genome.fa.s438.2.7.7.80.10.50.1000.3.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: Scaffold438
Parameters: 2 7 7 80 10 50 1000
Length:  1141244

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 809 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)
406645--407040	197	2.0	199	94	1	706	32	11	21	35	1.88
405747--407461	681	2.5	680	94	0	2937	30	10	20	38	1.86
406844--409356	485	5.2	485	87	3	3484	30	10	19	39	1.86
406844--410202	971	3.5	963	85	5	4239	29	10	20	39	1.86
408912--409790	435	2.0	435	89	2	1327	30	10	19	39	1.85
410586--410981	197	2.0	199	95	1	715	32	10	21	35	1.88
411267--411663	198	2.0	199	95	1	708	31	10	21	35	1.88
410369--412084	681	2.5	681	94	0	2984	30	10	20	38	1.86
411466--414083	486	5.4	485	86	3	3607	30	10	19	39	1.86
413912--414280	197	1.9	197	88	2	562	31	11	21	35	1.89
415649--419476	485	7.9	486	87	3	5326	30	10	19	39	1.85
414084--419476	970	5.6	968	86	4	7064	30	10	19	39	1.85
421729--421771	20	2.0	20	86	8	59	39	11	4	44	1.62
423501--423550	21	2.4	21	83	9	59	48	0	20	32	1.50
423508--423550	21	2.0	22	86	4	61	51	0	20	27	1.48
425264--425290	13	2.1	13	100	0	54	29	14	14	40	1.86
425245--425309	32	2.0	33	87	3	96	26	15	16	41	1.88
425274--425330	19	2.9	19	89	2	87	31	15	17	35	1.92
425360--425397	20	1.9	20	88	0	58	34	10	15	39	1.82
425380--425405	13	2.0	13	100	0	52	30	15	15	38	1.88
425359--425425	33	2.0	32	86	11	91	37	11	16	34	1.85
425393--425445	20	2.7	20	100	0	106	41	11	18	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431592--431620	13	2.2	13	100	0	58	27	13	17	41	1.87
433469--433521	19	2.5	22	76	17	67	37	1	37	22	1.65
433480--433533	19	2.9	19	80	2	65	33	1	31	33	1.69
434083--434123	20	2.0	21	95	4	75	34	12	19	34	1.89
434168--434198	13	2.4	13	94	0	53	35	16	12	35	1.87
434152--434218	33	2.0	32	88	11	100	35	13	17	32	1.89
438688--438756	32	2.1	33	94	2	122	36	17	11	34	1.86
438712--438736	13	1.9	13	100	0	50	32	16	16	36	1.90
439355--439983	52	13.1	49	82	9	721	31	17	26	24	1.97
439571--439988	43	9.1	43	77	12	422	29	17	27	25	1.97
439572--439639	21	3.2	20	66	25	50	29	16	27	26	1.97
439519--439988	92	5.1	92	91	1	715	30	17	27	25	1.97
439976--440151	32	5.5	32	89	5	268	18	17	35	28	1.94
440153--440411	33	7.6	33	76	8	182	35	13	31	19	1.91
440153--440454	36	8.9	34	76	12	200	34	13	31	19	1.91
440254--440449	67	2.9	68	75	10	188	34	14	31	19	1.92
440153--440452	102	3.0	96	74	15	270	34	14	31	20	1.92
448709--448836	52	2.5	52	94	0	220	28	19	16	35	1.94
448845--448869	13	1.9	13	100	0	50	36	16	16	32	1.90
448907--448975	32	2.1	33	94	2	122	36	17	11	34	1.86
448931--448955	13	1.9	13	100	0	50	32	16	16	36	1.90
454035--461591	974	7.9	971	86	4	10420	30	10	19	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454035--457617	487	7.4	486	86	2	4846	30	10	19	39	1.85
457616--461591	486	8.2	485	87	2	5479	30	9	19	39	1.85
461240--461942	353	2.0	354	86	3	995	31	10	20	37	1.86
461587--463060	487	3.0	482	86	2	2033	29	9	20	39	1.85
463083--466197	486	6.5	486	89	2	4406	29	9	20	39	1.84
463083--466197	962	3.2	965	87	3	4403	29	9	20	39	1.84
465899--466490	295	2.0	293	85	1	801	30	11	20	38	1.88
465425--466891	770	1.9	765	87	3	2145	29	9	20	39	1.85
468003--468056	13	4.3	13	81	4	58	87	9	3	0	0.67
468003--468072	9	7.4	9	84	7	68	84	7	8	0	0.78
468003--468072	21	3.1	22	80	8	70	84	7	8	0	0.78
468045--468074	15	1.9	16	93	6	53	80	0	20	0	0.72
469072--469182	55	2.0	55	92	0	186	27	30	20	20	1.98
469193--469695	61	8.4	61	85	3	523	26	26	20	26	1.99
469221--469695	123	3.9	123	84	4	542	26	26	20	26	1.99
470332--470361	13	2.3	13	100	0	60	30	16	13	40	1.87
470335--470432	42	2.3	42	98	0	187	26	17	19	36	1.94
478461--478696	47	5.1	47	72	8	196	16	19	33	29	1.94
478455--478631	90	2.0	90	86	2	248	15	19	33	31	1.93
478829--478871	16	2.7	16	92	7	70	6	27	16	48	1.71
480016--481077	42	25.3	42	80	5	929	38	17	28	14	1.90
480026--481077	84	12.5	83	83	2	1104	38	17	28	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480026--481077	126	8.3	126	82	2	1123	38	17	28	14	1.90
486020--486395	79	4.8	78	81	10	394	32	14	25	27	1.94
486020--486395	158	2.4	157	82	8	469	32	14	25	27	1.94
487940--487998	13	5.1	13	71	26	60	28	13	15	42	1.85
487951--488038	19	4.9	19	76	17	89	30	14	15	38	1.88
487940--488017	32	2.4	32	97	0	147	28	14	15	42	1.85
494280--494306	13	2.1	13	100	0	54	29	14	14	40	1.86
496809--496835	13	2.1	13	100	0	54	29	14	14	40	1.86
498738--498824	20	4.7	19	75	18	78	45	12	12	28	1.79
498738--498807	33	2.1	33	91	0	113	44	12	14	28	1.82
498758--498787	13	2.3	13	94	0	51	43	13	13	30	1.82
499447--499707	42	6.0	44	70	12	157	43	11	25	19	1.85
499702--500349	123	5.3	123	85	3	867	30	20	26	23	1.99
499702--500349	62	10.5	62	86	2	862	30	20	26	23	1.99
501344--501377	14	2.3	15	90	5	52	2	2	8	85	0.80
501327--501380	18	3.0	17	84	10	56	1	7	5	85	0.81
513842--513897	28	1.9	30	85	7	80	32	19	25	23	1.98
513721--514103	79	4.9	76	79	8	356	34	15	23	27	1.94
513721--514103	157	2.4	158	79	8	368	34	15	23	27	1.94
520325--520449	52	2.4	52	89	0	187	28	17	17	36	1.93
520325--520469	52	2.8	52	86	2	166	30	17	17	34	1.93
520458--520482	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520521--520642	13	8.0	13	67	28	55	34	16	13	36	1.87
520535--520663	19	7.7	19	67	28	96	35	17	11	35	1.86
520522--520662	32	4.4	32	93	0	237	34	17	12	35	1.87
529413--529595	47	3.9	47	88	0	258	15	21	36	26	1.93
530275--530335	31	2.0	31	93	0	104	18	26	19	36	1.94
533862--533980	52	2.3	52	95	0	211	29	17	19	33	1.95
533860--534000	52	2.7	51	87	4	203	30	17	19	32	1.95
533989--534013	13	1.9	13	100	0	50	36	16	16	32	1.90
534079--534103	13	1.9	13	100	0	50	32	16	16	36	1.90
534057--534123	33	2.0	33	88	0	98	40	13	11	34	1.81
536342--536438	50	1.9	50	91	0	158	25	20	14	39	1.91
536449--536502	20	2.7	20	82	8	65	35	16	7	40	1.77
541087--541122	18	2.1	18	94	5	65	0	19	0	80	0.71
541653--542126	168	2.8	166	80	6	496	47	9	11	31	1.73
544348--544401	20	2.7	20	82	5	65	64	1	20	12	1.36
545337--545375	20	1.9	21	94	5	71	30	10	12	46	1.75
545409--545460	19	2.7	20	87	6	79	28	13	15	42	1.85
546094--546189	42	2.3	42	81	0	102	34	19	19	26	1.96
546599--546659	28	2.2	28	93	0	104	52	3	9	34	1.51
550238--550459	94	2.4	94	87	5	301	40	13	12	32	1.83
555311--555346	18	2.0	18	94	0	63	13	16	16	52	1.74
563648--563830	91	2.0	91	98	0	357	27	14	24	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572705--572745	2	20.5	2	89	0	64	43	0	4	51	1.23
573987--574022	12	3.2	12	77	22	51	41	44	5	8	1.58
573980--574022	21	2.0	21	95	0	77	39	44	4	11	1.62
575063--575126	30	2.1	30	91	0	101	3	10	46	39	1.55
575063--575142	30	2.8	28	81	5	81	3	11	45	40	1.58
575063--575183	57	2.1	57	81	3	136	7	11	45	35	1.69
575119--575196	30	2.6	30	87	0	111	10	8	48	32	1.68
575995--576034	4	10.0	4	88	0	62	25	5	22	47	1.71
576523--576607	44	1.9	44	87	0	125	50	4	0	44	1.22
576478--576619	44	3.1	44	72	11	124	52	2	0	44	1.21

Tables:   1   2   3   4   5   6   7