genome.fa.s50.2.7.7.80.10.50.1000.3.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  3  of  16  ( 1865 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)
504455--504732	31	8.7	33	80	7	263	35	14	27	22	1.93
504511--504741	68	3.5	68	82	10	234	37	13	27	21	1.91
511341--511391	24	2.1	24	88	0	75	39	9	23	27	1.86
515006--515045	20	2.0	20	85	14	55	32	22	0	45	1.53
516789--516824	15	2.3	16	90	4	56	41	2	11	44	1.54
517404--517462	20	3.1	19	87	2	82	37	15	13	33	1.86
521922--521986	32	2.0	32	88	11	96	29	15	16	38	1.90
521943--521968	13	2.0	13	100	0	52	30	15	15	38	1.88
522028--522080	20	2.6	21	76	8	56	30	16	15	37	1.90
522068--522092	13	1.9	13	100	0	50	36	16	16	32	1.90
529817--529880	33	2.0	32	87	3	92	28	14	18	39	1.90
529944--530007	20	3.5	20	72	27	79	29	15	18	35	1.92
529961--530019	13	5.1	12	75	21	63	32	16	16	33	1.92
529940--530019	33	2.5	33	97	2	153	32	16	17	33	1.92
529940--530040	33	3.1	33	90	7	127	31	16	17	33	1.93
531951--531999	21	2.3	21	96	0	89	24	12	28	34	1.91
532712--532737	8	3.2	8	100	0	52	61	23	0	15	1.33
541478--541508	13	2.4	13	94	0	53	35	12	16	35	1.87
541574--541627	19	2.8	20	85	2	74	37	18	16	27	1.93
542147--542211	17	3.8	17	78	6	78	30	33	1	33	1.67
542148--542220	17	4.2	18	73	7	69	30	32	2	34	1.72
542148--542220	35	2.1	35	97	0	137	30	32	2	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542216--542255	19	2.2	19	95	4	73	12	30	0	57	1.36
549285--549309	13	1.9	13	100	0	50	32	16	16	36	1.90
549297--549349	20	2.6	21	82	8	65	37	15	16	30	1.90
549409--549434	13	2.0	13	100	0	52	38	15	15	30	1.88
549391--549454	33	2.0	32	87	3	92	39	18	14	28	1.90
549417--549602	73	2.5	73	94	0	327	33	18	15	32	1.92
557575--557619	22	2.0	22	87	8	65	33	2	31	33	1.70
558175--558199	13	1.9	13	100	0	50	32	16	16	36	1.90
558270--558328	19	3.4	19	70	29	60	35	20	18	25	1.95
558281--558341	15	4.1	15	76	19	65	39	21	16	22	1.92
558288--558341	13	3.7	13	74	25	54	37	20	16	25	1.93
558270--558361	32	2.8	32	88	8	132	36	21	16	25	1.94
560415--560445	13	2.4	13	94	0	53	35	12	16	35	1.87
560395--560461	33	2.0	33	85	5	91	34	14	13	37	1.86
560494--560543	19	2.5	20	83	9	66	34	18	14	34	1.90
562403--562628	102	2.2	102	87	0	326	36	10	24	28	1.88
562403--562609	51	4.1	51	84	3	256	36	10	25	28	1.88
562464--562662	102	2.0	102	84	6	260	37	8	24	29	1.85
562622--562766	79	1.8	78	82	4	184	37	10	24	28	1.88
562727--562797	27	2.6	27	86	10	108	23	14	32	29	1.94
565152--565226	20	3.8	20	85	0	87	38	12	12	37	1.79
565749--565798	24	2.1	22	82	17	57	56	4	2	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565848--565884	18	2.1	18	90	10	58	62	0	8	29	1.24
565734--566147	152	2.8	148	82	5	449	52	8	5	33	1.54
565880--566189	152	2.0	151	81	7	351	51	9	6	32	1.58
572663--572706	23	1.9	23	86	9	63	52	0	0	47	1.00
574316--574347	2	16.0	2	100	0	64	50	0	0	50	1.00
574355--574424	27	2.6	27	76	13	72	52	2	4	40	1.36
574629--574673	18	2.4	20	82	14	60	46	0	0	53	1.00
576014--576055	12	3.4	12	78	15	50	45	0	0	54	0.99
576853--576879	13	2.1	13	100	0	54	29	14	14	40	1.86
576865--576920	19	2.9	19	89	5	85	33	12	16	37	1.86
576865--576918	20	2.8	20	91	2	83	33	12	14	38	1.85
578658--578724	33	2.0	33	88	0	98	34	11	13	40	1.81
578678--578702	13	1.9	13	100	0	50	36	16	16	32	1.90
578765--578789	13	1.9	13	100	0	50	32	16	16	36	1.90
578798--578925	52	2.5	52	93	3	215	33	17	17	31	1.93
582774--582815	21	2.0	20	86	13	59	54	4	16	23	1.61
587479--587597	52	2.3	52	82	8	136	32	13	26	26	1.94
587354--587690	132	2.6	132	86	2	446	34	13	24	27	1.93
587614--587729	51	2.3	51	87	3	162	31	12	25	31	1.93
587695--587945	109	2.3	107	81	2	297	32	15	24	27	1.95
587821--587894	28	2.6	28	89	8	107	22	20	33	22	1.97
590304--590396	20	4.7	20	85	5	116	43	13	16	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591022--591314	42	7.1	41	70	16	124	40	12	26	20	1.88
591169--591314	42	3.4	42	81	9	186	36	14	26	22	1.93
591346--591523	94	1.9	94	84	4	243	24	20	31	24	1.98
591386--591734	152	2.3	152	91	1	565	27	19	28	25	1.99
591606--591903	55	5.3	55	81	10	323	25	20	27	26	1.99
591652--591885	116	2.0	117	89	5	357	27	19	27	25	1.99
592972--593050	14	5.7	13	73	20	54	0	6	10	83	0.80
592978--593030	24	2.2	24	83	9	72	0	3	7	88	0.61
592989--593051	17	3.5	17	89	10	83	0	1	14	84	0.71
592989--593050	20	3.2	20	86	6	74	0	1	12	85	0.67
592978--593030	1	53.0	1	76	0	52	0	3	7	88	0.61
603226--603501	132	2.1	132	93	0	473	35	14	24	26	1.93
603226--603569	131	2.6	131	87	1	485	34	13	24	27	1.93
603506--603606	51	2.0	51	82	3	123	34	7	23	33	1.84
603226--603621	131	3.0	131	84	2	420	35	12	23	28	1.92
603698--603771	28	2.6	28	89	4	105	22	18	33	24	1.97
603573--603822	108	2.3	107	78	5	263	34	14	23	28	1.94
603754--603875	51	2.4	51	78	5	129	31	13	26	28	1.93
605910--605984	20	3.8	20	94	0	132	41	13	14	30	1.84
605999--606023	13	1.9	13	100	0	50	40	8	16	36	1.77
605970--606067	42	2.3	42	94	0	169	37	16	17	28	1.91
606041--606070	13	2.3	13	100	0	60	40	13	16	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609693--609850	30	5.5	30	67	21	124	26	15	16	41	1.88
609673--609797	50	2.5	50	97	0	232	24	16	16	42	1.88
609743--609866	62	2.0	63	88	1	187	29	15	15	40	1.88
612182--612386	79	2.6	79	83	4	261	27	24	13	34	1.93
612243--612516	130	2.1	131	88	2	408	28	24	12	33	1.92
612320--612439	51	2.4	51	91	0	204	29	25	12	33	1.92
612373--612547	80	2.2	80	80	7	196	27	25	13	33	1.94
612373--612709	187	1.8	184	83	5	455	26	26	13	33	1.94
625129--625186	11	5.5	11	77	8	66	87	8	3	0	0.64
625129--625180	14	3.5	14	85	14	77	88	9	1	0	0.59
625129--625186	1	58.0	1	77	0	53	87	8	3	0	0.64
625130--625186	26	2.2	26	90	6	89	87	8	3	0	0.64
626154--626549	157	2.6	149	82	7	508	25	28	17	28	1.97
626414--626823	55	7.2	55	87	5	448	28	26	20	25	1.99
626411--626895	110	4.2	111	81	9	512	27	26	20	26	1.99
626411--626900	165	2.8	168	83	7	592	27	26	19	26	1.99
626905--627134	44	5.3	42	73	12	153	16	24	12	46	1.82
627838--627946	30	3.5	30	67	18	89	27	15	16	40	1.89
629415--629807	79	5.0	79	85	4	490	27	24	13	34	1.93
632225--632279	19	2.8	19	86	5	74	30	12	20	36	1.90
632225--632278	20	2.8	20	88	2	74	29	12	20	37	1.90
634510--634787	151	1.8	152	85	0	387	35	15	11	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635892--635945	20	2.7	20	91	5	83	35	18	12	33	1.89
635975--636046	20	3.7	19	86	3	81	38	15	15	30	1.88
644635--644698	32	2.0	32	87	6	94	42	14	14	29	1.84
650307--650799	51	9.6	51	75	6	395	32	10	26	29	1.91
653120--653145	13	2.0	13	100	0	52	38	15	15	30	1.88
653132--653173	21	2.0	21	100	0	84	28	19	9	42	1.82
653197--653258	19	3.2	19	73	13	63	29	14	14	41	1.85
653995--654218	42	5.2	42	79	11	217	40	15	26	17	1.90
654205--654369	55	2.8	59	76	11	178	25	21	27	25	1.99
654256--654396	55	2.6	55	85	1	185	24	21	29	24	1.99

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