genome.fa.s393.2.7.7.80.10.50.1000.5.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: Scaffold393
Parameters: 2 7 7 80 10 50 1000
Length:  702984

Tables:   1   2   3   4   5   6   

This is table  5  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)
534506--534578	17	4.2	17	76	20	62	41	0	0	58	0.98
534506--534552	16	2.9	16	84	12	60	42	0	0	57	0.98
534518--534610	10	9.9	10	69	24	60	37	2	0	60	1.09
538116--538241	48	2.5	50	89	6	184	38	9	15	36	1.80
538893--538924	2	16.0	2	100	0	64	50	0	0	50	1.00
539224--539269	22	2.2	22	88	7	69	47	0	2	50	1.13
540095--540319	29	7.7	29	69	12	115	35	15	14	34	1.88
540095--540223	15	8.8	16	74	16	102	36	16	14	32	1.89
540344--540394	14	3.6	14	75	0	57	31	19	19	29	1.97
540190--540375	101	1.8	101	84	0	255	35	16	15	32	1.90
540356--540405	14	3.6	14	75	0	55	28	28	14	30	1.95
542246--542294	21	2.3	22	86	10	66	57	4	0	38	1.18
543318--543364	2	23.0	2	95	4	85	48	2	0	48	1.13
543420--543458	17	2.4	17	82	4	53	33	5	0	61	1.18
546058--546121	31	2.1	31	100	0	128	42	10	15	31	1.82
547314--547629	160	2.0	160	94	1	553	54	4	2	38	1.35
547506--547546	16	2.6	16	75	17	50	60	0	0	39	0.96
547507--547555	17	3.1	16	78	16	50	53	2	0	44	1.12
548269--548309	22	2.0	20	85	9	55	36	2	7	53	1.42
549368--549405	20	1.9	20	89	10	60	47	2	2	47	1.30
550266--550328	11	5.8	11	75	5	58	41	0	0	58	0.98
550368--550433	19	3.4	18	79	10	60	27	4	1	66	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550405--550443	19	2.0	20	85	9	55	23	0	0	76	0.78
550889--550921	13	2.4	14	90	5	50	33	0	0	66	0.92
550898--550936	19	2.1	19	85	9	53	38	0	0	61	0.96
551775--551845	20	3.5	21	70	12	58	61	0	0	38	0.96
552427--552501	37	2.0	38	89	5	116	37	2	10	49	1.52
552518--552561	21	2.2	20	84	12	54	54	2	0	43	1.12
554059--554096	14	2.7	15	88	8	53	44	7	0	47	1.32
560169--560210	21	2.0	21	100	0	84	33	28	4	33	1.78
567243--567513	132	2.1	132	99	0	533	28	14	26	30	1.95
567767--567880	31	3.7	31	79	6	99	25	19	27	28	1.99
567799--568829	28	36.4	28	83	4	986	24	18	28	28	1.98
576091--576135	15	3.0	15	76	0	54	15	0	42	42	1.47
583993--584044	20	2.6	20	87	6	70	38	17	9	34	1.82
587000--587037	7	5.6	7	93	6	69	15	0	0	84	0.63
587000--587037	13	2.8	14	96	4	69	15	0	0	84	0.63
587711--587805	23	4.1	23	91	5	140	52	23	20	4	1.63
588109--588150	21	2.0	21	81	9	50	52	19	21	7	1.69
588192--588244	22	2.3	23	87	6	81	67	9	18	3	1.33
589437--589742	157	1.9	157	85	3	420	24	16	20	37	1.93
589494--589794	157	1.9	156	82	6	369	22	16	21	39	1.92
593605--593669	7	9.4	7	74	15	64	3	15	0	81	0.81
593622--593678	19	3.0	18	75	14	53	3	19	0	77	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593608--593674	34	1.9	35	90	3	109	4	14	0	80	0.86
594885--594923	6	6.5	6	100	0	78	17	0	0	82	0.68
599651--599687	16	2.4	15	90	4	56	43	0	10	45	1.39
600282--600322	21	2.0	20	86	13	57	41	0	0	58	0.98
600277--600333	29	2.0	29	89	6	89	40	1	0	57	1.09
600280--600327	14	3.4	13	78	16	51	37	2	0	60	1.09
600347--600391	20	2.2	20	84	7	56	60	0	2	37	1.09
601070--601124	20	2.5	22	81	18	71	56	0	1	41	1.10
605114--605161	2	24.0	2	100	0	96	50	0	0	50	1.00
605945--606065	15	8.0	14	67	21	50	42	0	0	57	0.99
605952--606022	27	2.8	25	69	19	58	40	0	0	59	0.98
605968--606034	16	4.0	17	75	19	52	41	0	0	58	0.98
605975--606028	23	2.7	20	77	16	58	42	0	0	57	0.98
606007--606105	14	7.3	14	67	20	59	40	2	1	56	1.17
606049--606096	20	2.3	21	82	3	62	35	4	2	58	1.29
606559--606592	16	2.0	18	88	11	54	35	0	0	64	0.94
608554--608582	6	4.8	6	100	0	58	34	0	0	65	0.93
609521--609570	6	7.5	6	87	12	55	80	4	0	16	0.87
609522--609567	7	6.6	7	85	14	60	82	4	0	13	0.81
609663--609692	5	6.0	5	100	0	60	80	0	0	20	0.72
610500--610560	3	20.3	3	86	0	86	63	1	4	29	1.24
611326--611367	5	8.4	5	94	0	75	21	0	57	21	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612172--612201	15	2.1	15	93	6	53	50	36	6	6	1.55
614757--614806	20	2.5	20	80	3	55	42	12	16	30	1.84
620044--620296	53	4.8	53	79	8	257	36	12	24	26	1.91
620044--620306	106	2.5	105	83	5	298	35	12	23	27	1.91
620137--620387	110	2.3	106	82	4	270	34	11	23	29	1.91
620396--620674	31	8.7	33	80	6	245	22	17	28	31	1.96
620423--620674	64	4.0	63	83	5	276	23	17	28	30	1.96
620692--620884	27	6.7	27	75	14	154	34	11	29	23	1.91
620691--620882	87	2.2	88	89	2	289	35	11	28	23	1.91
620705--620822	59	2.0	58	85	1	155	37	12	27	22	1.90
620733--620922	33	6.1	32	79	7	121	38	10	29	21	1.86
621001--621471	34	14.5	34	74	11	240	37	11	29	21	1.88
621152--621468	94	3.3	96	79	6	272	36	10	29	22	1.88
621251--621469	32	6.9	31	75	9	183	38	10	28	22	1.86
621023--621510	94	5.1	94	70	14	243	36	11	29	21	1.90
621328--621510	63	3.0	60	81	9	215	36	10	29	23	1.89
635003--635139	70	2.0	70	88	0	202	27	20	10	41	1.84
637630--637736	53	2.0	53	100	0	214	32	26	11	29	1.91
640019--640050	2	16.0	2	100	0	64	50	0	0	50	1.00
640277--640309	2	16.5	2	93	0	57	51	3	0	45	1.16
640399--640438	3	13.3	3	100	0	80	67	0	0	32	0.91
640598--640638	21	2.0	21	90	0	64	36	12	12	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641443--641484	22	1.9	22	85	9	59	54	4	0	40	1.21
641468--641525	17	3.4	16	71	19	55	62	5	0	32	1.18
641650--641714	22	3.0	21	72	16	69	61	1	6	30	1.29
641825--641883	23	2.5	23	81	10	66	35	3	0	61	1.13
642696--642815	53	2.3	51	82	13	140	45	2	0	52	1.14
642926--642960	3	11.7	3	100	0	70	68	0	0	31	0.90
643609--643645	19	1.9	19	89	10	58	62	0	2	35	1.10
647529--647685	20	7.8	20	71	18	103	28	15	14	41	1.86
647547--647576	13	2.3	13	94	0	51	30	13	13	43	1.82
647610--647685	40	1.9	40	89	5	118	31	17	10	40	1.83
649955--650176	78	2.8	78	86	3	259	28	25	14	31	1.95
650131--650227	51	1.9	51	86	0	140	31	23	8	36	1.85
650211--650265	28	2.0	28	88	0	83	21	21	18	38	1.94
650163--650366	107	1.9	107	81	2	248	27	25	13	33	1.94
650242--650577	79	4.3	79	77	4	306	26	25	16	30	1.97
652548--653002	52	8.8	52	73	12	258	34	16	23	26	1.95
652599--653002	155	2.6	153	78	7	404	34	16	24	25	1.95
653085--653408	32	10.1	32	78	8	216	27	18	27	27	1.98
653085--653408	64	5.0	64	76	7	246	27	18	27	27	1.98
653085--653408	96	3.4	95	76	7	280	27	18	27	27	1.98
654079--654110	14	2.4	14	94	5	57	37	6	25	31	1.81
655099--655154	19	3.0	18	89	5	76	3	7	5	83	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655099--655154	9	6.1	9	76	19	53	3	7	5	83	0.88
655081--655177	43	2.3	43	77	10	99	7	10	4	78	1.08
658813--658841	2	14.5	2	100	0	58	48	0	0	51	1.00
659175--659208	3	11.3	3	100	0	68	67	0	0	32	0.91
659368--659408	21	2.0	21	85	0	55	34	12	14	39	1.84
659649--659697	14	3.7	13	76	12	55	65	2	4	28	1.22
659724--659781	28	2.1	27	83	3	71	46	1	1	50	1.22
660214--660255	22	1.9	22	85	9	59	54	4	0	40	1.21
660239--660296	17	3.4	16	71	19	55	62	5	0	32	1.18
660421--660485	22	3.0	21	72	16	69	61	1	6	30	1.29

Tables:   1   2   3   4   5   6