genome.fa.s77.2.7.7.80.10.50.1000.5.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: Scaffold77
Parameters: 2 7 7 80 10 50 1000
Length:  1374688

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1055 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)
543562--543633	26	2.9	27	84	11	93	44	0	0	55	0.99
543611--543662	27	1.9	27	84	0	68	50	0	0	50	1.00
550015--550075	2	30.5	2	80	6	70	44	1	3	50	1.28
550528--550568	3	13.7	3	100	0	82	68	0	0	31	0.90
550675--550720	23	2.0	23	95	0	83	26	15	13	45	1.82
550860--550904	22	2.2	20	88	8	63	44	0	0	55	0.99
551022--551099	39	2.1	37	85	9	104	57	1	0	41	1.07
551764--551817	23	2.3	24	81	12	67	33	0	1	64	1.04
551750--551843	28	3.3	28	77	12	86	38	0	1	60	1.04
552685--552725	15	2.7	16	77	11	50	34	0	2	63	1.08
552680--552726	24	2.0	23	84	8	60	34	0	2	63	1.06
552685--552728	16	2.8	15	82	6	52	36	0	2	61	1.09
553463--553533	38	1.9	35	81	13	81	46	2	1	49	1.25
553526--553571	23	2.0	22	83	4	56	50	10	0	39	1.38
554019--554074	18	3.0	18	82	12	60	62	1	0	35	1.06
554171--554223	14	3.6	14	75	20	54	43	0	0	56	0.99
554159--554223	32	2.0	32	88	11	98	44	0	0	55	0.99
554167--554225	15	3.8	15	75	20	50	45	0	0	54	0.99
554231--554283	11	4.7	11	76	21	56	32	0	0	67	0.91
554231--554282	18	3.0	18	80	8	72	30	0	0	69	0.89
554242--554294	26	2.0	28	82	14	67	30	0	1	67	1.01
554566--554644	31	2.5	31	85	4	104	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554567--554640	16	4.6	16	77	9	69	47	0	0	52	1.00
554561--554648	16	5.5	16	68	20	51	43	0	0	56	0.99
554520--554666	27	5.4	26	72	16	95	39	0	0	59	1.02
554850--554884	18	2.0	17	88	5	52	42	0	0	57	0.99
556464--556518	21	2.8	21	68	21	55	54	0	0	45	0.99
557040--557298	50	5.2	50	79	6	217	30	11	16	41	1.84
557667--557757	28	3.1	27	74	20	94	28	5	10	54	1.57
557663--557743	31	2.7	31	79	9	96	30	4	9	54	1.55
557821--557862	22	1.9	22	90	9	68	38	2	0	59	1.10
559390--559469	20	4.0	20	72	18	58	62	0	0	37	0.95
559422--559471	24	2.0	25	88	3	75	64	0	0	36	0.94
559778--559810	11	2.7	13	81	18	52	60	0	0	39	0.97
559784--559814	11	2.8	11	100	0	62	64	0	0	35	0.94
560162--560209	24	2.0	23	84	12	60	41	0	2	56	1.11
560202--560240	19	2.1	19	90	9	62	43	0	0	56	0.99
560188--560241	25	2.1	26	83	10	67	46	0	0	53	1.00
561739--561773	16	2.2	15	90	10	52	31	0	8	60	1.27
561759--561799	21	2.0	21	85	9	57	43	0	9	46	1.36
561953--561996	16	2.8	16	89	0	70	38	4	2	54	1.33
562403--562431	3	9.7	3	100	0	58	0	31	34	34	1.58
564662--564749	37	2.4	37	79	12	101	47	1	2	48	1.21
564865--564903	20	1.9	20	89	5	60	28	0	5	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570217--570265	13	3.6	14	76	20	50	65	0	4	30	1.11
570588--570658	34	2.0	35	81	15	83	46	2	0	50	1.16
570648--570708	17	3.4	18	79	6	61	40	0	0	59	0.98
570656--570695	21	2.0	20	90	5	62	37	0	0	62	0.95
570667--570708	16	2.7	16	77	3	50	47	0	0	52	1.00
571528--571558	15	2.0	16	93	6	55	51	6	0	41	1.27
571745--571799	28	2.1	25	83	10	65	25	1	7	65	1.28
572114--572155	17	2.4	18	84	7	52	64	0	0	35	0.94
572497--572584	39	2.1	41	82	15	103	54	2	3	39	1.30
572551--572744	36	5.4	35	73	15	164	53	3	1	42	1.23
572606--572744	72	1.9	72	85	8	194	54	3	0	41	1.17
572528--572744	36	6.1	33	71	19	127	54	2	1	41	1.23
573659--573685	13	2.1	13	100	0	54	29	14	14	40	1.86
573765--573792	13	2.2	13	100	0	56	32	7	14	46	1.71
573749--573845	33	2.9	33	89	3	142	38	9	16	36	1.81
573784--573848	20	3.6	20	69	26	72	41	10	16	30	1.83
575033--575111	35	2.5	30	75	18	95	36	12	12	37	1.82
575216--575255	10	4.0	10	87	9	55	90	0	10	0	0.47
575216--575255	16	2.4	16	91	4	62	90	0	10	0	0.47
577624--577661	16	2.4	16	86	4	51	50	2	0	47	1.15
580493--580557	21	3.1	21	77	18	64	41	0	0	58	0.98
580501--580568	16	4.4	15	80	9	66	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580658--580718	8	7.6	8	74	7	61	32	0	0	67	0.91
580641--580718	24	3.2	24	78	12	88	34	0	0	65	0.93
585335--585363	14	2.0	15	93	6	51	34	0	0	65	0.93
585850--585911	17	3.3	20	73	22	55	37	3	3	56	1.32
587264--587304	20	2.1	18	86	13	55	65	0	0	34	0.93
587238--587347	50	2.2	50	81	12	122	51	0	0	48	1.00
587467--587545	33	2.4	33	81	10	90	65	1	0	32	1.00
587488--587538	15	3.2	15	72	22	50	72	0	0	27	0.85
587494--587600	11	9.8	11	71	14	53	63	1	0	33	1.11
587471--587578	10	11.6	10	67	19	56	62	0	0	37	1.02
591554--591584	15	2.0	16	93	6	55	12	16	6	64	1.47
596546--596627	8	9.9	8	67	17	51	37	1	2	58	1.19
596547--596584	11	3.5	11	86	10	51	34	0	2	63	1.09
596601--596651	16	3.4	16	71	20	56	31	5	1	60	1.31
596533--596630	51	1.9	50	84	10	128	38	1	3	57	1.21
597873--597936	10	6.0	10	73	20	58	42	0	0	57	0.98
597906--597959	16	3.4	16	70	27	51	44	0	0	55	0.99
597911--597959	14	3.2	14	76	18	53	42	0	0	57	0.99
597890--597970	32	2.5	32	84	11	103	46	0	0	53	1.00
597914--597960	15	3.0	15	75	19	51	46	0	0	53	1.00
597898--597985	32	2.8	31	77	14	99	43	0	0	56	0.99
600159--600816	332	2.0	321	94	3	1147	36	15	14	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601770--601802	2	16.5	2	100	0	66	51	0	0	48	1.00
607976--608018	16	2.7	16	92	0	68	44	0	0	55	0.99
609888--609938	26	2.0	26	81	14	61	49	11	13	25	1.76
636623--636654	2	16.0	2	100	0	64	0	0	50	50	1.00
636654--636683	2	15.0	2	100	0	60	50	0	50	0	1.00
642852--642887	6	6.0	6	90	0	54	0	50	0	50	1.00
643869--643920	7	7.1	7	85	8	59	23	5	0	71	1.07
644237--644276	19	2.0	20	85	9	55	67	0	5	27	1.11
645997--646063	34	1.9	35	82	8	84	37	0	7	55	1.28
646118--646167	15	3.5	15	76	20	61	50	0	0	50	1.00
646118--646179	14	4.3	15	73	17	51	51	0	0	48	1.00
648854--648886	2	16.5	2	100	0	66	51	0	0	48	1.00
649315--649343	2	14.5	2	100	0	58	48	0	0	51	1.00
649921--649971	22	2.4	20	81	12	57	47	1	0	50	1.12
651507--651537	2	15.5	2	100	0	62	48	0	51	0	1.00
655706--655743	20	1.9	20	100	0	76	39	10	18	31	1.85
660613--660656	20	2.1	21	87	4	63	61	0	0	38	0.96
661312--661401	26	3.7	23	71	18	74	62	0	0	37	0.96
661325--661407	24	3.4	24	72	24	66	63	0	0	36	0.94
661450--661491	22	1.9	22	85	9	59	40	0	0	59	0.97
662756--663020	129	2.1	129	83	5	335	33	7	10	48	1.66
663111--663272	83	2.0	82	87	6	240	49	4	8	37	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663679--663720	2	21.0	2	100	0	84	50	0	0	50	1.00
664139--664189	13	3.9	13	79	7	59	43	0	0	56	0.99
664447--664480	14	2.4	14	90	9	52	50	0	2	47	1.16
664690--664737	2	24.0	2	100	0	96	50	0	0	50	1.00
666064--666105	23	1.9	21	81	18	50	52	0	0	47	1.00
666658--666721	16	3.9	17	76	10	53	53	0	0	46	1.00
668696--668735	13	3.0	13	85	7	53	47	5	2	45	1.38
669304--669344	20	2.0	21	90	4	66	58	2	0	39	1.11
671360--671398	2	19.5	2	100	0	78	48	0	0	51	1.00
671873--671939	20	3.4	20	71	17	59	65	0	1	32	1.02

Tables:   1   2   3   4   5   6   7   8   9