genome.fa.s301.2.7.7.80.10.50.1000.3.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: Scaffold301
Parameters: 2 7 7 80 10 50 1000
Length:  562684

Tables:   1   2   3   4   

This is table  3  of  4  ( 407 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)
350057--350095	20	2.0	19	95	5	69	30	10	23	35	1.88
350893--350917	13	1.9	13	100	0	50	36	16	16	32	1.90
350872--350936	33	2.0	32	88	8	96	30	15	15	38	1.88
350904--350960	20	2.9	20	86	2	80	38	14	15	31	1.87
350902--350960	19	3.1	19	85	2	82	38	15	15	30	1.88
351004--351065	13	5.2	13	71	28	66	41	14	14	29	1.85
351008--351085	33	2.4	33	97	0	147	39	12	16	30	1.86
351021--351086	20	3.7	19	73	26	72	39	12	16	31	1.85
353411--353490	36	2.2	38	84	11	112	37	11	17	33	1.85
360721--360781	28	2.2	28	100	0	122	44	16	8	31	1.77
364852--364915	28	2.3	28	94	0	110	28	14	15	42	1.86
370342--370374	4	8.5	4	93	6	59	72	0	0	27	0.85
370345--370374	15	2.0	15	100	0	60	73	0	0	26	0.84
370840--370869	4	7.5	4	92	0	51	23	0	3	73	0.98
371125--371229	7	14.9	7	67	13	63	37	0	0	61	1.02
371132--371219	22	3.8	22	71	24	65	37	0	1	61	1.04
371123--371250	21	6.0	21	74	12	73	39	0	0	60	1.03
371154--371228	27	2.7	28	76	15	84	38	0	0	61	0.96
371183--371227	23	2.0	22	86	4	63	37	0	0	62	0.96
371191--371246	23	2.3	24	82	11	62	41	0	0	58	0.98
371177--371250	32	2.3	33	81	11	91	41	0	0	58	0.98
371225--371267	21	2.2	21	84	12	56	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371600--371647	24	1.9	24	83	8	60	50	0	2	47	1.12
372360--372418	30	2.0	30	86	6	84	49	1	1	47	1.21
372828--372872	21	2.1	21	84	12	56	44	4	0	51	1.21
373534--373570	19	1.9	19	94	0	65	24	21	13	40	1.89
377926--377961	17	2.0	17	89	10	54	66	5	19	8	1.38
377926--377961	18	1.9	19	88	5	56	66	5	19	8	1.38
377706--378099	201	2.0	199	96	1	725	36	15	13	35	1.86
380379--380609	80	2.9	77	80	9	229	39	10	20	29	1.87
383102--383156	20	2.8	20	76	15	60	30	12	9	47	1.73
383983--384128	42	3.4	42	78	4	139	47	8	21	21	1.77
383972--384150	42	4.2	42	74	8	130	45	9	22	22	1.81
384157--384699	61	9.0	61	78	10	528	35	19	20	24	1.96
384139--384499	62	5.8	62	87	1	492	35	19	21	23	1.96
384455--384548	49	1.9	49	93	0	161	41	15	22	20	1.90
384170--384668	172	2.8	173	86	5	664	35	19	21	24	1.95
384717--384796	32	2.6	30	82	7	106	33	15	25	26	1.95
390914--390969	28	2.0	29	89	3	87	33	7	25	33	1.83
390897--391176	78	3.6	76	77	11	275	38	10	22	29	1.86
390900--391176	76	3.6	76	80	8	278	38	10	22	29	1.87
390900--391179	156	1.8	153	86	6	404	37	10	21	29	1.87
393683--393735	20	2.7	20	88	2	81	28	22	7	41	1.81
396676--396748	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396694--396769	21	3.7	21	80	3	100	42	11	17	28	1.84
396676--396769	41	2.3	41	98	0	179	39	12	18	29	1.88
396808--396833	13	2.0	13	100	0	52	38	15	15	30	1.88
400892--400922	15	2.1	15	93	0	53	48	16	22	12	1.80
402945--403022	20	3.6	21	73	15	70	28	14	14	43	1.83
403011--403035	13	1.9	13	100	0	50	32	20	16	32	1.94
405479--405551	20	3.6	20	81	3	101	35	13	19	31	1.91
405497--405572	21	3.7	21	80	3	100	42	11	17	28	1.84
405479--405572	41	2.3	41	98	0	179	39	12	18	29	1.88
405611--405636	13	2.0	13	100	0	52	38	15	15	30	1.88
411222--411260	20	1.9	21	94	5	71	38	15	20	25	1.92
411280--411332	19	2.7	19	85	2	61	39	11	13	35	1.80
411380--411409	13	2.3	13	94	0	51	36	16	10	36	1.82
411524--411567	21	2.1	21	100	0	88	54	22	9	13	1.67
418045--418099	20	2.8	20	82	0	65	23	38	27	10	1.88
419560--419612	22	2.4	22	75	9	63	41	5	20	32	1.76
420208--420246	20	1.9	21	84	5	53	41	17	17	23	1.91
422873--423115	97	2.5	97	86	0	360	27	29	13	30	1.94
427826--427869	16	2.7	17	80	20	58	68	11	15	4	1.36
427811--427853	22	1.9	23	85	4	61	72	11	11	4	1.27
429174--429494	27	11.7	27	82	6	344	26	31	13	29	1.94
429173--430643	28	51.4	27	81	7	311	28	28	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429173--429494	55	5.9	54	81	5	344	26	31	13	29	1.94
429174--429494	82	3.9	81	84	5	385	26	31	13	29	1.94
429582--430529	57	16.3	64	80	9	446	28	28	18	24	1.98
429499--430880	85	16.0	84	81	6	1279	28	28	18	24	1.98
429501--430897	113	12.1	113	81	5	1214	28	28	18	24	1.98
429500--430897	28	48.5	28	82	5	1235	28	28	18	24	1.98
433869--434108	96	2.5	97	85	2	331	29	28	11	30	1.91
435465--435539	20	3.8	20	83	0	105	32	16	13	38	1.87
442627--442668	21	1.9	23	90	9	70	21	26	19	33	1.97
451580--451697	51	2.3	51	89	0	182	37	7	22	32	1.83
451459--451779	130	2.5	128	88	4	443	36	9	22	30	1.87
455313--455360	22	2.2	22	85	7	62	0	12	31	56	1.37
455369--455439	22	3.2	22	79	15	83	0	18	38	43	1.50
455387--455481	13	7.4	13	74	9	79	3	15	33	47	1.62
455608--455658	26	2.0	25	85	14	68	5	15	9	68	1.36
456065--456127	3	21.7	3	81	18	80	31	0	0	68	0.90
457086--457141	19	2.9	19	89	2	85	30	17	14	37	1.90
458772--458797	13	2.0	13	100	0	52	38	15	15	30	1.88
462863--462893	15	2.1	15	93	0	53	48	16	22	12	1.80
464975--465000	13	2.0	13	100	0	52	30	15	15	38	1.88
465121--465166	21	2.2	20	81	11	58	32	19	4	43	1.71
467531--467556	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469546--470102	260	2.1	258	86	6	768	28	10	12	48	1.75
472838--473417	165	3.5	165	84	4	701	29	12	7	50	1.67
473907--473936	13	2.3	13	94	0	51	73	0	26	0	0.84
473926--473965	10	3.8	11	84	15	50	65	0	25	10	1.24
474447--474527	42	1.9	42	97	0	153	37	12	23	27	1.90
475355--475425	19	3.7	19	84	1	88	40	14	15	29	1.86
476119--476144	13	2.0	13	100	0	52	38	15	15	30	1.88
476101--476164	32	2.0	33	90	3	103	39	18	14	28	1.90
477382--477438	13	3.9	13	72	24	51	35	12	17	35	1.87
477362--477459	32	3.0	32	93	1	169	34	11	17	36	1.85
477360--477457	19	5.8	18	69	28	81	33	11	17	37	1.85
477520--477648	52	2.5	52	100	0	258	35	18	17	27	1.94
488926--489187	130	2.0	130	96	0	479	29	16	20	33	1.94
490336--490417	40	2.0	40	95	0	146	26	8	23	41	1.83
494445--494507	32	1.9	33	84	9	85	31	19	12	36	1.89
500135--500199	19	3.7	19	71	23	70	40	16	10	32	1.84
500128--500197	32	2.2	32	94	0	122	38	17	11	32	1.85
500235--500273	21	1.9	20	94	5	69	35	12	15	35	1.86
500923--502107	101	11.9	101	88	4	1562	32	18	26	23	1.97
501874--502107	91	2.5	92	88	6	337	32	18	25	23	1.97
502180--502423	35	7.8	30	78	15	169	31	14	31	22	1.94
502175--502420	97	2.6	92	82	9	289	31	14	32	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502200--502394	63	3.0	63	80	10	205	33	13	31	20	1.92
502175--502426	62	4.0	62	76	13	207	32	14	31	21	1.93
503726--503784	12	5.2	12	76	15	56	0	0	15	84	0.62
503712--503784	14	4.9	14	82	11	83	1	0	15	83	0.71
503724--503776	26	2.0	26	88	7	79	0	0	13	86	0.56
505399--505499	32	3.1	32	94	1	175	36	11	15	35	1.85
505397--505494	19	5.8	18	68	28	72	35	12	15	36	1.85
505451--505475	13	1.9	13	100	0	50	36	16	16	32	1.90
505399--505527	65	2.0	65	82	8	156	38	13	14	32	1.86
508178--509061	440	2.0	440	100	0	1768	30	23	18	27	1.97

Tables:   1   2   3   4