genome.fa.s333.2.7.7.80.10.50.1000.3.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: Scaffold333
Parameters: 2 7 7 80 10 50 1000
Length:  853475

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 617 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)
363503--363567	32	2.0	32	90	3	103	40	16	16	26	1.90
365768--365821	20	2.7	20	88	5	74	37	16	14	31	1.89
365892--365916	13	1.9	13	100	0	50	40	16	16	28	1.89
366490--366546	30	1.9	30	92	3	98	29	22	8	38	1.85
366491--366553	29	2.1	30	85	2	83	33	20	6	39	1.78
367085--367132	21	2.4	21	86	6	64	45	0	20	33	1.52
367249--367288	13	3.1	13	81	0	53	40	10	12	37	1.77
373378--373473	18	5.3	18	78	9	115	37	13	12	36	1.83
373378--373485	36	3.0	36	95	0	198	37	13	12	35	1.84
373521--373545	13	1.9	13	100	0	50	32	16	16	36	1.90
373594--373649	19	2.9	19	91	2	85	35	16	17	30	1.92
373634--373660	13	2.1	13	100	0	54	40	14	14	29	1.86
377173--377457	147	1.9	149	83	9	370	41	13	10	35	1.78
378363--378403	12	3.4	12	78	21	50	9	17	0	73	1.09
378370--378428	20	2.8	20	78	12	57	5	23	0	71	1.06
379025--379697	165	4.0	166	82	5	666	53	9	9	28	1.63
386471--386509	20	2.0	20	84	0	51	46	5	5	43	1.48
394266--394392	57	2.2	57	95	2	229	31	7	16	44	1.74
394967--395015	21	2.3	21	82	0	53	53	6	6	34	1.51
395190--395266	22	3.5	22	75	8	61	55	6	5	32	1.47
395578--395727	53	2.8	54	85	3	207	38	4	2	54	1.35
395992--396348	51	6.9	52	86	6	449	40	0	4	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395992--396348	105	3.4	101	84	10	420	40	0	4	54	1.26
398304--398350	2	24.0	2	82	4	60	46	2	2	48	1.25
400620--400695	27	2.8	28	89	2	109	22	21	35	21	1.96
400670--400801	51	2.5	53	86	6	171	33	11	25	30	1.91
403169--403194	13	2.0	13	100	0	52	38	15	15	30	1.88
403148--403214	33	2.0	33	88	0	98	43	16	14	25	1.86
403234--403301	19	3.9	18	76	23	83	38	14	11	35	1.83
403256--403280	13	1.9	13	100	0	50	32	16	16	36	1.90
403237--403299	32	2.0	32	96	0	117	36	15	12	34	1.86
403337--403392	21	2.7	21	100	0	112	35	21	10	32	1.88
404138--404907	55	14.0	54	87	7	968	22	20	28	28	1.98
404138--404903	110	6.9	110	90	4	1095	22	20	28	28	1.98
404138--404907	165	4.7	163	89	4	1070	22	20	28	28	1.98
404405--404545	28	5.1	27	64	15	74	21	19	30	28	1.98
409870--409903	17	2.0	17	88	0	50	5	26	17	50	1.69
416413--416488	27	2.8	28	90	6	111	23	21	34	21	1.97
416463--416605	51	2.7	52	83	3	180	33	10	25	30	1.90
418963--418988	13	2.0	13	100	0	52	38	15	15	30	1.88
418942--419008	33	2.0	33	88	0	98	43	14	14	26	1.85
419028--419082	19	2.9	19	97	0	101	40	14	10	34	1.81
419118--419174	21	2.7	21	94	0	96	35	17	10	36	1.84
419918--420851	55	17.0	55	88	5	1304	22	20	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419918--420847	274	3.4	274	92	3	1428	22	20	28	28	1.98
421862--421921	1	60.0	1	76	0	57	0	3	8	88	0.62
421862--421913	11	4.6	11	84	13	70	0	1	9	88	0.59
421862--421921	20	2.8	21	87	7	77	0	3	8	88	0.62
427137--427175	21	1.9	20	94	5	69	35	12	15	35	1.86
429486--429524	21	1.9	20	94	5	69	35	15	12	35	1.86
429654--429730	20	3.8	20	78	13	84	36	12	9	41	1.75
435068--435121	8	6.8	8	77	14	58	83	12	1	1	0.81
435068--435118	26	2.0	25	85	14	68	82	13	1	1	0.85
435077--435123	17	2.8	17	83	6	51	80	10	4	4	0.98
435084--435139	22	2.4	23	76	11	60	73	14	7	5	1.23
436265--436409	58	2.5	58	85	3	186	26	33	13	26	1.93
436288--436399	28	3.9	30	73	18	105	25	35	12	26	1.91
436388--436450	34	1.9	32	84	9	83	19	28	15	36	1.92
436458--437049	33	18.7	32	71	13	368	21	29	11	38	1.88
436607--436786	59	3.0	60	80	11	190	21	32	13	33	1.92
436568--436987	92	4.5	92	74	12	241	20	28	11	39	1.88
436547--436858	124	2.5	123	80	9	328	20	28	12	37	1.89
436574--436892	158	2.0	154	86	6	437	20	29	12	37	1.89
436574--437049	157	3.0	152	76	13	414	20	29	11	38	1.88
436819--437047	124	1.8	124	85	3	327	20	29	10	39	1.86
436998--437126	68	1.9	67	88	4	197	24	29	8	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440171--440212	1	42.0	1	90	0	66	0	95	0	4	0.28
441101--441152	1	52.0	1	100	0	104	0	0	0	100	0.00
449357--449405	1	49.0	1	79	0	53	0	2	8	89	0.55
449348--449397	11	4.5	11	87	9	75	0	2	10	88	0.61
449348--449405	20	2.8	21	89	5	82	0	3	8	87	0.64
449348--449406	17	3.5	17	82	15	70	0	3	10	86	0.68
449331--449405	10	7.0	10	77	20	55	0	9	6	84	0.79
454606--454644	21	1.9	20	94	5	69	35	12	15	35	1.86
456954--456992	21	1.9	20	94	5	69	35	15	12	35	1.86
457122--457198	20	3.8	20	78	13	84	36	12	9	41	1.75
462536--462594	27	2.2	26	82	14	75	84	11	1	1	0.77
462546--462596	18	2.8	18	84	3	57	82	9	3	3	0.93
462536--462575	9	4.3	9	90	3	62	85	15	0	0	0.61
462554--462607	24	2.2	24	80	3	63	75	12	7	3	1.14
463750--463847	30	3.3	29	76	13	101	28	32	12	26	1.92
463780--463880	29	3.4	29	75	12	116	28	34	11	24	1.91
463741--463890	59	2.5	59	90	2	221	27	33	12	26	1.93
463780--463893	29	3.9	28	71	13	95	28	33	13	25	1.93
463960--464019	27	2.2	28	78	6	68	20	28	13	38	1.90
463937--464535	32	18.6	32	70	15	335	20	29	11	38	1.88
464026--464334	65	4.9	62	79	10	231	21	29	12	36	1.90
463952--464408	224	2.0	226	82	5	550	20	29	11	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463989--464536	67	8.5	65	73	13	238	20	29	11	38	1.88
464301--464535	127	1.9	127	88	3	357	20	28	10	40	1.85
463937--464540	160	3.8	160	77	11	521	20	29	11	38	1.88
464050--464665	32	18.9	32	71	11	189	21	29	10	37	1.87
464484--464615	69	1.9	69	92	0	219	23	28	8	40	1.83
464415--464659	69	3.6	69	79	3	205	22	31	8	37	1.85
464661--464745	33	2.7	31	85	10	118	27	34	17	21	1.96
464738--465552	52	16.6	50	71	13	473	26	24	15	33	1.95
464738--465552	95	8.3	98	77	8	360	26	24	15	33	1.95
465090--465552	95	4.9	95	83	1	550	26	23	16	33	1.96
464885--465552	191	3.4	189	81	6	662	26	24	15	33	1.95
465558--465885	88	3.7	89	78	10	298	43	6	14	34	1.72
467616--467641	13	2.0	13	100	0	52	38	15	15	30	1.88
467594--467662	33	2.1	33	91	5	113	31	13	18	36	1.89
467777--467817	20	2.0	20	85	0	55	29	12	19	39	1.88
468202--468248	22	2.1	23	92	7	80	36	25	0	38	1.56
470106--470131	13	2.0	13	100	0	52	38	15	15	30	1.88
475532--475599	33	2.1	32	88	2	100	35	13	16	35	1.87
475659--475683	13	1.9	13	100	0	50	36	16	16	32	1.90
475693--475733	20	2.0	20	90	0	64	26	12	21	39	1.89
476805--476847	14	3.0	14	80	12	52	81	18	0	0	0.69
476786--476838	21	2.5	21	81	9	63	81	13	3	1	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476783--476846	32	2.0	33	87	3	94	81	14	3	1	0.89
478229--478387	30	5.5	29	80	4	169	33	31	15	19	1.93
478215--478400	58	3.2	57	87	4	248	30	30	16	22	1.96
478375--478464	32	2.8	32	89	1	126	21	33	13	32	1.92
478503--478614	35	3.2	35	88	5	154	16	28	11	43	1.82
478505--478629	35	3.6	34	88	3	151	18	28	11	41	1.85
478513--478646	35	3.9	34	84	4	117	19	29	12	38	1.89
478620--478689	30	2.4	28	85	4	86	37	30	15	17	1.91
478704--479082	49	8.0	49	78	8	365	26	24	16	32	1.96
478889--479128	101	2.4	100	82	3	277	23	24	18	33	1.97

Tables:   1   2   3   4   5   6