genome.fa.s81.2.7.7.80.10.50.1000.4.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: Scaffold81
Parameters: 2 7 7 80 10 50 1000
Length:  1151237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1060 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)
341455--341564	31	3.5	31	87	0	148	12	21	31	33	1.91
341286--341832	268	2.0	268	81	4	647	23	19	26	29	1.98
341773--341894	31	3.9	31	81	4	129	13	24	31	29	1.94
341969--342090	28	4.4	28	82	2	138	22	15	28	32	1.95
342081--342187	32	3.3	32	84	5	135	21	15	30	31	1.95
342164--342300	61	2.2	61	77	11	136	18	23	26	31	1.98
342395--342660	42	6.4	40	71	14	150	42	10	24	23	1.85
342539--342695	82	1.9	82	81	5	192	41	10	22	25	1.85
350497--350524	13	2.2	13	100	0	56	39	10	14	35	1.81
350569--350652	13	5.5	13	71	28	60	35	16	13	34	1.88
350577--350639	19	3.7	18	76	24	73	36	15	12	34	1.86
350569--350654	32	2.7	32	96	0	163	37	16	12	33	1.87
355213--355292	20	4.0	20	73	1	79	32	12	10	45	1.75
359337--359674	48	6.9	48	82	4	399	31	18	26	24	1.97
359335--359676	149	2.3	147	88	2	501	31	18	26	24	1.97
359694--359845	28	5.3	28	83	5	164	18	15	28	36	1.92
359694--359850	84	1.8	84	81	10	194	20	15	28	35	1.93
359842--359909	35	2.0	35	88	2	102	38	10	30	20	1.86
359886--360064	29	6.1	29	81	5	200	27	15	29	28	1.96
359886--360052	57	2.9	57	83	6	201	26	15	29	28	1.96
361494--361564	11	6.7	11	78	10	51	12	0	4	83	0.79
372442--372483	14	3.1	14	86	3	50	88	9	0	2	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372442--372484	12	3.7	12	87	3	52	86	11	0	2	0.67
372984--373629	82	7.8	83	89	2	890	25	31	14	28	1.95
373020--374572	28	54.8	28	81	9	974	27	31	16	24	1.97
373169--374572	55	24.7	56	82	7	1060	27	31	17	24	1.97
373427--374553	141	7.9	139	83	7	1043	27	31	17	22	1.97
375160--375240	20	4.0	20	75	1	90	35	13	9	40	1.78
376436--376503	19	3.9	19	78	21	85	35	11	14	38	1.83
376457--376481	13	1.9	13	100	0	50	36	16	16	32	1.90
376438--376500	32	2.0	32	96	0	117	34	12	15	36	1.86
376523--376577	20	2.8	20	82	0	74	23	14	16	45	1.84
379022--379098	28	2.8	28	87	0	100	23	33	19	23	1.97
382639--382679	2	20.5	2	100	0	82	51	0	0	48	1.00
383610--383651	22	1.9	23	85	9	61	23	9	0	66	1.21
385259--385293	3	11.7	3	100	0	70	68	0	0	31	0.90
385403--385446	15	2.9	15	80	13	54	29	0	0	70	0.88
385400--385465	19	3.5	19	80	10	73	33	1	0	65	1.02
385403--385468	24	2.8	23	80	17	73	34	1	0	63	1.04
385804--385877	32	2.3	33	86	9	107	54	1	0	44	1.08
385813--385876	16	4.1	16	74	18	55	54	1	0	43	1.09
385853--385954	5	20.8	5	77	16	99	58	0	0	41	0.98
385855--385952	39	2.5	39	83	8	119	59	0	0	40	0.98
385807--385929	63	1.9	66	82	12	157	56	0	0	42	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385853--385954	49	2.2	44	83	11	116	58	0	0	41	0.98
386114--386186	20	3.7	20	70	25	64	39	0	1	58	1.06
386132--386186	24	2.3	24	81	6	67	36	0	1	61	1.06
386346--386399	22	2.4	23	79	17	60	27	0	3	68	1.06
386941--386994	20	2.7	20	80	16	58	37	0	1	61	1.07
386943--386986	21	2.2	19	84	15	54	36	0	2	61	1.09
387592--387652	6	10.0	6	75	16	54	62	0	0	37	0.96
387584--387632	12	3.8	14	76	17	61	59	0	0	40	0.98
387592--387652	19	3.4	17	76	13	59	62	0	0	37	0.96
387697--387728	17	1.9	17	93	6	57	53	0	0	46	1.00
387942--387967	7	3.7	7	100	0	52	88	0	0	11	0.52
388030--388067	15	2.6	15	91	4	60	52	2	0	44	1.14
388743--388788	25	1.9	24	86	8	67	50	0	0	50	1.00
389615--389640	12	2.2	12	100	0	52	76	0	15	7	0.99
389730--389756	12	2.2	12	100	0	54	85	0	14	0	0.61
390800--390853	22	2.4	22	81	3	63	55	1	0	42	1.10
391547--391590	16	2.7	17	86	10	65	11	4	0	84	0.77
391552--391589	8	4.9	8	87	6	60	10	2	0	86	0.66
391757--391799	14	2.8	15	82	13	52	51	0	0	48	1.00
391773--391814	23	1.9	21	85	9	57	42	0	0	57	0.99
398559--398773	107	2.0	107	98	0	412	35	14	7	41	1.74
403971--404016	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405127--405173	17	2.6	18	83	12	60	51	6	0	42	1.27
405536--405613	30	2.8	28	72	16	79	56	1	0	42	1.07
405741--405776	18	1.9	19	88	5	56	55	5	0	38	1.23
405797--405824	14	2.0	14	100	0	56	64	0	0	35	0.94
407603--407663	14	4.3	14	79	4	59	34	0	3	62	1.12
407616--407656	19	2.1	19	86	13	57	31	0	0	68	0.90
409443--409491	11	4.4	11	77	12	55	63	0	0	36	0.95
409449--409494	23	2.0	24	86	4	67	65	0	0	34	0.93
409853--409897	17	2.4	18	82	14	56	71	2	2	24	1.09
409868--409900	17	1.9	17	100	0	66	72	3	0	24	0.98
410040--410086	22	2.2	20	85	7	58	61	0	0	38	0.96
410063--410111	26	2.0	24	84	8	62	48	2	0	48	1.12
413482--413519	19	2.0	20	89	5	60	34	2	28	34	1.71
416056--416163	1	108.0	1	85	0	144	7	92	0	0	0.38
501772--501802	2	15.5	2	100	0	62	51	0	0	48	1.00
502519--502584	24	2.7	24	81	11	73	43	3	1	51	1.26
502535--502584	24	2.0	24	92	3	82	42	2	2	54	1.23
502846--502876	11	2.7	11	95	5	53	3	12	0	83	0.75
504699--504757	29	2.1	27	82	17	68	64	0	28	6	1.19
507041--507128	45	2.0	44	93	2	149	6	23	9	60	1.51
509137--509194	19	2.9	20	75	17	57	68	0	22	8	1.16
509369--509407	16	2.5	15	88	12	60	2	17	0	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510963--511001	19	2.1	19	90	0	60	64	0	0	35	0.94
512735--512774	19	2.2	19	86	4	55	37	0	10	52	1.35
515248--515279	2	16.0	2	100	0	64	50	0	0	50	1.00
515282--515341	28	2.1	28	90	0	93	55	18	3	23	1.58
518216--518259	9	5.1	9	79	20	58	59	0	0	40	0.98
520061--520102	16	2.6	17	78	21	54	59	2	0	38	1.10
520075--520117	22	1.9	23	90	4	70	62	0	0	37	0.95
521813--521864	22	2.3	23	86	3	70	57	0	0	42	0.98
521988--522027	19	2.0	20	85	4	55	67	5	0	27	1.11
527013--527247	79	2.9	79	79	8	228	30	22	11	35	1.90
527051--527377	79	4.1	80	76	9	235	28	22	12	36	1.91
527365--527669	79	3.9	79	83	6	343	28	25	10	35	1.90
527078--527715	288	2.2	286	81	6	727	28	23	11	36	1.89
527601--527770	51	3.4	51	82	9	204	30	24	8	37	1.84
527521--527844	180	1.8	179	85	4	465	29	24	9	36	1.87
527703--527969	79	3.4	78	82	5	313	27	25	11	35	1.90
538691--538815	39	3.2	39	98	1	241	50	4	9	35	1.56
540605--540646	21	2.0	21	85	0	57	42	4	28	23	1.74
541095--541153	21	2.7	23	78	21	74	52	3	23	20	1.61
543822--543860	9	4.2	9	93	3	60	58	0	15	25	1.37
544562--544586	13	1.9	13	100	0	50	32	16	16	36	1.90
547896--548059	79	2.1	79	82	8	192	40	12	20	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548064--548405	79	4.3	78	80	5	353	26	24	12	36	1.91
548097--548445	160	2.2	159	80	8	381	27	22	10	38	1.88
548111--548510	79	5.1	76	77	10	306	27	22	11	39	1.88
548065--548556	239	2.1	239	81	7	565	26	23	12	37	1.90
548380--548554	79	2.2	78	84	8	212	27	21	13	38	1.90
548505--548610	51	2.1	51	82	12	128	31	23	7	37	1.83
550046--550085	18	2.2	19	86	4	55	40	12	15	32	1.84
550416--550467	19	2.7	19	90	3	77	36	17	15	30	1.91
550452--550478	13	2.1	13	100	0	54	40	14	14	29	1.86
550433--550497	32	2.0	32	90	3	103	40	16	16	26	1.90

Tables:   1   2   3   4   5   6   7   8   9