genome.fa.s238.2.7.7.80.10.50.1000.4.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: Scaffold238
Parameters: 2 7 7 80 10 50 1000
Length:  1453955

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 962 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)
489113--489138	13	2.0	13	100	0	52	30	15	15	38	1.88
489198--489270	20	3.6	20	81	3	92	32	17	12	36	1.87
489177--489253	21	3.7	21	77	6	86	28	16	11	42	1.84
489177--489270	41	2.3	41	92	3	154	30	18	11	39	1.86
493344--493378	16	2.2	16	95	5	63	88	5	5	0	0.63
494611--495997	28	49.1	27	83	8	1532	27	30	18	23	1.97
494611--495998	111	12.3	111	85	7	1644	27	30	18	23	1.97
496592--496666	20	3.8	20	78	0	87	34	13	10	41	1.79
496592--496669	40	2.0	39	87	2	111	34	12	11	41	1.80
497575--497627	24	2.3	23	93	6	90	18	13	9	58	1.61
501711--502577	432	2.0	436	91	2	1431	40	15	12	31	1.85
502560--502679	31	3.9	30	81	7	152	31	24	16	27	1.96
505435--505499	20	3.6	20	73	26	81	27	12	15	44	1.82
505455--505513	13	4.0	13	73	26	55	28	13	15	42	1.85
505435--505512	33	2.4	33	100	0	156	28	12	15	43	1.83
508055--508093	13	3.0	13	96	0	69	35	15	17	30	1.91
508079--508157	20	3.7	20	78	15	77	44	15	15	25	1.85
510169--510199	15	2.1	15	93	0	53	12	22	16	48	1.80
512003--512047	21	2.1	21	84	8	56	22	20	4	53	1.63
512496--512562	37	1.9	35	88	11	102	29	25	11	32	1.92
513021--513046	13	2.0	13	100	0	52	30	15	15	38	1.88
517968--518034	37	1.9	35	88	11	102	29	25	11	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518493--518518	13	2.0	13	100	0	52	30	15	15	38	1.88
520992--521017	13	2.0	13	100	0	52	30	15	15	38	1.88
522166--522237	28	2.6	28	84	4	92	23	19	34	22	1.96
522225--522447	105	2.1	103	83	3	277	31	12	25	30	1.92
522225--522447	52	4.3	51	82	4	257	31	12	25	30	1.92
522329--522580	133	1.9	131	82	4	310	31	13	24	30	1.93
524938--525004	33	2.0	33	85	0	89	44	16	13	25	1.84
524959--524984	13	2.0	13	100	0	52	38	15	15	30	1.88
525024--525091	19	3.9	18	73	23	74	38	13	11	36	1.81
525027--525089	32	2.0	32	93	0	108	36	14	12	36	1.84
525127--525203	21	3.7	21	89	3	111	35	16	12	35	1.88
525701--525801	38	2.7	38	81	7	109	36	20	15	26	1.93
525775--525867	31	3.0	31	79	0	105	31	22	17	29	1.96
528044--528078	15	2.4	14	85	4	52	74	2	22	0	0.95
529491--529524	2	17.0	2	100	0	68	0	50	0	50	1.00
534078--534112	18	1.9	18	100	0	70	28	0	20	51	1.47
537200--537255	16	3.4	17	72	16	55	44	0	3	51	1.18
538549--538583	2	17.5	2	100	0	70	48	0	0	51	1.00
540762--540817	19	3.0	19	89	7	80	41	1	5	51	1.35
541833--541866	17	2.0	17	100	0	68	35	29	11	23	1.90
542731--542756	13	2.0	13	100	0	52	30	15	15	38	1.88
545309--545347	13	3.0	13	92	0	60	35	12	17	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545333--545411	20	3.7	20	78	15	77	44	15	15	25	1.85
547426--547456	15	2.1	15	93	0	53	12	22	16	48	1.80
549260--549304	21	2.1	21	84	8	56	22	20	4	53	1.63
551526--551551	13	2.0	13	100	0	52	30	15	15	38	1.88
556676--557002	58	5.7	57	81	7	365	46	18	9	25	1.79
556680--557045	116	3.2	115	81	6	395	46	17	10	25	1.79
561241--561379	72	1.9	72	81	4	165	38	17	14	30	1.89
562746--562798	20	2.6	21	85	11	74	39	9	16	33	1.81
568939--568988	24	2.1	23	96	3	91	46	4	14	36	1.63
573945--574161	92	2.4	92	78	4	215	35	12	16	35	1.86
574300--574335	13	2.9	12	88	8	54	80	0	0	19	0.71
574692--574742	21	2.4	21	100	0	102	43	15	13	27	1.85
579211--579282	20	3.7	19	85	7	83	29	16	15	38	1.89
583140--583702	291	1.9	291	94	0	991	36	11	16	35	1.86
585910--587257	451	3.0	451	98	0	2579	29	19	21	30	1.97
587766--587839	28	2.7	26	82	12	85	28	17	29	24	1.97
587831--587939	51	2.1	51	84	3	139	31	12	24	31	1.93
587629--587979	158	2.2	157	82	8	410	33	12	25	28	1.92
588024--588094	28	2.6	27	84	4	88	25	21	30	22	1.98
588130--588203	28	2.6	28	82	18	100	24	18	33	22	1.97
587995--588215	108	2.0	108	92	1	372	33	15	25	24	1.95
588190--588357	51	3.3	51	80	3	187	32	13	26	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590675--590739	33	2.0	33	93	0	112	41	12	16	29	1.85
590655--590831	20	8.8	20	70	21	104	42	13	16	27	1.86
597710--598279	141	4.1	140	78	10	564	45	9	9	35	1.68
597764--598175	130	3.1	128	76	13	402	43	9	9	36	1.71
599035--599077	18	2.4	18	88	0	59	6	13	0	79	0.93
599067--599094	14	2.0	14	100	0	56	0	28	0	71	0.86
599043--599091	10	4.7	10	85	9	62	4	16	0	79	0.88
600211--600246	18	2.0	18	88	0	54	69	13	5	11	1.34
601495--601524	15	2.0	15	100	0	60	46	13	13	26	1.80
604563--604907	105	3.3	104	70	12	272	31	11	26	29	1.92
604568--604738	51	3.3	51	79	4	198	32	11	26	29	1.92
604721--604796	27	2.8	28	88	6	102	21	21	34	23	1.97
607264--607289	13	2.0	13	100	0	52	38	15	15	30	1.88
607243--607309	33	2.0	33	88	0	98	43	16	14	25	1.86
607329--607396	19	3.9	18	76	23	83	38	14	11	35	1.83
607351--607375	13	1.9	13	100	0	50	32	16	16	36	1.90
607332--607394	32	2.0	32	96	0	117	36	15	12	34	1.86
607431--607474	1	44.0	1	93	0	61	4	2	0	93	0.42
608070--608967	55	16.3	55	91	4	1365	20	20	30	28	1.97
608336--608810	26	17.3	26	61	24	81	19	20	31	28	1.97
609949--610012	1	64.0	1	84	0	83	0	3	4	92	0.47
609933--610012	14	5.8	14	79	7	83	0	7	3	88	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609949--610012	30	2.1	29	91	8	101	0	3	4	92	0.47
622464--622808	105	3.3	104	70	12	272	31	11	26	29	1.92
622469--622639	51	3.3	51	79	4	198	32	11	26	29	1.92
622622--622697	27	2.8	28	88	6	102	21	21	34	23	1.97
625164--625189	13	2.0	13	100	0	52	38	15	15	30	1.88
625143--625209	33	2.0	33	88	0	98	43	16	14	25	1.86
625229--625296	19	3.9	18	76	23	83	38	14	11	35	1.83
625251--625275	13	1.9	13	100	0	50	32	16	16	36	1.90
625232--625294	32	2.0	32	96	0	117	36	15	12	34	1.86
625352--625408	21	2.7	21	91	0	87	42	17	8	31	1.80
625412--625455	1	44.0	1	93	0	61	4	2	0	93	0.42
626561--626613	20	2.7	20	91	5	81	39	15	11	33	1.83
629187--629247	32	1.9	32	89	0	95	39	11	11	37	1.78
629295--629332	20	1.9	20	94	0	67	31	13	13	42	1.82
629435--629477	21	2.0	21	86	0	59	55	25	2	16	1.53
632251--632407	78	2.0	78	100	0	314	29	22	16	30	1.96
636285--636319	17	2.1	17	89	10	54	48	0	2	48	1.16
637057--637112	2	28.0	2	92	0	85	46	0	5	48	1.25
639590--639656	16	4.3	15	75	14	73	64	2	0	32	1.09
646314--646350	19	1.9	19	88	0	56	72	5	2	18	1.15
647013--647045	4	8.8	4	87	12	52	81	0	18	0	0.68
647013--647045	15	2.2	15	89	10	50	81	0	18	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657921--658045	52	2.4	52	97	0	232	28	18	18	35	1.94
657921--658065	52	2.8	51	90	4	220	29	17	18	33	1.95
658054--658078	13	1.9	13	100	0	50	36	16	16	32	1.90
658142--658166	13	1.9	13	100	0	50	32	16	16	36	1.90
658120--658186	33	2.0	33	88	0	98	40	14	11	32	1.83
660667--660724	13	4.0	13	74	23	53	31	15	15	37	1.89
660680--660742	19	3.6	19	72	24	75	30	15	17	36	1.91
660666--660742	32	2.4	32	97	0	145	29	15	18	36	1.92
665090--665127	13	2.9	13	96	0	67	31	15	18	34	1.92
667209--667239	15	2.1	15	93	0	53	12	22	16	48	1.80

Tables:   1   2   3   4   5   6   7   8   9