genome.fa.s393.2.7.7.80.10.50.1000.4.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: Scaffold393
Parameters: 2 7 7 80 10 50 1000
Length:  702984

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 633 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)
408476--408784	17	16.8	18	66	23	80	42	2	2	53	1.27
408730--408821	25	3.8	24	70	21	68	41	0	1	57	1.06
408961--408992	15	2.2	15	94	5	57	37	0	0	62	0.95
408960--408994	14	2.5	13	86	13	52	42	0	0	57	0.99
411211--411254	19	2.3	19	88	0	61	36	15	18	29	1.92
411908--411936	13	2.2	13	100	0	58	37	0	13	48	1.43
411921--411969	22	2.2	22	96	0	89	32	4	12	51	1.58
412583--412727	70	2.1	70	97	0	272	40	19	18	21	1.91
414652--414724	5	15.0	5	81	16	82	34	0	0	65	0.93
414660--414727	29	2.3	29	87	10	93	33	0	0	66	0.92
414649--414724	24	3.1	25	83	12	104	34	0	0	65	0.93
415006--415052	23	2.1	22	84	4	58	59	0	0	40	0.97
415826--415874	15	3.2	15	85	2	62	53	12	8	26	1.66
415833--415890	16	3.7	16	79	6	57	48	17	10	24	1.78
416090--416161	36	2.0	36	81	5	83	51	2	5	40	1.40
416969--417017	2	24.5	2	100	0	98	51	0	0	48	1.00
419181--419322	43	3.3	42	91	3	230	32	21	14	30	1.94
419324--419350	13	2.1	13	100	0	54	40	14	14	29	1.86
419310--419372	33	1.9	33	87	6	92	39	14	15	30	1.87
420117--420142	13	2.0	13	100	0	52	38	15	15	30	1.88
420099--420162	32	2.0	33	87	3	94	40	17	14	28	1.88
424105--424142	13	2.9	13	96	0	67	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426659--426722	32	2.0	33	87	3	94	43	17	10	28	1.82
430958--431009	20	2.7	20	90	3	79	26	13	21	38	1.90
431051--431103	21	2.6	21	84	3	72	30	15	15	39	1.87
431091--431121	13	2.4	13	94	0	53	35	12	16	35	1.87
432290--432359	28	2.5	27	84	6	86	25	18	32	22	1.97
432209--432413	107	1.9	107	86	5	288	29	15	27	27	1.96
432348--432517	52	3.3	52	76	12	161	32	12	25	29	1.93
432525--432602	27	2.9	27	96	0	147	23	19	32	25	1.98
432590--432692	51	2.0	53	84	9	140	34	9	23	32	1.87
435074--435099	13	2.0	13	100	0	52	38	15	15	30	1.88
435053--435119	33	2.0	33	85	0	89	44	16	13	25	1.84
435139--435206	19	3.9	18	76	23	83	38	14	11	35	1.83
435161--435185	13	1.9	13	100	0	50	32	16	16	36	1.90
435142--435204	32	2.0	32	96	0	117	36	15	12	34	1.86
435242--435319	21	3.8	21	86	8	115	32	12	16	38	1.87
435242--435323	41	2.0	40	88	6	121	32	12	17	37	1.86
436062--436856	55	14.3	55	87	6	1072	21	20	29	28	1.98
436108--436197	26	3.3	26	66	19	67	20	18	33	27	1.96
437862--437894	14	2.4	14	95	5	59	0	12	3	84	0.72
437856--437894	15	2.6	15	84	12	53	0	10	5	84	0.76
450299--450499	79	2.5	79	83	4	217	30	15	28	25	1.96
450454--450525	28	2.6	28	88	0	99	23	19	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450514--450683	52	3.3	52	76	12	161	32	12	25	29	1.93
450691--450768	27	2.9	27	98	0	147	23	19	32	25	1.98
450756--450874	51	2.3	53	84	7	145	33	12	22	31	1.91
453241--453266	13	2.0	13	100	0	52	38	15	15	30	1.88
453220--453286	33	2.0	33	88	0	98	43	16	14	25	1.86
453306--453373	19	3.9	18	76	23	83	38	14	11	35	1.83
453328--453352	13	1.9	13	100	0	50	32	16	16	36	1.90
453309--453371	32	2.0	32	96	0	117	36	15	12	34	1.86
453409--453486	21	3.8	21	86	8	115	32	12	16	38	1.87
453409--453490	41	2.0	40	88	6	121	32	12	17	37	1.86
454227--455131	55	16.3	55	87	6	1251	21	20	29	28	1.98
454273--454362	26	3.3	26	66	19	67	20	18	33	27	1.96
456098--456170	17	4.3	17	71	16	53	0	12	5	82	0.83
456131--456170	15	2.6	15	92	4	62	0	10	5	85	0.75
457880--457905	13	2.0	13	100	0	52	38	15	15	30	1.88
457859--457925	33	2.0	33	88	0	98	43	16	14	25	1.86
457945--458012	19	3.9	18	75	23	74	39	14	10	35	1.80
457967--457991	13	1.9	13	100	0	50	32	16	16	36	1.90
457948--458010	32	2.0	32	93	0	108	38	15	11	34	1.83
458048--458149	20	5.1	20	89	4	152	32	11	17	38	1.86
458048--458149	41	2.5	41	90	4	154	32	11	17	38	1.86
458869--458912	21	2.0	21	82	4	52	31	27	2	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460289--460332	20	2.1	21	87	4	63	4	22	50	22	1.67
460774--460811	13	2.9	13	92	0	58	36	18	15	28	1.92
466934--466959	13	2.0	13	100	0	52	30	15	15	38	1.88
466914--466975	33	2.0	30	87	9	88	27	14	19	38	1.90
466914--466975	17	3.8	16	77	22	58	27	14	19	38	1.90
467017--467068	21	2.5	21	81	9	63	28	17	15	38	1.90
478753--478804	8	6.9	7	81	14	50	86	11	1	0	0.65
478753--478804	15	3.4	15	89	7	70	86	11	1	0	0.65
478752--478805	24	2.3	23	90	3	81	87	11	1	0	0.63
478752--478797	8	5.6	8	85	14	67	86	13	0	0	0.56
479874--480130	61	4.5	54	78	10	190	26	26	21	26	1.99
479901--480378	61	7.8	60	76	13	406	24	26	19	29	1.99
480015--480383	121	2.8	135	80	8	387	24	25	20	30	1.98
480143--480383	60	4.0	60	82	8	265	24	25	20	29	1.99
479955--480314	195	1.9	194	91	1	596	24	26	19	29	1.98
481336--481378	20	2.1	21	86	4	61	30	13	13	41	1.84
483776--483914	52	2.7	49	79	9	143	30	26	10	32	1.90
483854--484075	75	2.9	76	85	7	288	29	29	13	27	1.95
483802--484172	205	1.8	206	80	6	448	29	26	12	31	1.93
484137--484249	51	2.2	51	84	4	147	35	24	8	30	1.86
483933--484284	130	2.7	126	75	11	331	30	26	12	30	1.92
488296--488334	16	2.4	17	87	8	55	48	0	12	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488699--488933	122	1.9	123	86	0	337	35	8	4	52	1.51
489008--489054	23	2.0	23	100	0	94	38	4	17	40	1.69
489012--489066	23	2.3	23	87	3	74	40	9	12	38	1.75
489077--489179	39	2.7	38	84	4	136	52	2	18	26	1.59
489371--489422	22	2.4	22	87	12	72	46	0	1	51	1.12
489385--489435	21	2.3	21	83	12	59	52	0	0	47	1.00
489387--489475	37	2.4	38	77	3	101	46	0	0	53	1.00
490815--490843	2	14.5	2	100	0	58	48	0	0	51	1.00
492332--492384	26	2.3	23	84	15	65	64	7	0	28	1.21
493391--493420	10	3.0	10	95	0	51	66	0	0	33	0.92
494735--494760	13	2.0	13	100	0	52	30	15	15	38	1.88
495401--495486	39	2.2	40	80	2	102	32	25	4	37	1.77
497162--497208	21	2.3	21	82	10	62	44	4	19	31	1.70
501238--501289	21	2.5	20	78	9	59	23	9	3	63	1.41
503418--503443	13	2.0	13	100	0	52	30	15	15	38	1.88
504945--505235	156	1.9	156	79	5	329	40	20	15	22	1.90
506182--506211	14	2.1	15	93	6	53	66	0	0	33	0.92
506344--506378	8	4.5	8	92	7	63	85	0	0	14	0.59
506344--506378	15	2.3	15	95	5	61	85	0	0	14	0.59
509013--509087	26	2.9	26	89	0	114	37	12	9	41	1.74
515077--515129	16	3.2	17	82	15	67	73	9	11	5	1.24
515106--515154	21	2.4	21	80	10	57	73	8	10	8	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516464--516846	27	13.9	28	91	2	591	23	33	14	28	1.94
516464--516846	165	2.3	165	91	2	608	23	33	14	28	1.94
516463--516846	138	2.8	139	91	2	614	23	33	14	28	1.94
516852--518333	32	48.7	32	83	6	1231	30	28	18	21	1.97
516484--518296	32	60.8	28	82	8	709	29	30	18	22	1.97
518465--518643	48	3.8	48	89	1	261	20	26	18	35	1.95
518465--518643	95	1.9	95	89	0	277	20	26	18	35	1.95
525587--525633	20	2.3	20	85	3	58	40	12	17	29	1.86
528133--528188	27	2.1	26	90	3	85	19	23	19	37	1.94
533316--533358	12	3.5	13	81	6	54	67	4	0	27	1.10

Tables:   1   2   3   4   5   6