genome.fa.s111.2.7.7.80.10.50.1000.4.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: Scaffold111
Parameters: 2 7 7 80 10 50 1000
Length:  1194829

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 716 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)
472072--472129	21	2.8	21	89	0	89	31	15	10	43	1.80
472071--472140	21	3.4	21	84	2	70	31	14	11	42	1.81
472207--472301	32	3.0	31	75	10	84	36	3	5	54	1.39
472224--472302	33	2.4	34	81	12	103	32	3	7	55	1.46
473072--473109	17	2.3	17	86	13	53	50	0	0	50	1.00
473579--473620	22	1.9	22	85	9	59	61	4	0	33	1.17
473731--473770	2	20.5	2	94	5	73	47	0	0	52	1.00
474241--474273	4	8.2	4	100	0	66	51	0	0	48	1.00
474747--474802	18	3.2	18	74	20	57	28	0	0	71	0.86
474773--474829	12	4.5	13	72	20	50	38	0	0	61	0.96
474779--474857	25	3.0	26	83	7	97	44	1	0	54	1.08
486401--486492	36	2.7	34	79	11	118	30	26	14	29	1.95
486901--486958	21	2.8	21	86	2	82	39	17	8	34	1.80
486911--486958	20	2.3	20	89	3	69	41	16	6	35	1.74
487029--487053	13	1.9	13	100	0	50	36	16	16	32	1.90
487011--487074	33	2.0	33	90	3	103	37	15	15	31	1.89
487170--487210	20	2.0	21	90	9	66	39	4	7	48	1.52
488682--488868	52	3.8	49	84	6	193	40	16	21	21	1.91
488726--489414	52	13.2	52	76	5	440	38	15	21	24	1.93
488727--488977	105	2.4	105	83	1	308	40	17	20	21	1.91
488920--489036	59	2.0	59	91	0	189	33	17	24	23	1.97
488760--489190	162	2.7	155	82	7	501	39	16	21	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488979--489186	51	4.0	51	79	3	220	37	15	23	23	1.93
489116--489398	102	2.7	104	79	2	284	34	15	22	27	1.94
489508--489932	31	13.6	31	78	8	369	20	17	30	31	1.96
489476--489932	62	7.3	64	79	6	409	20	17	30	30	1.96
489968--490575	29	20.6	28	75	9	238	33	12	29	24	1.92
489972--490495	27	17.8	29	75	10	302	33	12	29	24	1.92
490120--490406	56	5.1	53	74	12	200	33	12	28	25	1.92
490029--490469	56	7.5	61	71	15	180	34	12	28	24	1.91
489947--490616	120	5.7	114	74	12	439	33	12	29	25	1.92
490412--490528	59	2.0	59	84	3	155	31	15	29	23	1.95
490431--490605	88	1.9	91	81	4	212	33	13	27	25	1.93
493653--494178	157	3.4	155	82	5	599	40	18	16	24	1.90
495680--495720	14	2.9	15	85	7	50	4	17	0	78	0.93
496519--496594	20	3.8	20	75	0	71	39	10	14	35	1.81
496640--496693	20	2.7	20	80	8	56	31	14	12	40	1.84
499934--499997	32	2.0	33	87	9	96	31	18	14	35	1.91
501636--501666	9	3.4	9	90	0	53	45	0	32	22	1.53
502092--502133	15	2.8	16	78	10	52	52	2	16	28	1.56
506004--506040	13	2.8	13	91	0	65	32	16	18	32	1.93
508589--508644	19	2.9	18	80	14	67	35	14	17	32	1.90
509704--509959	58	4.4	59	75	6	193	45	17	11	25	1.82
510708--510745	20	1.9	20	94	0	67	39	10	18	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514432--515024	166	3.6	163	82	6	660	29	10	9	49	1.69
515398--515443	24	1.9	25	86	8	69	73	0	21	4	1.00
515392--515437	11	3.9	12	86	11	60	71	0	26	2	0.97
515386--515441	12	4.7	12	80	12	62	69	0	23	7	1.12
516145--516200	20	2.7	20	86	5	67	26	17	12	42	1.85
520068--520286	79	2.8	79	81	5	246	31	13	27	26	1.94
520304--520526	52	4.3	50	81	9	225	31	12	26	29	1.92
520566--520701	52	2.6	50	76	12	139	33	9	25	31	1.88
523059--523099	21	2.0	21	100	0	82	26	19	9	43	1.82
523116--523167	13	3.5	13	73	26	50	36	17	13	32	1.89
523124--523186	19	3.7	18	76	24	73	36	17	12	33	1.88
523116--523188	32	2.3	32	97	0	137	35	17	12	34	1.88
523155--523216	19	3.2	19	73	13	63	27	16	14	41	1.87
523292--523316	8	3.1	8	100	0	50	12	0	12	76	1.04
524950--525070	51	2.4	51	87	1	172	34	10	26	28	1.90
525079--525140	29	2.1	30	88	8	92	29	11	33	25	1.91
525229--525450	79	2.8	79	82	6	270	31	12	25	30	1.93
525386--525483	51	1.9	51	93	0	169	33	10	27	28	1.89
527000--527024	13	1.9	13	100	0	50	32	16	16	36	1.90
526979--527042	33	1.9	33	87	6	94	35	20	15	28	1.93
527106--527155	19	2.6	19	93	0	82	40	16	16	28	1.89
527143--527168	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533297--533321	13	1.9	13	100	0	50	32	16	20	32	1.94
535871--535897	13	2.1	13	100	0	54	29	14	14	40	1.86
537859--537914	20	2.7	20	86	5	76	42	8	14	33	1.77
538565--538993	154	2.8	154	80	6	490	25	17	18	38	1.92
543139--543540	159	2.5	158	79	4	418	28	25	10	35	1.90
543139--543548	79	5.2	79	77	5	339	28	25	10	34	1.90
553415--553543	52	2.5	52	94	0	222	27	17	17	36	1.93
553415--553564	52	2.9	52	87	4	212	29	16	18	36	1.92
553638--553694	13	3.9	13	74	24	51	33	15	14	36	1.88
553617--553714	32	3.0	32	93	1	160	36	16	11	35	1.84
553619--553715	19	5.7	19	67	27	74	37	16	11	35	1.85
554580--555241	49	13.9	48	81	10	717	31	18	25	23	1.97
554581--555246	92	7.1	92	87	8	771	31	18	26	23	1.97
554590--555241	337	2.0	330	90	4	1040	31	18	25	23	1.97
555241--555377	32	4.2	33	89	4	217	20	18	35	25	1.95
555241--555377	65	2.1	64	90	4	213	20	18	35	25	1.95
555379--557717	100	23.7	99	77	12	1297	33	13	33	20	1.91
555380--557712	393	5.9	395	85	6	2412	32	13	33	20	1.91
556270--556376	27	3.7	27	78	16	124	24	16	37	21	1.94
555382--556910	454	3.4	453	85	6	1806	32	13	34	20	1.91
555380--557607	847	2.6	848	89	3	3357	32	13	33	20	1.91
559005--559043	14	2.7	15	92	7	64	0	0	17	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559053--559085	15	2.4	14	90	10	50	12	12	0	75	1.04
565953--566083	52	2.5	52	89	0	208	32	16	16	35	1.91
565953--566103	52	2.9	51	85	3	196	33	15	17	33	1.92
566092--566116	13	1.9	13	100	0	50	36	16	16	32	1.90
566159--566221	19	3.7	18	70	24	55	39	17	9	33	1.82
566157--566254	32	3.0	32	92	1	151	37	15	11	35	1.83
572497--573239	61	12.4	59	77	6	520	27	24	18	29	1.98
573925--574060	51	2.7	51	80	2	166	28	12	14	44	1.82
576412--576719	79	3.9	78	76	9	216	28	26	12	33	1.92
579424--579452	10	2.7	11	94	5	51	3	10	27	58	1.47
579563--579593	13	2.4	13	94	0	53	35	12	16	35	1.87
579541--579609	33	2.1	33	86	5	95	36	20	13	30	1.90
579638--579693	19	2.9	19	89	2	76	35	19	14	30	1.91
582340--582658	88	3.7	84	73	13	236	23	16	15	44	1.86
583575--583722	75	2.0	76	80	1	172	25	18	12	42	1.86
584707--584751	22	2.0	22	100	0	90	37	13	13	35	1.84
584913--586104	44	27.3	44	70	8	387	22	23	13	40	1.90
585005--586251	132	9.5	132	76	6	734	22	23	13	40	1.90
584916--585288	176	2.1	176	81	3	437	21	22	14	40	1.90
585670--586013	173	2.0	173	83	2	431	24	24	11	39	1.89
585904--586189	88	3.2	88	76	7	285	22	23	13	40	1.90
586060--586299	131	1.8	131	79	1	275	21	23	14	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586293--586385	44	2.1	44	81	0	105	23	24	12	38	1.90
586609--586973	84	4.4	84	80	1	347	18	23	14	43	1.86
587845--588718	166	5.3	164	80	7	884	30	11	9	49	1.69
587942--588718	322	2.4	322	82	6	895	29	11	9	49	1.71
589920--590373	186	2.5	184	76	14	454	42	10	9	37	1.71
591170--591224	20	2.7	21	83	11	69	34	18	12	34	1.89
591293--591319	13	2.1	13	100	0	54	48	14	7	29	1.71
598326--598350	3	8.3	3	100	0	50	32	36	0	32	1.58
600663--600688	13	2.0	13	100	0	52	30	15	15	38	1.88
603236--603274	13	3.0	13	96	0	69	35	15	17	30	1.91

Tables:   1   2   3   4   5   6