genome.fa.s62.2.7.7.80.10.50.1000.1.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: Scaffold62
Parameters: 2 7 7 80 10 50 1000
Length:  1452230

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 839 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)
2829--2855	13	2.1	13	100	0	54	40	14	14	29	1.86
3399--3453	22	2.5	22	91	2	85	23	30	3	41	1.72
5170--5209	22	1.9	19	85	14	53	50	0	20	30	1.49
9274--9316	21	2.0	21	81	0	50	30	11	4	53	1.57
11493--11542	20	2.5	20	81	15	59	40	20	8	32	1.81
11571--11644	20	3.8	19	87	7	87	39	17	14	28	1.89
15436--15489	20	2.7	21	85	5	67	38	18	9	33	1.83
15923--16064	53	2.7	53	83	7	175	36	15	23	23	1.94
15914--16091	53	3.4	52	75	11	166	38	14	21	24	1.91
16197--16323	31	4.0	30	84	8	155	21	19	29	29	1.98
18339--18387	20	2.5	20	83	3	64	34	16	16	32	1.91
18391--18446	20	2.8	19	80	15	69	42	14	14	28	1.84
20888--20927	13	3.1	13	88	0	62	40	15	12	32	1.84
25551--25610	32	1.9	30	93	6	102	53	13	16	16	1.73
33564--33629	33	2.0	33	87	0	96	28	28	13	28	1.94
33984--34029	21	2.1	22	88	4	67	34	4	23	36	1.75
44563--44597	11	3.1	11	91	4	52	80	0	20	0	0.72
44562--44600	12	3.2	12	92	3	60	79	0	20	0	0.73
48085--48542	61	7.4	61	84	5	494	25	26	19	27	1.99
48086--48541	183	2.5	181	84	5	549	25	26	19	28	1.99
48518--48763	42	6.0	40	78	8	210	21	25	12	41	1.88
48518--48759	81	2.9	82	82	4	220	21	25	12	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48552--48830	42	6.6	42	79	5	269	19	23	12	44	1.85
48551--48828	123	2.2	128	81	5	323	19	23	12	44	1.84
48763--48937	75	2.3	74	79	5	179	23	25	12	39	1.89
48798--48960	75	2.2	75	80	3	186	20	26	12	39	1.88
53384--53596	96	2.2	95	85	3	286	36	13	24	25	1.92
55353--55387	12	2.9	12	91	0	52	25	5	37	31	1.80
55812--55863	20	2.6	20	93	0	86	34	13	15	36	1.87
56785--57069	143	2.0	142	97	0	534	28	24	18	28	1.98
57318--57383	19	3.4	19	80	2	69	39	9	21	30	1.84
58578--59139	79	7.2	78	78	7	507	34	13	24	27	1.93
58578--59138	158	3.6	157	79	6	584	34	13	24	27	1.93
59097--59165	28	2.5	28	90	4	104	26	15	31	26	1.96
61671--61721	18	2.7	19	87	6	68	37	13	9	39	1.78
61671--61724	20	2.9	18	88	5	72	35	12	9	42	1.75
62369--62551	61	3.0	61	80	6	224	28	18	25	26	1.98
63351--63408	19	3.1	18	88	11	89	32	17	15	34	1.91
63373--63437	33	2.0	32	87	3	94	40	13	15	30	1.86
65780--65819	21	2.0	21	85	14	57	42	0	22	35	1.54
65779--65853	21	3.7	20	67	19	55	44	0	20	36	1.52
65967--66018	20	2.8	18	88	11	86	30	19	11	38	1.87
72180--72204	13	1.9	13	100	0	50	32	16	20	32	1.94
72526--73011	59	8.4	59	81	6	508	27	16	27	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72526--73011	171	2.8	174	80	7	538	27	16	27	28	1.97
74902--74949	23	2.0	24	92	4	80	39	22	31	6	1.79
81382--81443	19	3.2	19	71	13	54	41	14	14	29	1.85
81431--81487	13	3.9	13	76	24	60	35	14	17	33	1.90
81410--81514	32	3.3	32	98	0	201	34	12	18	35	1.88
81389--81506	19	6.8	18	71	24	94	35	12	16	34	1.87
81530--81573	21	2.1	21	100	0	88	43	9	18	29	1.80
81561--81585	13	1.9	13	100	0	50	36	16	8	40	1.77
81615--81677	20	3.1	20	97	2	117	33	23	11	31	1.90
83968--84114	51	2.9	50	83	11	183	28	23	11	36	1.90
84072--84343	76	3.5	76	86	3	357	27	22	13	35	1.93
84309--84421	51	2.2	51	82	6	140	30	30	8	29	1.88
84402--84478	28	2.8	28	90	4	120	23	32	19	24	1.97
84430--84576	79	1.9	79	86	2	215	27	28	14	29	1.96
88414--88441	14	2.0	14	100	0	56	42	7	21	28	1.79
90549--90651	51	2.0	51	83	7	129	37	5	27	29	1.80
90611--90721	51	2.2	51	80	3	125	38	13	21	26	1.90
90663--90982	79	4.1	78	82	4	331	37	13	21	26	1.91
95658--95697	11	3.6	11	80	12	55	75	0	25	0	0.81
95649--95707	22	2.7	21	73	17	57	69	0	25	5	1.09
96435--96489	20	2.7	20	85	5	65	30	16	12	40	1.86
100101--100479	164	2.3	163	81	6	440	40	13	10	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102947--102974	6	4.7	6	100	0	56	0	35	0	64	0.94
107152--107177	13	2.0	13	100	0	52	30	15	15	38	1.88
107132--107194	32	2.0	31	90	6	99	28	12	15	42	1.84
107243--107299	20	2.8	21	84	7	82	29	14	14	42	1.84
463832--463869	15	2.5	16	87	8	53	28	13	5	52	1.61
463840--463871	15	2.1	16	94	5	57	25	18	6	50	1.70
467051--467106	21	2.7	21	83	5	60	17	19	0	62	1.33
467066--467109	21	2.1	21	91	0	70	20	18	0	61	1.35
469540--469824	153	1.9	153	81	8	355	49	8	8	33	1.63
471617--471747	66	2.0	67	90	1	210	25	22	19	32	1.98
471623--471772	66	2.3	66	84	0	192	24	23	18	33	1.97
472099--472139	19	2.0	22	86	13	61	39	4	9	46	1.58
472107--472149	21	2.0	21	82	8	52	34	4	13	46	1.65
472917--473212	155	1.9	154	80	6	348	28	15	19	37	1.92
477278--477328	18	2.7	20	81	12	70	37	3	15	43	1.66
477427--477459	11	2.8	12	86	9	50	51	0	0	48	1.00
480155--480218	19	3.1	19	69	30	58	65	3	4	26	1.27
481354--481401	18	2.7	18	80	0	51	52	8	4	35	1.51
482795--482858	30	2.1	30	94	0	110	26	17	18	37	1.93
483228--483257	15	2.0	15	100	0	60	20	20	26	33	1.97
485884--485916	2	17.0	2	87	6	50	0	45	0	54	0.99
486681--486715	16	2.2	16	94	0	61	0	14	0	85	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493735--493769	15	2.2	16	90	5	54	31	14	0	54	1.40
498330--498355	9	2.9	9	100	0	52	0	7	23	69	1.14
498158--498531	198	1.9	198	97	0	712	33	11	16	38	1.85
498732--498782	19	2.6	20	87	3	68	39	13	17	29	1.88
500520--501385	289	3.0	289	98	0	1657	37	14	14	33	1.87
504760--504815	28	2.0	27	82	3	67	50	8	16	25	1.74
506588--506617	15	2.0	15	100	0	60	33	13	20	33	1.91
507612--507637	13	2.0	13	100	0	52	30	23	15	30	1.95
507725--507755	10	3.1	10	90	0	53	41	6	29	22	1.78
507780--507916	53	2.6	53	95	1	247	27	17	18	37	1.93
507886--507956	20	3.5	20	77	11	74	29	12	16	40	1.86
507996--508036	21	2.0	21	85	9	57	39	9	12	39	1.76
509135--509164	13	2.3	13	94	0	51	33	16	10	40	1.82
511665--511722	27	2.1	27	93	0	98	24	27	17	31	1.97
511609--511797	105	1.8	105	83	6	258	28	24	13	33	1.94
511687--511835	80	1.9	79	86	9	214	26	22	14	35	1.93
511687--511856	80	2.1	79	84	9	213	27	23	15	33	1.95
518083--518175	46	2.0	46	100	0	186	34	6	33	25	1.82
518214--518250	19	1.9	19	94	0	65	27	35	10	27	1.90
535823--535850	13	2.2	13	100	0	56	39	17	14	28	1.89
535805--535870	33	2.0	33	85	5	89	40	15	15	28	1.87
535902--535951	19	2.6	19	93	0	82	34	22	10	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536812--537763	39	20.8	51	70	19	340	29	18	26	26	1.98
536808--537395	88	6.3	101	87	5	373	29	18	26	25	1.98
536812--537392	49	12.5	51	68	20	234	29	18	26	25	1.98
537016--537650	39	14.8	39	71	17	343	27	19	25	27	1.99
536962--537603	88	7.3	87	92	1	987	28	19	26	26	1.99
537460--537708	126	1.9	131	86	4	355	28	18	25	28	1.98
537625--537761	51	2.6	53	83	6	181	31	16	27	24	1.96
537791--537910	35	3.1	41	82	10	119	38	10	37	14	1.79
537823--537910	41	2.1	42	85	4	117	40	9	36	13	1.76
537865--539059	33	37.2	33	78	10	984	36	12	31	19	1.89

Tables:   1   2   3   4   5   6   7