genome.fa.s296.2.7.7.80.10.50.1000.3.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: Scaffold296
Parameters: 2 7 7 80 10 50 1000
Length:  679504

Tables:   1   2   3   4   

This is table  3  of  4  ( 375 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)
498936--499124	33	5.7	33	78	10	174	20	29	10	39	1.86
498936--499253	34	9.7	34	73	12	222	22	29	10	37	1.87
498936--499124	67	2.9	67	86	9	248	20	29	10	39	1.86
499187--499339	27	5.2	27	70	19	110	22	32	10	35	1.88
499187--499372	59	3.1	59	78	9	207	22	32	10	35	1.87
499411--499513	32	3.2	32	83	5	129	32	31	16	20	1.95
499511--499888	49	7.7	48	75	5	258	25	26	16	30	1.97
499856--499992	52	2.6	52	76	0	148	27	22	16	34	1.95
500052--500085	18	1.9	17	88	5	50	17	35	0	47	1.48
499942--500075	61	2.2	61	82	2	171	23	26	11	38	1.88
500742--500794	21	2.6	21	79	5	65	37	9	15	37	1.79
500834--500889	20	2.8	20	88	0	76	39	14	10	35	1.81
502713--502769	11	5.3	11	74	4	62	31	0	12	56	1.36
502713--502770	21	2.7	22	86	5	82	32	0	12	55	1.37
506203--506232	13	2.3	13	94	0	51	36	10	16	36	1.82
506180--506249	33	2.1	33	83	0	86	37	17	11	34	1.85
506339--506377	20	1.9	21	94	5	71	20	17	20	41	1.91
508903--508947	19	2.5	18	78	7	56	60	17	0	22	1.37
510850--511258	79	5.2	79	85	3	497	32	14	25	27	1.94
510852--511239	154	2.5	155	82	7	489	33	13	25	27	1.94
511194--511307	51	2.2	51	81	3	131	35	11	24	28	1.90
513600--513653	20	2.7	20	91	5	83	42	14	16	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516238--516268	13	2.4	13	94	0	53	38	9	16	35	1.81
516216--516284	33	2.1	33	83	5	86	34	18	14	31	1.91
518838--518862	13	1.9	13	100	0	50	32	16	16	36	1.90
523367--523400	9	3.8	9	88	11	52	29	26	0	44	1.55
524986--525016	13	2.4	13	94	0	53	41	12	12	32	1.81
525061--525116	19	2.9	19	89	2	76	37	17	14	30	1.90
525101--525127	13	2.1	13	100	0	54	40	14	14	29	1.86
530845--531493	155	4.2	155	79	6	631	39	20	14	26	1.90
530897--531493	309	1.9	309	81	4	722	39	20	13	26	1.90
534926--535047	51	2.4	51	86	4	167	38	15	15	30	1.89
535032--535057	13	2.0	13	100	0	52	38	15	15	30	1.88
538077--538354	66	4.2	66	77	4	265	43	15	23	17	1.87
538075--538333	134	1.9	133	85	3	360	43	15	24	16	1.87
538077--538495	66	6.3	64	74	9	229	43	13	24	17	1.86
538403--538713	66	4.7	65	71	7	180	42	13	24	19	1.87
538372--538713	132	2.6	131	75	2	319	42	12	24	19	1.86
539268--539424	60	2.6	60	81	3	183	49	18	15	17	1.81
541085--541153	33	2.1	32	86	10	95	37	17	11	33	1.86
541115--541152	20	1.9	20	94	0	67	39	18	10	31	1.85
541139--541239	43	2.3	43	98	0	193	34	16	18	29	1.94
541225--541280	19	2.9	19	89	2	76	37	17	14	30	1.90
542375--542427	19	2.7	20	91	2	81	30	22	13	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542458--542522	33	2.0	33	84	0	85	36	13	16	32	1.89
542783--542834	23	2.2	25	82	6	63	21	15	7	55	1.64
552591--552735	20	6.8	20	72	14	110	31	15	12	41	1.84
552581--552717	70	2.0	70	91	0	220	29	16	11	42	1.83
552613--552785	90	1.9	91	90	1	276	28	17	12	41	1.86
554939--555262	98	3.3	97	91	2	488	26	25	15	32	1.95
562635--562679	15	3.0	15	76	0	54	42	42	0	15	1.47
567013--567071	13	5.0	13	76	23	76	28	15	15	40	1.87
566993--567071	33	2.4	33	91	4	124	30	15	13	40	1.86
574024--574074	11	4.5	11	82	9	59	84	9	1	3	0.83
574024--574074	16	3.1	15	78	15	57	84	9	1	3	0.83
575347--575620	30	9.0	30	83	4	280	22	28	16	32	1.95
575347--575748	61	6.6	61	80	7	333	21	29	15	33	1.94
575347--575627	123	2.3	122	85	2	368	21	29	16	33	1.95
575601--575952	180	2.0	173	81	10	406	21	32	13	31	1.93
575417--576162	27	24.7	31	76	10	362	21	31	14	32	1.93
575593--576162	64	9.4	64	75	12	350	21	32	13	32	1.92
575829--576039	96	2.2	97	85	2	291	20	32	11	34	1.89
575601--576162	274	2.1	266	84	7	706	21	32	13	32	1.92
576142--576325	29	6.3	30	80	10	193	33	32	16	18	1.93
576142--576325	59	3.2	58	86	6	248	33	32	16	18	1.93
576442--576952	49	10.6	49	74	7	431	25	25	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576435--576952	98	5.4	97	85	6	671	25	25	17	31	1.97
576334--576952	196	3.3	185	83	7	741	24	25	17	31	1.97
576735--576903	89	1.9	88	91	1	275	27	23	17	31	1.97
576694--576953	138	1.9	137	84	0	349	25	24	18	31	1.97
583930--584240	28	11.1	28	84	3	385	28	31	18	22	1.97
585274--585332	20	2.6	24	82	15	81	33	15	11	38	1.84
585224--585371	74	2.0	75	86	1	208	30	16	11	41	1.83
586240--586287	21	2.4	22	80	16	59	22	22	10	43	1.84
592906--592964	21	2.8	21	100	0	118	38	16	10	33	1.83
592951--592975	13	1.9	13	100	0	50	32	16	16	36	1.90
592984--593108	52	2.4	52	94	0	214	36	18	16	28	1.93
597723--597748	13	2.0	13	100	0	52	30	15	15	38	1.88
597703--597766	32	2.0	33	87	3	94	28	14	17	40	1.88
598446--598489	21	2.1	21	83	8	54	25	31	4	38	1.76
604216--604260	21	2.1	21	84	8	56	22	20	4	53	1.63
606482--606507	13	2.0	13	100	0	52	30	15	15	38	1.88
606962--607009	15	3.2	15	75	0	60	41	41	0	16	1.48
612011--612098	14	6.6	14	71	7	58	32	12	19	35	1.89
612108--612794	28	24.6	28	73	10	358	27	31	17	23	1.97
612103--612794	56	12.4	56	78	9	605	27	31	17	23	1.97
612294--612329	17	2.1	17	100	0	72	25	27	19	27	1.99
612311--612781	257	1.8	258	89	0	746	26	31	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612311--612794	28	17.0	28	78	5	434	27	31	17	23	1.97
612779--612842	32	2.0	32	88	8	96	28	25	18	28	1.98
613843--613970	20	5.8	20	69	18	94	30	15	13	40	1.86
613794--613968	91	1.9	90	89	1	269	29	16	12	41	1.85
614840--614878	20	2.1	19	85	9	53	23	17	10	48	1.78
616116--616329	98	2.2	98	87	0	302	29	23	13	33	1.92
616136--616355	98	2.2	98	85	1	289	29	23	12	34	1.92
624821--624846	13	2.0	13	100	0	52	38	15	15	30	1.88
624803--624866	32	2.0	33	87	3	94	39	17	14	29	1.88
627067--627116	21	2.3	21	80	10	57	56	4	18	22	1.58
631025--631050	13	2.0	13	100	0	52	30	15	15	38	1.88
631171--631216	21	2.2	20	81	11	58	32	19	4	43	1.71
633602--633627	13	2.0	13	100	0	52	38	15	15	30	1.88
633584--633647	32	2.0	33	90	3	103	39	18	14	28	1.90
634733--635253	155	3.4	155	85	3	647	22	16	21	39	1.92
634733--635308	311	1.9	309	81	5	705	23	16	20	40	1.91
639657--639817	79	2.0	79	98	0	313	47	8	9	34	1.66
642403--642572	52	3.3	50	79	10	164	36	15	23	24	1.94
642613--642735	52	2.4	52	81	2	140	34	14	23	27	1.94
642766--642895	52	2.5	52	77	5	129	36	19	22	21	1.95
642962--643516	32	17.2	30	79	7	349	21	15	30	31	1.95
642976--643519	33	16.8	32	77	8	403	21	15	30	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642984--643522	65	8.3	65	77	7	467	22	15	30	31	1.95
644519--644575	19	2.9	19	92	5	96	31	17	17	33	1.93
644560--644586	13	2.1	13	100	0	54	40	14	14	29	1.86
644999--645079	31	2.6	32	80	7	85	33	28	16	22	1.95
645149--645464	52	6.1	52	85	3	350	25	25	14	34	1.94
645167--645454	155	1.9	156	85	3	402	26	25	15	33	1.95
652060--652094	17	2.1	17	100	0	70	17	5	17	60	1.55
654065--654116	19	2.7	19	93	0	86	46	11	11	30	1.76
654015--654168	70	2.2	71	82	5	179	43	14	13	28	1.83
654082--654221	50	2.8	50	86	3	192	43	14	12	29	1.82

Tables:   1   2   3   4