genome.fa.s130.2.7.7.80.10.50.1000.4.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: Scaffold130
Parameters: 2 7 7 80 10 50 1000
Length:  730134

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 494 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)
555533--555653	52	2.3	53	82	2	145	38	16	13	31	1.87
558212--558237	13	2.0	13	100	0	52	30	15	15	38	1.88
558935--558978	21	2.1	21	83	8	54	25	31	4	38	1.76
560782--560807	13	2.0	13	100	0	52	38	15	15	30	1.88
564719--564763	21	2.1	21	84	8	56	22	20	4	53	1.63
570421--570445	11	2.3	11	100	0	50	24	0	8	68	1.16
570932--571227	153	1.9	154	83	8	379	33	9	7	50	1.61
572548--573263	157	4.6	155	81	7	814	27	9	17	45	1.80
575436--575477	17	2.4	17	84	11	50	21	9	0	69	1.17
577045--577101	29	2.0	29	86	6	80	35	14	8	42	1.76
577479--577533	20	2.8	20	80	0	65	45	12	18	23	1.83
578386--578477	47	1.9	47	82	6	114	35	17	0	46	1.48
579028--579062	4	8.8	4	100	0	70	51	0	22	25	1.48
581875--581994	24	5.0	24	66	18	63	46	4	2	46	1.35
582783--582845	24	2.6	24	82	2	63	61	0	4	33	1.17
583140--583174	17	2.1	17	89	10	54	22	0	11	65	1.24
586275--586323	21	2.4	21	82	3	64	32	0	2	65	1.04
587114--587164	22	2.3	22	82	0	66	49	1	0	49	1.12
592138--592185	17	2.7	18	80	6	53	27	0	6	66	1.15
592156--592228	11	6.6	11	70	9	51	28	1	1	68	1.06
592162--592243	34	2.4	34	76	8	85	26	1	1	70	1.02
592968--593013	22	2.1	21	88	4	65	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593393--593473	25	3.1	29	72	22	81	60	0	0	39	0.97
593395--593434	20	1.9	21	90	10	64	60	0	0	40	0.97
593372--593467	23	4.1	23	71	20	74	61	0	0	38	0.96
593380--593477	23	4.3	23	70	19	71	62	0	0	37	0.96
599895--599921	13	2.1	13	100	0	54	29	14	14	40	1.86
599990--600058	33	2.1	33	86	5	95	34	11	17	36	1.86
606167--606193	13	2.1	13	100	0	54	29	14	14	40	1.86
606249--606287	18	2.1	19	90	4	62	41	35	0	23	1.55
608061--608136	21	3.5	22	85	7	102	38	3	32	25	1.74
608610--608664	19	2.8	20	88	2	76	29	14	20	36	1.92
608693--608761	33	2.1	33	84	10	88	33	10	17	39	1.83
610879--610914	16	2.2	16	90	0	54	38	0	0	61	0.96
612525--612728	76	2.6	79	81	3	227	27	16	29	25	1.97
612593--612646	28	1.9	28	88	7	83	31	16	27	24	1.96
612683--612751	28	2.5	28	90	0	102	26	18	31	23	1.97
612740--612909	52	3.3	50	79	11	182	32	12	24	29	1.93
612883--612964	27	3.0	28	80	10	89	25	21	30	21	1.99
615386--615411	13	2.0	13	100	0	52	38	15	15	30	1.88
615365--615431	33	2.0	33	88	0	98	43	16	14	25	1.86
615451--615518	19	3.9	18	76	23	83	38	14	11	35	1.83
615473--615497	13	1.9	13	100	0	50	32	16	16	36	1.90
615454--615516	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615574--615630	21	2.7	21	97	0	105	36	19	10	33	1.86
615635--615664	1	30.0	1	93	0	51	3	0	0	96	0.21
616247--616870	55	11.4	54	93	2	923	20	20	30	28	1.98
617852--617900	1	49.0	1	79	0	53	0	4	6	89	0.57
617852--617897	12	3.8	12	88	5	65	0	4	6	89	0.60
617836--617900	15	4.4	15	78	3	69	0	9	4	86	0.71
630320--630523	76	2.6	79	81	3	227	27	16	29	25	1.97
630388--630441	28	1.9	28	88	7	83	31	16	27	24	1.96
630478--630546	28	2.5	28	90	0	102	26	18	31	23	1.97
630535--630704	52	3.3	50	79	11	182	32	12	24	29	1.93
630678--630759	27	3.0	28	80	10	89	25	21	30	21	1.99
633180--633205	13	2.0	13	100	0	52	38	15	15	30	1.88
633159--633225	33	2.0	33	88	0	98	43	16	14	25	1.86
633245--633312	19	3.9	18	76	23	83	38	14	11	35	1.83
633267--633291	13	1.9	13	100	0	50	32	16	16	36	1.90
633248--633310	32	2.0	32	96	0	117	36	15	12	34	1.86
633368--633424	21	2.7	21	97	0	105	36	19	10	33	1.86
634306--634350	23	2.0	23	82	8	56	33	8	17	40	1.81
635466--635496	15	2.1	15	93	0	53	45	0	25	29	1.54
637996--638288	130	2.2	131	83	4	376	29	24	10	35	1.89
638149--638401	79	3.2	78	82	5	312	26	23	13	36	1.92
638149--638413	80	3.3	78	80	4	291	25	23	13	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640903--640964	33	1.9	33	86	3	90	25	25	8	40	1.83
642127--642166	17	2.4	17	91	0	62	10	15	22	52	1.71
642188--642223	18	2.0	18	88	0	54	8	19	25	47	1.77
642200--642299	30	3.3	30	87	0	137	9	14	25	52	1.70
642485--642553	22	3.1	22	72	12	68	36	0	7	56	1.27
642484--642555	23	3.2	23	66	18	60	36	0	6	56	1.26
643455--643609	80	1.9	79	89	1	238	25	22	13	38	1.91
643455--643643	80	2.4	80	83	2	229	26	21	11	41	1.86
646111--646172	33	1.9	33	86	3	90	25	25	8	40	1.83
647335--647374	17	2.4	17	91	0	62	10	15	22	52	1.71
647385--647488	30	3.5	30	85	2	129	7	15	25	50	1.70
647676--647744	22	3.1	22	72	12	68	36	0	7	56	1.27
647675--647746	23	3.2	23	66	18	60	36	0	6	56	1.26
648970--648995	7	3.7	7	100	0	52	23	0	0	76	0.78
648989--649034	21	2.1	21	88	8	65	54	2	0	43	1.12
655243--655280	3	12.7	3	100	0	76	68	0	0	31	0.90
663322--663374	15	3.3	16	78	21	58	18	13	0	67	1.22
664215--664243	2	14.5	2	100	0	58	51	0	0	48	1.00
664486--664515	2	15.0	2	100	0	60	50	0	0	50	1.00
670536--670598	19	3.7	18	72	24	64	34	12	15	36	1.86
670538--670606	32	2.2	32	94	0	120	34	13	15	36	1.87
682960--683086	20	6.7	20	81	12	142	27	17	13	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682997--683066	33	2.1	33	94	0	122	27	17	12	42	1.85
682977--683086	53	2.1	53	89	3	168	28	17	12	41	1.86
683017--683047	13	2.4	13	94	0	53	29	12	16	41	1.85
684694--684753	30	2.0	30	100	0	120	26	10	20	43	1.83
685226--685394	51	3.3	51	80	1	187	28	24	13	33	1.93
685457--685531	28	2.8	27	80	13	84	22	32	20	25	1.98
685383--685579	106	1.9	107	84	3	272	27	25	15	31	1.95
685515--685629	51	2.3	51	87	0	167	33	24	10	32	1.89
685565--685872	79	3.9	79	82	5	299	28	26	13	31	1.94
685587--685817	78	2.9	78	80	8	231	29	27	12	30	1.93
685279--685716	236	1.9	236	84	1	601	28	25	13	32	1.94
698268--698308	21	2.0	20	85	4	55	85	2	12	0	0.70
698268--698308	10	4.0	10	87	6	55	85	2	12	0	0.70
699377--699673	55	5.4	55	90	2	422	28	28	20	22	1.99
699431--699518	26	3.3	26	67	14	79	26	31	20	21	1.98
699696--699881	55	3.4	54	88	4	275	29	27	22	20	1.99
699543--699822	149	1.9	149	90	3	456	26	27	20	25	1.99
699751--700036	149	1.9	149	89	2	441	27	27	20	24	1.99
699900--700088	55	3.3	58	85	8	255	28	25	21	24	1.99
699921--700101	61	3.1	60	87	6	255	25	28	19	27	1.99
699955--700251	155	2.0	149	87	4	423	25	28	19	26	1.99
699486--700511	210	4.9	209	90	2	1498	26	28	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700112--700295	55	3.2	55	85	6	233	28	28	19	24	1.98
700130--700312	61	3.1	59	85	6	212	26	29	17	26	1.97
700165--700454	155	1.9	155	91	2	485	27	29	18	24	1.98
700320--700523	61	3.4	61	82	7	244	26	27	19	25	1.99
700498--700584	40	2.2	38	80	11	97	20	28	11	39	1.88
701216--701310	20	4.8	19	84	7	118	27	17	14	40	1.89
703573--703752	51	3.5	51	80	3	195	31	25	10	33	1.89
703826--703889	28	2.3	28	76	10	69	25	32	14	28	1.94
703878--703988	51	2.2	51	91	3	179	33	26	8	32	1.85
703741--703938	107	1.9	107	79	2	227	28	24	14	32	1.94

Tables:   1   2   3   4   5