genome.fa.s396.2.7.7.80.10.50.1000.4.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: Scaffold396
Parameters: 2 7 7 80 10 50 1000
Length:  560635

Tables:   1   2   3   4   

This is table  4  of  4  ( 452 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)
473439--473506	21	3.5	18	73	15	64	44	0	0	55	0.99
473981--474024	18	2.5	17	82	7	61	36	0	0	63	0.95
474912--474941	15	1.9	16	93	6	53	36	0	3	60	1.14
477586--477624	15	2.6	16	88	8	55	48	0	5	46	1.24
477592--477625	16	2.2	15	89	5	50	55	0	5	38	1.24
478362--478403	21	2.0	21	86	4	59	52	0	0	47	1.00
479820--479866	23	2.0	24	83	4	60	46	0	0	53	1.00
480864--480926	25	2.5	25	84	5	74	66	1	4	26	1.20
480897--480988	39	2.3	39	82	14	116	55	0	1	43	1.07
480916--480985	21	3.5	21	66	28	53	50	0	1	48	1.09
480897--480993	41	2.4	40	79	16	112	55	0	1	43	1.06
480943--481104	24	6.1	27	71	20	103	53	1	0	43	1.16
480890--481036	11	14.5	11	65	26	67	55	0	0	43	1.04
480996--481032	13	3.0	13	80	11	51	54	0	0	45	1.00
480894--481073	67	2.6	70	77	16	178	56	0	1	42	1.11
482405--482438	13	2.6	13	85	0	50	35	0	0	64	0.94
482428--482483	19	2.9	19	75	21	62	39	0	3	57	1.16
482501--482532	10	3.1	11	91	8	50	31	0	0	68	0.90
483724--483755	6	5.3	6	96	0	55	43	0	3	53	1.16
487984--488025	17	2.5	17	88	7	59	45	0	4	50	1.23
487998--488040	17	2.5	17	88	0	59	44	0	2	53	1.13
488638--488664	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490781--490811	15	2.1	15	93	0	53	45	0	3	51	1.17
492004--492044	21	2.0	21	90	0	64	48	2	0	48	1.14
492012--492076	21	3.1	21	78	8	62	47	3	0	49	1.17
492141--492186	21	2.2	21	84	7	58	39	0	4	56	1.19
493370--493463	47	2.0	47	89	0	143	45	9	5	39	1.59
493478--493524	21	2.2	21	85	7	60	65	0	2	31	1.04
494813--494856	21	2.1	21	82	0	52	36	0	0	63	0.95
494824--494853	15	2.0	15	100	0	60	33	0	0	66	0.92
494818--494867	21	2.4	21	80	3	57	40	2	0	58	1.10
495028--495079	24	2.0	27	85	10	74	67	1	0	30	1.02
495344--495386	15	2.9	14	80	10	50	39	0	2	58	1.11
495359--495406	20	2.3	20	86	13	62	39	0	4	56	1.19
495359--495406	22	2.3	22	85	7	64	39	0	4	56	1.19
495444--495480	11	3.5	11	78	14	51	35	0	0	64	0.94
495431--495482	25	2.0	25	85	11	68	38	0	0	61	0.96
495437--495510	19	4.0	19	78	16	75	32	0	0	67	0.91
495448--495510	25	2.5	25	79	7	74	30	0	0	69	0.88
495454--495506	15	3.5	15	82	10	72	30	0	0	69	0.88
504957--504994	19	1.9	19	94	5	67	21	5	5	68	1.29
505254--505281	14	2.0	14	100	0	56	64	0	0	35	0.94
505254--505287	14	2.3	15	90	10	52	64	0	0	35	0.94
505979--506062	36	2.5	34	79	11	93	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505994--506072	38	2.1	36	84	9	97	50	0	0	49	1.00
508858--509111	93	2.7	92	76	4	260	29	14	18	37	1.90
509926--509980	27	2.0	27	100	0	110	18	23	25	32	1.97
510235--510266	15	2.1	15	94	0	55	43	6	6	43	1.54
510851--511015	82	2.0	82	85	1	224	29	6	14	49	1.68
512705--512741	3	12.3	3	100	0	74	67	0	32	0	0.91
516113--516146	18	1.9	17	88	5	50	58	0	0	41	0.98
517718--517913	54	3.6	54	88	0	266	24	26	30	18	1.98
517676--517908	108	2.2	108	83	0	286	24	27	29	18	1.98
518797--518834	19	2.1	18	90	5	58	36	2	0	60	1.11
522065--522248	87	2.1	87	97	1	352	39	4	4	52	1.41
522311--522367	30	1.9	30	82	3	71	36	0	1	61	1.07
523944--524038	42	2.3	42	96	0	172	29	17	20	32	1.96
523963--524029	21	3.2	21	68	16	66	34	14	19	31	1.92
524181--524332	39	3.9	39	72	8	121	43	1	9	45	1.47
524505--524814	92	3.4	92	91	1	477	42	6	15	35	1.74
524666--524969	158	1.9	158	83	2	396	42	9	14	33	1.78
530140--530214	22	3.4	21	73	14	62	62	4	1	32	1.22
530504--530555	22	2.4	22	83	6	61	40	0	0	59	0.97
530556--530615	22	2.9	21	80	7	68	65	0	0	35	0.93
530712--530802	36	2.6	35	72	17	91	46	0	0	53	1.00
537466--537554	30	3.0	30	78	3	92	48	2	12	37	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537832--537900	33	2.1	33	91	0	111	39	7	2	50	1.45
537890--537919	13	2.3	13	94	0	51	56	6	3	33	1.42
538831--538876	23	2.0	23	86	0	65	28	39	10	21	1.87
542935--542984	12	4.3	12	76	23	54	52	2	0	46	1.12
542944--542984	20	2.0	20	100	0	82	56	0	0	43	0.99
544319--544345	13	2.1	13	100	0	54	37	14	14	33	1.88
545408--545456	22	2.2	22	100	0	98	34	42	0	22	1.54
545380--545504	56	2.3	55	94	1	214	41	37	0	20	1.53
545430--545497	34	2.0	34	100	0	136	41	38	0	20	1.53
550202--550332	22	5.9	22	72	21	94	40	38	0	21	1.53
550173--550284	56	2.0	56	96	0	206	39	39	0	21	1.54
550224--550325	34	3.0	34	98	0	195	41	39	0	19	1.52
551474--551524	16	3.1	16	74	23	52	56	3	0	39	1.18
551451--551497	19	2.5	19	76	10	51	57	0	0	42	0.98
551506--551548	11	3.8	11	80	17	52	58	4	0	37	1.19
551461--551557	29	3.3	29	72	16	85	58	3	0	38	1.14
551887--551920	12	2.8	12	90	0	50	35	8	11	44	1.72
552212--552255	2	22.0	2	95	0	79	47	0	2	50	1.13
553238--553277	21	1.9	21	89	0	62	75	2	0	22	0.93
553539--553569	3	10.3	3	100	0	62	67	0	0	32	0.91
554345--554374	3	10.0	3	92	0	51	36	0	0	63	0.95
554544--554583	2	20.0	2	100	0	80	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554637--554680	2	22.0	2	100	0	88	50	0	0	50	1.00
554892--554945	24	2.4	22	76	17	58	38	0	0	61	0.96
554900--554956	24	2.4	24	80	13	64	40	0	0	59	0.97
559224--559262	10	3.9	10	87	9	53	23	2	5	69	1.21

Tables:   1   2   3   4

The End!