812	53	2.6	53	95	1	238	37	18	16	27	1.92
580862--580903	21	2.0	21	100	0	84	28	23	9	38	1.86
580999--581024	13	2.0	13	100	0	52	30	15	23	30	1.95
581494--581560	37	1.9	35	85	11	93	32	10	25	31	1.89
583294--583337	20	2.2	20	83	0	52	34	11	15	38	1.84
583600--583642	21	2.0	22	86	4	61	46	9	4	39	1.57

Tables:   1   2   3   4   5   6   7   8   9