genome.fa.s90.2.7.7.80.10.50.1000.5.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: Scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1653315

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1200 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)
628478--628736	104	2.5	104	80	7	269	44	3	6	45	1.47
630216--630250	2	17.5	2	100	0	70	0	51	0	48	1.00
630680--630718	2	19.5	2	100	0	78	51	0	0	48	1.00
630898--630939	23	1.9	21	85	9	57	42	0	4	52	1.22
635682--635797	60	1.9	60	87	0	169	28	13	18	39	1.89
636481--636536	24	2.3	24	85	11	71	78	0	16	5	0.92
642262--642305	2	22.0	2	100	0	88	50	0	0	50	1.00
642935--642971	17	2.1	18	85	14	51	32	8	5	54	1.53
644903--645037	72	1.9	72	81	6	166	23	26	17	32	1.96
644975--645046	36	2.0	36	83	0	90	19	25	19	36	1.95
644995--645096	51	2.0	51	86	0	141	15	23	20	40	1.91
651393--651438	9	5.0	9	89	5	74	0	13	0	86	0.56
651393--651447	7	8.0	7	78	15	53	0	16	0	83	0.64
651401--651445	18	2.6	17	92	3	72	0	15	0	84	0.62
651740--651798	23	2.6	23	74	12	59	54	0	0	45	0.99
651853--651919	30	2.2	30	84	5	91	44	1	1	52	1.19
652185--652270	29	3.0	28	81	8	95	53	2	0	44	1.13
652185--652252	14	4.9	14	72	13	59	55	1	0	42	1.08
652486--652521	18	1.9	19	88	5	56	52	0	0	47	1.00
652497--652564	25	2.8	25	78	10	86	57	0	0	42	0.98
652490--652570	24	3.3	24	68	20	69	53	0	0	46	1.00
652880--652934	9	5.9	10	74	21	57	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652885--652940	30	1.9	28	85	7	76	71	0	0	28	0.86
652881--653043	20	8.1	20	69	25	78	63	1	0	35	1.03
653340--653369	15	2.0	15	93	0	51	76	10	0	13	1.01
653400--653437	17	2.3	17	86	4	51	65	2	0	31	1.06
661375--662056	79	8.6	79	79	5	619	35	12	23	28	1.91
661375--662060	236	2.9	233	83	5	788	35	12	23	28	1.91
661782--661839	27	2.0	29	90	9	93	31	8	27	32	1.87
664438--664492	20	2.8	20	100	0	110	45	14	14	25	1.83
664883--664915	3	11.0	3	93	0	57	33	0	3	63	1.10
665376--666021	45	15.1	44	72	14	293	43	11	24	21	1.85
665232--666048	86	9.7	84	73	12	481	42	11	24	21	1.86
665354--666047	130	5.4	125	72	12	328	42	11	24	21	1.86
665217--666022	212	3.8	211	79	9	718	42	11	24	20	1.86
665781--666044	82	3.2	82	78	5	305	40	13	24	21	1.89
665742--666049	168	1.8	170	86	3	451	40	12	25	21	1.88
666171--666414	44	5.7	43	74	14	229	40	11	27	20	1.88
666171--666436	82	3.2	81	84	8	354	37	13	27	21	1.90
666408--666864	61	7.5	61	84	2	546	29	19	27	24	1.99
666419--666864	123	3.7	123	85	4	582	28	19	26	24	1.99
666412--666869	184	2.5	182	82	4	564	29	19	26	24	1.98
673073--673659	159	3.7	157	84	3	682	32	13	25	28	1.94
673082--673659	79	7.3	78	81	4	615	32	13	25	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676009--676060	20	2.6	20	96	0	95	46	9	17	26	1.79
675979--676111	71	1.9	70	93	1	230	43	14	16	25	1.86
676614--676709	38	2.5	38	88	3	140	40	20	11	27	1.87
679571--679595	13	1.9	13	100	0	50	36	16	16	32	1.90
683500--683576	20	3.9	19	81	8	91	41	11	12	33	1.80
684497--684601	32	3.5	31	86	11	146	22	16	31	29	1.96
684497--684882	56	6.8	58	78	9	189	23	16	30	29	1.96
684557--684874	28	11.3	27	74	10	165	23	16	29	29	1.96
684575--684884	56	5.5	55	77	9	281	24	16	29	29	1.97
684575--684881	83	3.7	84	82	5	336	24	16	29	29	1.97
684925--684975	14	3.7	14	81	2	50	31	21	11	35	1.90
686169--686209	14	3.0	13	85	7	55	0	0	14	85	0.60
686169--686213	23	2.0	23	91	8	74	0	0	17	82	0.68
695326--695367	21	2.0	21	85	0	57	66	7	14	11	1.43
698788--698914	61	2.1	61	95	2	229	41	11	20	25	1.86
699620--699742	20	5.6	20	69	19	84	42	12	13	31	1.82
699664--699742	40	2.0	39	87	2	113	41	12	11	34	1.79
702146--702178	3	11.0	3	93	0	57	33	0	3	63	1.10
703998--704033	3	12.3	3	94	5	65	30	0	0	69	0.89
710766--710795	15	2.0	15	100	0	60	40	26	6	26	1.81
718821--718854	17	2.0	17	88	0	50	0	2	8	88	0.62
719025--719063	12	3.3	12	82	7	53	15	0	5	79	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719034--719083	21	2.5	20	78	12	57	22	0	6	72	1.07
720447--720486	20	2.0	20	90	0	62	42	12	15	30	1.83
722860--723039	97	1.8	98	85	3	256	33	20	8	37	1.83
726345--726408	27	2.5	25	76	16	69	46	21	6	25	1.74
727029--727073	21	2.1	21	88	8	65	57	2	0	40	1.11
726953--727105	68	2.2	68	81	14	174	56	0	0	42	1.09
727018--727781	128	5.9	131	87	8	987	52	1	3	42	1.27
727211--727238	14	2.0	14	100	0	56	64	0	0	35	0.94
727340--727369	15	2.0	15	93	0	51	63	0	0	36	0.95
727602--727631	15	2.0	15	93	0	51	63	0	0	36	0.95
727730--727759	15	2.0	15	93	0	51	63	0	0	36	0.95
728415--728839	93	4.6	94	85	4	508	43	5	15	35	1.71
728415--728839	92	4.6	91	84	6	489	43	5	15	35	1.71
730156--730237	24	3.3	24	67	29	73	28	17	8	46	1.77
730170--730324	20	6.7	20	66	26	76	29	16	10	42	1.83
730170--730327	71	2.2	70	89	1	244	29	16	11	42	1.83
732748--732779	2	16.0	2	93	0	55	46	0	0	53	1.00
733569--733628	32	1.9	31	83	10	77	53	0	0	46	1.00
733569--733612	19	2.3	19	88	4	61	56	0	0	43	0.99
735281--735312	10	3.1	11	86	13	50	34	0	0	65	0.93
745761--745805	13	3.4	13	84	3	54	84	11	0	4	0.76
745752--745785	16	2.2	16	89	5	52	88	5	2	2	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
745753--745805	21	2.5	21	81	3	61	83	11	1	3	0.87
747102--747862	28	26.6	29	84	5	835	28	29	17	24	1.97
747100--747862	113	6.7	113	83	5	851	28	29	17	24	1.97
747799--747918	63	1.9	63	86	6	172	30	30	17	21	1.96
749507--749584	31	2.6	30	83	6	95	25	16	12	44	1.83
752268--752349	30	3.3	24	67	29	64	26	17	10	45	1.81
752271--752416	50	2.9	51	90	2	240	28	16	10	45	1.80
755756--755796	14	2.7	15	85	7	57	48	4	2	43	1.37
755872--755901	15	2.0	15	93	0	51	36	0	0	63	0.95
755875--756236	133	2.7	132	87	5	500	40	2	2	54	1.29
756130--756172	21	2.0	21	86	0	59	32	2	0	65	1.06
756426--756464	14	2.9	14	84	3	53	51	0	7	41	1.31
761608--761649	18	2.5	17	80	7	50	54	0	4	40	1.21
762503--762547	12	3.9	12	75	18	51	31	0	2	66	1.04
762654--762706	26	2.1	25	85	3	70	60	0	0	39	0.97
765757--765841	19	4.7	18	73	25	72	34	14	16	35	1.89
765798--765822	13	1.9	13	100	0	50	36	16	16	32	1.90
765779--765849	32	2.2	32	94	0	124	30	12	19	36	1.89
779787--779882	4	23.8	4	80	10	81	80	17	2	0	0.81
783981--784109	52	2.5	52	94	0	231	31	17	16	35	1.92
784118--784142	13	1.9	13	100	0	50	36	16	16	32	1.90
785050--785223	49	3.5	49	77	2	150	25	21	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
785129--785519	113	3.7	105	81	9	381	23	26	15	33	1.95
785245--785519	102	2.7	101	84	6	365	23	26	17	33	1.96
785245--785490	52	4.9	49	80	6	242	23	25	18	32	1.97
786170--786240	19	3.7	19	82	14	83	33	14	15	36	1.87
786294--786320	13	2.1	13	100	0	54	29	14	18	37	1.91
790890--790933	16	2.8	16	93	3	72	13	18	27	40	1.88
790911--790972	31	2.0	32	90	3	99	16	20	24	38	1.92
792346--792473	2	64.0	2	89	6	98	38	0	12	49	1.41
793447--793491	16	2.8	16	86	0	63	2	6	37	53	1.40
793497--793535	16	2.4	17	83	12	55	25	15	15	43	1.86

Tables:   1   2   3   4   5   6   7   8   9   10