genome.fa.s6.2.7.7.80.10.50.1000.7.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: Scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  1308201

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1316 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)
592867--592903	2	18.5	2	100	0	74	51	0	0	48	1.00
593450--593498	24	2.1	23	85	11	64	61	4	22	12	1.48
593912--593960	13	3.8	13	75	0	53	32	6	42	18	1.75
593900--593959	26	2.3	25	77	11	59	36	6	40	16	1.75
594012--594057	24	1.9	25	91	8	78	45	19	8	26	1.79
594043--594116	27	2.7	27	82	0	103	45	18	9	25	1.80
598502--598550	13	3.8	13	81	10	64	32	6	40	20	1.77
598490--598549	26	2.3	25	77	11	59	36	6	38	18	1.77
598633--598700	27	2.5	28	83	7	95	47	20	5	26	1.73
599298--599364	29	2.3	30	81	5	91	46	2	1	49	1.26
599555--599632	39	2.1	39	81	13	92	47	0	0	52	1.00
599572--599651	41	2.0	40	83	11	101	47	0	0	52	1.00
600499--600551	20	2.7	20	87	0	70	35	16	15	32	1.90
603225--603285	21	2.9	22	73	9	63	45	0	1	52	1.10
603449--603486	20	1.9	20	89	10	60	63	0	0	36	0.95
603482--603534	29	1.9	27	81	11	63	50	0	0	49	1.00
603521--603555	16	2.1	17	89	5	54	54	0	0	45	0.99
603533--603570	11	3.5	11	86	10	51	60	0	0	39	0.97
604339--604381	16	2.6	16	77	3	50	67	0	0	32	0.91
604327--604376	21	2.3	22	80	13	59	66	0	0	34	0.92
604355--604437	14	5.9	15	75	12	79	55	0	0	44	0.99
605209--605247	17	2.3	17	90	0	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608497--608529	2	16.5	2	93	0	57	45	0	3	51	1.16
608888--608956	6	11.0	6	73	18	52	50	0	5	43	1.26
609060--609239	90	2.0	90	98	0	351	35	11	10	42	1.75
615199--615241	22	2.0	22	90	0	68	53	6	13	25	1.65
617141--617188	16	3.1	16	87	3	62	54	12	0	33	1.38
620483--620600	21	5.7	21	75	11	102	32	0	1	65	1.09
620625--620669	20	2.2	20	88	0	63	55	0	13	31	1.38
620725--620756	12	2.7	12	95	0	55	34	0	9	56	1.32
624878--624938	25	2.4	26	78	10	72	65	0	1	32	1.02
624897--624935	13	3.2	13	85	7	55	74	0	0	25	0.82
624981--625036	6	10.0	6	80	7	57	62	0	0	37	0.95
624984--625015	16	1.9	17	93	6	57	56	0	0	43	0.99
624953--625039	22	3.7	22	77	11	93	58	0	0	41	0.98
624879--625039	11	14.8	11	68	19	81	60	0	0	38	1.06
627652--627708	10	5.7	10	78	15	64	47	0	0	52	1.00
627655--627733	20	4.2	19	72	18	58	46	0	0	53	1.00
628029--628112	39	2.1	38	85	10	107	63	0	0	36	0.95
628052--628113	15	3.6	16	72	27	56	64	0	0	35	0.94
628117--628153	17	2.1	18	90	5	58	56	0	0	43	0.99
631675--631740	33	2.0	33	97	2	125	46	15	19	18	1.83
635429--635478	22	2.2	23	86	10	68	34	0	0	66	0.92
635468--635515	18	2.8	18	79	17	57	56	0	2	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637344--637391	20	2.4	20	85	0	60	54	0	2	43	1.12
638270--638515	93	2.6	93	83	5	275	22	22	20	34	1.97
641574--641609	15	2.3	15	95	4	63	41	11	13	33	1.80
642523--642557	15	2.3	16	90	9	56	45	0	0	54	0.99
646812--646855	11	3.9	11	84	3	52	50	4	0	45	1.22
648252--648277	7	3.7	7	100	0	52	46	0	0	53	1.00
648656--648727	32	2.2	32	82	4	83	51	0	0	48	1.00
651817--651864	23	1.9	26	84	16	66	50	0	0	50	1.00
652215--652242	2	14.0	2	100	0	56	50	50	0	0	1.00
652854--652879	2	13.0	2	100	0	52	50	50	0	0	1.00
657404--657506	36	2.9	35	80	11	111	46	0	0	52	1.07
659366--659401	2	18.0	2	88	0	54	47	2	0	50	1.15
659902--659943	22	1.9	22	85	0	57	52	2	2	42	1.27
660538--660592	15	3.5	15	80	7	65	52	1	1	43	1.22
660686--660746	29	2.1	29	81	6	70	42	0	0	57	0.98
660988--661042	25	2.3	23	84	12	67	43	3	1	50	1.30
661068--661112	16	2.8	16	83	12	65	46	2	0	51	1.13
661047--661112	32	2.1	32	82	0	78	40	6	4	48	1.48
662547--662580	4	8.5	4	100	0	68	23	0	0	76	0.79
662881--662918	17	2.2	18	90	4	60	42	0	0	57	0.98
663325--663369	22	2.0	22	83	8	56	66	2	2	28	1.15
663765--663903	11	12.5	11	67	21	51	66	0	0	31	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663794--663908	38	2.9	39	69	10	97	66	0	0	32	0.97
663764--663862	32	3.1	30	77	13	92	66	1	1	31	1.05
663809--663881	20	3.8	19	76	8	67	63	1	0	35	1.04
667461--667498	20	1.9	20	88	0	58	57	2	0	39	1.12
667775--667802	2	14.0	2	100	0	56	50	0	0	50	1.00
668151--668180	12	2.4	13	94	5	53	30	3	0	66	1.07
669098--669144	11	4.4	11	79	15	53	44	0	0	55	0.99
669080--669151	12	6.1	12	76	14	53	50	0	0	50	1.00
669211--669263	25	2.1	25	96	0	97	26	13	3	56	1.54
669316--669357	20	2.2	20	86	4	59	26	0	7	66	1.17
669328--669367	20	2.1	19	90	4	62	22	0	5	72	1.04
669328--669365	10	3.8	10	86	10	51	23	0	5	71	1.07
670398--670434	7	5.4	7	96	3	67	59	0	0	40	0.97
672117--672282	51	3.2	51	84	2	190	32	11	25	30	1.91
672072--672422	107	3.3	107	70	9	313	30	13	27	28	1.94
672296--672908	79	7.8	79	92	0	967	31	14	27	27	1.95
674294--674425	35	3.8	35	97	0	255	19	32	5	42	1.74
674335--674400	21	3.5	21	67	26	65	19	31	6	42	1.76
674432--674460	12	2.3	13	94	5	51	27	0	3	68	1.05
675125--675549	61	7.3	58	80	9	374	26	20	26	26	1.99
675247--675549	55	5.3	55	83	11	360	23	20	28	27	1.99
675475--675907	94	4.8	90	67	17	290	23	20	29	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675416--675695	149	1.8	153	87	6	417	22	20	29	26	1.99
675570--675815	55	4.3	56	84	8	311	22	21	28	27	1.99
675569--675812	117	2.2	110	84	6	319	22	21	27	27	1.99
675305--676218	266	3.4	266	95	1	1582	23	20	29	26	1.99
675838--676088	55	4.5	55	83	8	335	23	20	28	27	1.99
675836--676088	117	2.2	110	86	6	348	23	20	28	27	1.99
676105--676250	61	2.4	61	86	3	195	28	19	26	25	1.99
677210--677248	18	2.1	19	85	4	53	5	5	5	84	0.86
689528--689803	51	5.3	51	70	7	196	31	12	26	30	1.93
689473--689834	107	3.4	107	71	7	308	30	12	27	29	1.93
689710--689964	79	3.2	79	87	6	365	31	14	26	28	1.95
689738--690170	209	2.1	209	91	1	699	32	14	25	27	1.94
689814--690091	130	2.1	130	94	1	486	32	14	25	26	1.95
689893--690012	51	2.4	51	92	0	195	31	15	26	26	1.95
689577--690036	158	2.9	155	68	13	369	31	13	26	27	1.94
689728--690249	288	1.8	288	91	0	866	33	14	24	27	1.94
689944--690293	79	4.4	79	91	0	547	33	15	25	26	1.95
691696--691865	35	4.9	35	94	2	306	20	30	5	44	1.75
692006--692066	25	2.5	23	78	17	68	52	0	0	47	1.00
691987--692074	26	3.2	27	76	15	83	53	0	0	46	1.00
692667--692809	71	2.0	71	100	0	286	31	8	11	48	1.68
695869--695908	17	2.3	18	86	4	55	0	35	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699473--699572	22	4.6	21	71	14	69	49	0	2	49	1.12
700251--700357	30	3.6	29	76	10	117	56	1	3	38	1.28
700257--700408	60	2.5	61	83	2	173	57	3	3	34	1.33
700438--700495	21	2.7	22	76	10	66	41	5	1	51	1.34
700696--700778	44	2.0	42	84	13	111	54	0	0	45	0.99
701296--701345	19	2.7	19	75	3	57	56	0	0	44	0.99
703315--703418	43	2.4	44	83	9	126	52	0	6	39	1.34
704195--704230	2	18.0	2	100	0	72	50	0	0	50	1.00
704513--704549	2	18.5	2	100	0	74	0	48	0	51	1.00
704722--704761	19	2.1	19	90	0	62	30	10	27	32	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11