genome.fa.s44.2.7.7.80.10.50.1000.4.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: Scaffold44
Parameters: 2 7 7 80 10 50 1000
Length:  3265628

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  4  of  17  ( 1994 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)
537995--538224	126	1.8	126	94	0	406	35	11	12	40	1.79
539148--539199	13	4.5	13	71	26	53	36	15	13	34	1.87
539148--539215	33	2.1	33	86	10	95	35	17	14	32	1.91
539098--539321	105	2.1	105	100	0	448	33	14	16	36	1.88
539253--539304	13	4.5	13	71	26	53	36	15	13	34	1.87
539253--539320	33	2.1	33	86	10	95	35	17	14	32	1.91
539349--539406	19	3.1	18	88	11	89	32	17	15	34	1.91
539390--539421	13	2.5	13	94	0	55	40	12	15	31	1.85
539371--539435	32	2.0	33	87	3	96	38	13	16	30	1.88
541943--541969	13	2.1	13	100	0	54	40	14	14	29	1.86
545860--545907	21	2.3	21	82	7	62	25	12	4	58	1.52
548116--548184	33	2.1	33	86	5	95	39	17	11	31	1.85
548212--548267	19	2.8	20	87	12	89	33	17	14	33	1.90
548237--548298	33	1.9	32	90	3	97	41	16	12	29	1.85
548926--548982	19	2.9	20	78	5	71	33	15	10	40	1.82
549031--549089	14	4.2	14	77	0	64	23	23	11	40	1.88
549031--549089	28	2.1	28	87	0	82	23	23	11	40	1.88
549877--549904	2	14.0	2	100	0	56	50	0	0	50	1.00
550089--550154	24	2.7	26	73	20	68	51	1	1	45	1.19
550381--550407	13	2.1	13	100	0	54	29	14	0	55	1.40
553330--553363	17	2.0	17	88	0	50	32	5	2	58	1.37
555645--555671	4	6.8	4	100	0	54	74	0	0	25	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555668--555697	9	3.3	9	100	0	60	60	0	0	40	0.97
556167--556192	13	2.0	13	100	0	52	30	15	15	38	1.88
560282--560320	20	2.0	19	90	5	60	53	0	2	43	1.14
563548--563572	13	1.9	13	100	0	50	36	16	16	32	1.90
563613--563679	33	2.0	33	88	0	98	40	13	11	34	1.81
563635--563659	13	1.9	13	100	0	50	32	16	16	36	1.90
563992--564030	6	6.5	6	87	0	51	35	38	17	7	1.79
564072--564106	16	2.2	16	100	0	70	40	25	17	17	1.90
565529--565553	13	1.9	13	100	0	50	36	16	16	32	1.90
565509--565579	34	2.1	34	86	2	99	33	11	14	40	1.81
565653--565751	32	3.4	32	64	28	92	34	18	18	29	1.94
565653--565776	55	2.3	55	94	4	218	34	17	17	29	1.94
569584--569614	3	10.3	3	100	0	62	32	0	0	67	0.91
574329--574366	19	2.0	20	94	5	69	13	5	5	76	1.13
574329--574367	18	2.1	19	90	4	62	15	5	5	74	1.17
574584--574614	14	2.1	15	94	5	55	35	0	0	64	0.94
574722--574746	13	1.9	13	100	0	50	56	0	12	32	1.36
575317--575361	18	2.4	19	85	10	58	6	13	2	77	1.05
576188--576231	17	2.6	17	86	10	56	50	0	2	47	1.13
576261--576301	21	2.0	20	85	4	55	73	2	21	2	1.07
578014--578052	13	3.0	13	100	0	78	38	15	15	30	1.88
582111--582141	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584211--584249	13	3.0	13	96	0	69	30	17	15	35	1.91
586800--586825	13	2.0	13	100	0	52	38	15	15	30	1.88
586782--586845	32	2.0	33	90	3	103	42	15	14	28	1.86
587727--587780	19	2.8	20	80	5	65	38	12	14	33	1.85
587802--587852	20	2.5	20	96	0	93	29	15	19	35	1.93
588044--588082	19	1.9	19	85	10	51	25	15	7	51	1.70
588815--588842	13	2.2	13	100	0	56	28	14	17	39	1.89
588795--588860	33	2.0	33	88	5	98	30	15	13	40	1.85
593070--593099	6	5.0	6	100	0	60	66	0	0	33	0.92
597085--597151	28	2.4	28	84	0	89	44	10	14	29	1.79
597176--597236	28	2.2	28	90	0	95	44	6	18	31	1.75
598588--598655	33	2.1	32	88	2	100	33	14	14	36	1.87
600615--600657	22	2.0	22	86	4	61	37	4	13	44	1.65
609451--609742	159	1.8	159	99	0	575	35	15	14	34	1.87
609706--609745	20	2.0	20	85	0	53	40	10	17	32	1.83
621463--621569	50	2.1	51	86	8	148	40	11	18	29	1.86
621612--621691	20	4.0	20	81	1	79	35	21	8	35	1.84
622287--622476	52	3.6	53	80	4	181	37	15	20	25	1.92
622395--622492	51	1.9	52	80	2	117	38	18	19	23	1.93
622546--622871	33	10.0	31	77	8	274	22	17	30	29	1.96
622546--622871	64	5.0	64	79	8	311	22	17	30	29	1.96
622550--622854	131	2.3	128	81	7	346	23	17	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622550--622888	131	2.6	128	76	8	312	23	17	30	28	1.97
622875--622936	28	2.2	28	85	2	79	38	16	24	20	1.92
622872--623028	60	2.5	62	85	3	210	39	12	24	22	1.89
622874--623124	29	8.2	29	75	9	198	38	12	25	23	1.90
622874--623063	32	6.0	34	78	11	167	38	12	25	22	1.90
622889--623120	95	2.5	91	79	11	265	37	11	25	25	1.90
630147--630201	20	2.8	20	82	0	65	40	14	12	32	1.84
631527--631674	51	2.9	49	79	8	161	38	12	21	27	1.89
631609--631863	79	3.2	79	92	0	420	31	14	25	27	1.95
631816--631889	27	2.7	27	87	2	94	22	20	33	22	1.97
633090--633170	34	2.7	28	77	20	99	17	29	6	46	1.72
633107--633180	34	2.1	35	97	2	141	18	32	6	41	1.77
633150--633201	21	2.5	21	100	0	104	19	26	5	48	1.71
633116--633224	56	2.0	55	98	1	209	18	29	5	46	1.71
633237--633265	12	2.3	13	94	5	51	27	0	3	68	1.05
633344--633397	20	2.7	19	80	8	63	38	18	14	27	1.90
633387--633411	13	1.9	13	100	0	50	32	16	16	36	1.90
633399--633450	20	2.6	20	81	0	68	40	17	15	26	1.89
633492--633517	13	2.0	13	100	0	52	30	15	15	38	1.88
633472--633539	33	2.1	32	89	8	102	35	17	13	33	1.89
637276--637310	17	2.0	17	88	5	52	34	5	0	60	1.21
639338--639373	15	2.2	17	90	9	58	41	2	11	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640299--640355	20	2.9	19	81	2	69	38	12	15	33	1.85
641999--642063	33	2.0	33	87	0	94	32	15	15	36	1.89
642019--642043	13	1.9	13	100	0	50	32	16	16	36	1.90
642093--642148	19	2.9	19	86	2	76	35	14	17	32	1.90
650735--650776	21	2.0	21	90	0	66	42	0	9	47	1.36
653113--653160	17	2.8	16	81	12	51	37	0	6	56	1.25
654598--654640	21	2.0	21	86	0	59	27	16	34	20	1.94
658498--658590	40	2.3	40	84	0	123	30	8	15	46	1.75
662973--663523	155	3.5	154	79	8	571	39	20	16	24	1.92
669462--669548	36	2.6	33	81	7	86	32	16	24	27	1.96
678269--679339	155	6.9	153	85	2	1151	37	22	17	22	1.94
680418--680459	22	1.9	22	95	0	75	0	19	14	66	1.25
680436--680477	15	2.9	14	86	13	59	0	21	14	64	1.29
680444--680469	13	2.0	13	100	0	52	0	23	15	61	1.33
680422--680497	32	2.2	33	81	11	82	1	19	15	63	1.38
681390--681451	14	4.5	14	77	16	67	64	0	0	35	0.94
685845--685892	16	3.0	16	84	0	60	39	2	4	54	1.32
686149--686199	26	2.0	26	88	3	77	25	1	0	72	0.95
686280--686329	16	2.9	17	85	14	68	38	0	0	62	0.96
689329--689869	165	3.3	164	84	4	662	29	9	9	52	1.64
689329--690045	166	4.3	166	79	7	674	29	10	8	51	1.66
689836--689879	18	2.4	19	80	7	54	25	9	2	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689290--690045	331	2.3	330	78	7	748	30	10	8	50	1.67
690481--690525	21	2.1	21	83	4	54	80	2	15	2	0.92
691704--692244	156	3.5	154	80	6	538	25	16	18	39	1.92
696810--696972	77	2.1	80	81	4	188	26	18	11	43	1.83
702137--702284	51	2.9	51	92	2	233	30	15	19	34	1.93
702273--702297	13	1.9	13	100	0	50	36	16	16	32	1.90
702343--702455	19	6.5	19	75	23	124	37	18	11	32	1.87
702359--702415	13	3.9	13	76	24	60	33	17	14	35	1.90
702335--702434	32	3.1	32	97	0	182	36	19	12	33	1.88
702492--702533	21	2.0	21	90	0	66	35	19	14	30	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17