genome.fa.s55.2.7.7.80.10.50.1000.4.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2443 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)
480303--480364	21	2.8	21	80	14	72	85	11	1	1	0.74
481799--482011	28	7.6	26	82	11	219	30	29	18	21	1.97
481793--482011	85	2.6	83	86	4	321	30	29	17	21	1.97
481793--481991	56	3.5	57	91	2	314	29	29	18	22	1.97
481793--482037	56	4.3	56	86	5	291	30	30	17	21	1.96
481967--482047	28	2.8	28	81	12	85	33	28	18	19	1.96
481793--482037	113	2.2	112	83	7	291	30	30	17	21	1.96
482059--482193	43	3.0	43	77	12	171	24	24	19	31	1.98
482064--482241	52	3.7	49	83	6	197	24	25	19	30	1.98
482102--482338	52	4.7	51	77	5	198	24	24	18	32	1.97
483144--483168	13	1.9	13	100	0	50	36	16	16	32	1.90
483125--483190	32	2.1	32	91	0	105	33	15	18	33	1.92
483204--483258	20	2.8	20	88	5	76	32	14	12	40	1.84
489409--489450	18	2.3	18	100	0	84	40	28	11	19	1.87
497208--497255	9	5.2	9	80	14	62	85	10	4	0	0.73
497181--497267	14	6.4	13	71	12	59	80	11	2	5	0.97
497200--497264	23	2.9	22	84	6	85	81	13	3	1	0.88
498631--499864	632	2.0	632	98	0	2387	32	24	19	22	1.97
504215--504297	21	4.1	19	78	9	76	84	14	1	0	0.69
504214--504295	32	2.5	32	78	20	98	82	15	1	0	0.72
504253--504296	11	4.4	11	75	21	51	81	18	0	0	0.68
504215--504296	29	2.8	28	89	10	121	84	14	1	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504215--504285	1	71.0	1	71	0	52	85	12	1	0	0.65
507753--507778	13	2.0	13	100	0	52	30	15	15	38	1.88
510325--510363	13	3.0	13	92	0	69	33	15	20	30	1.94
510349--510427	20	3.7	20	78	15	77	43	15	16	25	1.87
512442--512472	15	2.1	15	93	0	53	12	22	16	48	1.80
514276--514320	21	2.1	21	84	8	56	22	20	4	53	1.63
516538--516563	13	2.0	13	100	0	52	30	15	15	38	1.88
520784--520831	9	5.2	9	80	14	62	85	10	4	0	0.73
520776--520844	23	2.9	24	81	12	81	81	14	4	0	0.84
520773--520843	19	3.4	21	76	11	65	81	15	2	0	0.80
520780--520843	14	4.7	13	75	14	58	82	14	3	0	0.78
522277--522488	28	7.6	27	85	9	241	32	29	17	19	1.95
522274--522468	57	3.5	57	90	3	290	30	29	18	21	1.97
522275--522488	85	2.5	84	85	6	299	32	29	17	20	1.96
522532--522768	49	4.9	49	79	7	243	25	22	17	34	1.96
522585--522767	101	1.8	101	90	0	294	24	22	18	34	1.96
522580--522813	101	2.3	101	82	1	281	24	24	17	33	1.96
523712--523766	20	2.8	20	100	0	110	36	14	10	38	1.81
524618--524663	21	2.2	20	82	14	58	26	17	15	41	1.88
528249--528387	52	2.7	52	88	1	199	28	17	13	39	1.88
534222--534247	13	2.0	13	100	0	52	30	15	15	38	1.88
536574--536620	21	2.3	21	76	23	55	42	4	19	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536741--536779	13	3.0	13	92	0	60	38	15	15	30	1.88
538859--538889	15	2.1	15	93	0	53	12	22	16	48	1.80
540693--540737	22	2.1	21	84	8	56	22	17	4	55	1.60
542955--542980	13	2.0	13	100	0	52	30	15	15	38	1.88
543362--543432	28	2.6	28	90	2	108	25	16	33	23	1.96
543454--543590	52	2.6	52	80	6	152	35	13	23	28	1.92
543577--543647	27	2.6	27	88	2	97	22	21	32	23	1.98
543636--543754	51	2.3	53	84	7	145	33	10	22	32	1.89
546185--546252	19	3.9	18	76	23	83	38	14	11	35	1.83
546207--546231	13	1.9	13	100	0	50	32	16	16	36	1.90
546188--546250	32	2.0	32	96	0	117	36	15	12	34	1.86
547125--547155	13	2.4	13	94	0	53	32	12	16	38	1.86
548095--548159	33	2.0	32	85	11	87	38	18	9	33	1.83
548189--548261	20	3.7	19	87	7	85	39	17	13	28	1.88
550757--550782	13	2.0	13	100	0	52	38	15	15	30	1.88
554056--554110	21	2.5	22	91	2	85	23	36	1	38	1.66
559713--559779	37	1.9	35	88	11	102	29	25	11	32	1.92
560220--560262	22	2.0	22	100	0	86	34	13	23	27	1.93
560305--560329	13	1.9	13	100	0	50	36	16	16	32	1.90
563375--563427	13	4.5	13	71	26	55	35	16	13	33	1.88
563375--563443	33	2.1	33	86	5	95	36	20	13	30	1.90
565856--566139	79	3.6	79	81	6	317	33	15	24	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566093--566161	27	2.5	28	90	4	113	26	18	31	23	1.97
566034--566238	103	2.0	104	87	2	295	32	15	27	24	1.96
566123--566290	76	2.2	76	83	4	212	31	15	26	26	1.96
568717--568759	20	2.1	21	95	4	79	32	11	23	32	1.90
568788--568815	13	2.2	13	100	0	56	39	17	14	28	1.89
568867--568916	19	2.6	19	96	0	91	38	18	12	32	1.87
569681--569770	42	2.1	42	82	8	103	41	13	27	17	1.87
569552--569770	119	1.9	116	80	11	257	38	14	26	20	1.91
569777--569859	26	3.0	28	67	22	75	22	22	27	26	1.99
569757--570312	55	9.9	55	88	5	717	25	20	26	27	1.99
569998--570194	27	7.2	27	60	3	88	24	21	26	26	1.99
574033--574250	107	2.0	111	84	7	295	35	22	10	30	1.88
576146--576185	21	1.9	21	90	10	64	65	0	0	35	0.93
576149--576197	19	2.4	21	80	10	57	57	0	0	42	0.99
576247--576287	6	6.8	6	100	0	82	17	0	31	51	1.46
576249--576300	12	4.2	12	85	9	59	23	0	26	50	1.50
577055--577107	19	2.6	21	73	14	56	47	1	0	50	1.12
577534--577570	13	2.8	13	91	0	56	45	0	0	54	1.00
577605--577704	43	2.3	43	91	6	159	45	0	4	51	1.20
577689--577727	15	2.6	15	79	0	51	56	0	0	43	0.99
577803--577854	10	5.2	10	81	6	52	42	1	0	55	1.10
577972--578001	14	2.1	14	100	0	60	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578316--578356	21	1.9	22	85	14	59	58	0	0	41	0.98
578323--578356	14	2.4	14	95	5	59	58	0	0	41	0.98
578599--578678	27	3.0	27	79	15	78	36	2	0	61	1.10
578606--578678	26	2.8	25	75	16	69	35	2	0	61	1.10
579795--579862	27	2.4	27	79	11	75	61	1	0	36	1.05
579822--579910	32	2.7	32	77	18	101	52	0	0	47	1.00
579856--579934	20	3.5	21	68	21	54	54	0	0	45	0.99
580364--580409	18	2.6	18	82	10	58	43	0	2	54	1.12
580449--580501	20	2.6	21	82	11	65	47	0	0	52	1.00
580493--580535	22	2.0	22	90	9	70	55	0	0	44	0.99
580728--580777	15	3.4	15	72	13	50	50	0	2	48	1.12
580732--580780	14	3.4	14	78	13	55	46	0	2	51	1.12
581294--581328	18	1.9	18	94	0	61	45	5	5	42	1.51
581906--581956	17	2.9	18	71	14	52	60	1	0	37	1.08
582901--582936	3	12.0	3	93	0	54	33	5	0	61	1.19
586439--586463	2	12.5	2	100	0	50	52	0	0	48	1.00
590650--590674	6	4.2	6	100	0	50	68	16	16	0	1.22
596923--597456	166	3.2	165	84	5	675	30	8	10	50	1.66
598794--599109	162	2.0	160	86	3	438	39	13	11	35	1.81
599618--599673	20	2.8	19	83	5	67	37	16	16	30	1.90
599732--599757	13	2.0	13	100	0	52	38	15	15	30	1.88
599714--599777	32	2.0	33	87	3	94	40	17	14	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601973--602017	21	2.1	22	88	8	67	55	4	17	22	1.60
602706--602762	21	2.7	21	97	0	105	33	10	19	36	1.86
602818--602885	19	3.9	19	78	21	85	35	11	14	38	1.83
602839--602863	13	1.9	13	100	0	50	36	16	16	32	1.90
602820--602882	32	2.0	32	96	0	117	34	12	15	36	1.86
602925--602950	13	2.0	13	100	0	52	30	15	15	38	1.88
602905--602971	33	2.0	33	88	0	98	25	14	16	43	1.86
605420--605492	27	2.7	27	87	6	94	23	34	21	20	1.97
605475--605645	51	3.3	51	79	4	198	29	26	11	32	1.92
605628--605709	28	2.9	28	80	7	87	24	30	17	28	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21