genome.fa.s96.2.7.7.80.10.50.1000.4.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: Scaffold96
Parameters: 2 7 7 80 10 50 1000
Length:  1013983

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 903 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)
430555--430596	18	2.3	18	84	8	50	83	2	7	7	0.89
430581--430635	20	2.8	19	80	2	56	74	1	14	9	1.14
430588--430635	19	2.5	20	86	10	64	72	2	16	8	1.18
430848--430900	23	2.3	23	86	3	70	20	9	20	49	1.77
430920--430959	17	2.3	18	80	20	50	80	2	12	5	0.98
431227--431280	24	2.2	24	87	9	74	81	3	7	7	0.97
435328--435352	13	1.9	13	100	0	50	36	16	16	32	1.90
435414--435438	13	1.9	13	100	0	50	32	16	16	36	1.90
436215--436341	67	1.9	68	86	4	186	38	11	24	25	1.89
436291--436671	43	7.9	52	76	14	254	32	16	24	26	1.96
436398--436716	43	7.1	43	82	8	395	30	18	25	26	1.98
436345--436716	92	4.1	92	91	3	549	30	17	25	26	1.97
436398--436716	135	2.4	133	84	8	430	30	18	25	26	1.98
436713--436843	32	4.1	32	92	1	217	19	18	33	28	1.96
436983--437043	28	2.2	27	85	8	79	31	13	32	22	1.92
436854--437669	163	5.0	164	87	5	1195	32	12	33	21	1.91
437317--437377	28	2.2	27	88	2	86	29	13	34	22	1.92
436829--437669	334	2.5	333	87	6	1250	32	12	33	21	1.90
437480--437540	28	2.2	27	82	2	68	32	13	31	22	1.92
436849--437668	34	24.8	33	80	11	663	33	12	33	20	1.90
437611--437741	32	4.2	30	83	9	111	31	14	32	22	1.94
438422--438464	19	2.2	20	95	4	79	41	4	23	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438708--438758	17	3.1	17	85	2	59	0	9	5	84	0.78
438705--438759	29	1.9	28	89	10	85	0	10	5	83	0.79
438705--438759	16	3.7	15	79	16	69	0	10	5	83	0.79
445979--446003	13	1.9	13	100	0	50	36	16	16	32	1.90
446546--446689	44	3.2	44	69	12	123	23	18	12	45	1.84
446432--447098	88	7.6	88	79	6	519	23	19	14	42	1.88
446717--447097	89	4.3	88	80	6	260	22	19	14	43	1.87
447617--447673	29	1.9	30	86	10	82	17	12	12	57	1.64
452545--452672	51	2.5	51	92	2	204	23	12	23	40	1.88
452716--452822	31	3.5	31	74	7	110	14	23	35	27	1.93
452702--452818	62	1.9	62	87	3	173	14	23	34	27	1.94
453008--453517	41	12.4	40	74	12	321	40	14	26	18	1.89
453008--453519	163	3.1	162	83	3	596	40	14	26	18	1.89
453089--453518	82	5.3	82	80	2	481	40	15	26	18	1.90
453089--453521	41	10.6	41	79	4	419	40	15	26	18	1.90
462109--462138	13	2.3	13	100	0	60	30	16	13	40	1.87
462154--462208	20	2.8	20	88	5	76	25	14	16	43	1.86
462171--462236	33	2.0	33	93	0	114	27	16	16	39	1.90
464768--464887	51	2.4	51	82	10	156	32	24	10	32	1.90
464819--465050	79	2.9	78	87	3	322	27	25	14	32	1.95
477351--477426	8	9.9	8	81	9	88	86	10	2	0	0.66
477348--477428	18	4.4	18	87	4	117	86	11	2	0	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477355--477425	23	3.1	23	84	13	94	85	11	2	0	0.69
477349--477441	25	3.3	27	75	19	84	86	8	5	0	0.72
477349--477428	1	80.0	1	74	0	70	87	10	2	0	0.63
478475--478560	27	3.1	27	63	3	73	26	23	20	29	1.99
478447--478771	61	5.5	61	89	6	458	25	29	19	24	1.98
478799--479150	61	5.9	60	78	7	342	26	24	20	28	1.99
478507--479038	272	2.0	268	84	5	694	25	27	20	26	1.99
478782--479090	116	2.6	116	83	5	361	26	25	21	26	1.99
478400--479096	333	2.1	330	85	6	910	25	28	19	26	1.99
479131--479322	42	4.5	42	79	5	188	21	26	13	38	1.90
479130--479322	87	2.2	87	82	3	239	21	26	13	38	1.90
479327--479422	37	2.4	39	78	13	99	17	23	11	46	1.81
479985--480040	20	2.8	20	88	0	85	32	12	12	42	1.80
482493--482567	28	2.7	29	78	12	84	25	21	20	33	1.97
482367--482645	51	5.4	51	70	10	172	29	21	12	36	1.90
482603--482834	79	2.9	79	85	1	304	28	23	13	34	1.92
491776--491865	29	3.1	30	81	12	125	28	28	16	25	1.97
491838--492037	34	6.2	33	76	11	148	20	32	13	34	1.91
491899--491952	27	2.0	27	92	0	90	24	35	12	27	1.92
491865--491990	59	2.1	61	83	2	157	20	30	12	35	1.90
492053--492138	28	2.9	30	78	18	92	33	30	17	18	1.94
492031--492126	28	3.3	30	81	10	110	34	32	16	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492148--492591	49	9.5	49	74	11	288	26	25	17	30	1.97
492153--492507	98	4.0	86	81	9	320	26	25	18	29	1.98
492326--492555	98	2.3	98	87	0	334	25	24	17	32	1.97
493432--493516	19	4.8	18	70	24	65	36	12	16	34	1.87
493453--493612	31	5.0	32	71	9	123	35	15	15	34	1.89
493548--493613	33	2.0	33	85	5	89	30	13	13	42	1.83
508795--508923	52	2.5	52	94	0	231	27	17	18	36	1.93
508795--508943	52	2.9	52	85	6	203	29	16	18	35	1.93
508932--508956	13	1.9	13	100	0	50	36	16	16	32	1.90
508994--509062	32	2.1	33	94	2	122	36	17	11	34	1.86
509018--509042	13	1.9	13	100	0	50	32	16	16	36	1.90
511078--511153	11	7.9	9	83	16	91	84	15	0	0	0.63
511077--511164	11	7.6	11	77	14	88	84	15	0	0	0.63
511076--511164	31	2.9	30	85	6	117	83	16	0	0	0.65
511077--511155	1	79.0	1	74	0	50	84	15	0	0	0.61
511077--511153	20	3.9	20	84	1	102	84	15	0	0	0.62
512597--512686	29	3.1	30	82	9	132	30	30	15	24	1.96
512659--512862	34	6.3	33	77	10	172	19	32	13	34	1.91
512720--512778	27	2.2	26	87	3	82	20	30	13	35	1.91
512686--512811	59	2.1	59	86	2	171	19	30	13	37	1.90
512663--512846	93	2.0	95	80	4	212	17	32	13	36	1.89
512853--512946	28	3.2	29	79	7	93	34	34	17	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513146--513375	49	4.7	49	87	0	334	23	24	18	33	1.97
514287--514359	32	2.3	32	87	0	110	36	9	19	34	1.84
514383--514448	33	2.0	33	85	5	89	30	13	13	42	1.83
519858--519911	20	2.7	20	82	2	63	35	18	9	37	1.83
520245--521054	408	2.0	407	87	1	1176	28	23	14	32	1.95
522983--523008	2	13.0	2	100	0	52	50	0	0	50	1.00
524644--524891	123	2.0	122	91	0	397	29	17	6	46	1.73
526139--526205	32	2.1	32	100	0	134	43	2	5	47	1.43
526625--526672	20	2.2	23	78	10	57	37	0	8	54	1.31
528811--528869	32	1.9	30	83	13	75	59	10	10	20	1.58
529150--529175	13	2.0	13	100	0	52	30	15	15	38	1.88
529130--529193	32	2.0	33	87	3	94	28	14	17	40	1.88
531765--531789	13	1.9	13	100	0	50	32	16	16	36	1.90
531732--531812	33	2.5	33	95	0	144	41	11	17	29	1.84
533867--533897	15	2.1	15	93	0	53	12	22	16	48	1.80
537629--537687	32	1.9	30	83	13	75	59	10	10	20	1.58
537968--537993	13	2.0	13	100	0	52	30	15	15	38	1.88
537948--538011	32	2.0	33	87	3	94	28	14	17	40	1.88
538893--538932	13	3.1	13	100	0	80	40	15	15	30	1.87
539510--539563	24	2.3	24	93	3	92	29	33	3	33	1.75
540790--541602	428	1.9	429	88	2	1224	25	20	24	29	1.99
543347--543417	2	35.5	2	88	0	106	50	5	0	43	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543787--543816	9	3.2	9	95	4	51	0	13	0	86	0.57
545075--545580	32	15.8	32	92	1	773	16	17	33	31	1.93
545559--546392	27	30.2	27	87	4	1030	28	14	33	23	1.94
545559--546392	55	15.1	54	89	3	1182	28	14	33	23	1.94
545559--546392	109	7.5	108	89	3	1182	28	14	33	23	1.94
551029--551059	12	2.6	12	94	0	53	87	3	9	0	0.66
552064--552586	55	9.3	55	84	7	615	27	27	20	24	1.99
552064--552586	116	4.7	110	82	6	622	27	27	20	24	1.99
552088--552587	171	2.9	170	92	2	812	27	27	20	24	1.99
552431--552513	27	3.0	28	64	22	75	28	31	20	19	1.97

Tables:   1   2   3   4   5   6   7   8