genome.fa.s275.2.7.7.80.10.50.1000.1.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: Scaffold275
Parameters: 2 7 7 80 10 50 1000
Length:  1025155

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 811 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)
1772--1859	39	2.2	40	86	6	117	32	19	21	26	1.97
3210--3239	15	1.9	16	93	6	53	63	3	0	33	1.11
3445--3493	13	3.8	12	77	15	53	73	2	0	24	0.94
4626--4657	13	2.3	15	89	10	50	50	0	0	50	1.00
5884--5937	27	2.0	28	85	3	74	37	1	0	61	1.07
7035--7059	3	8.3	3	100	0	50	68	0	0	32	0.90
10308--10485	86	2.1	86	93	0	302	53	5	5	34	1.48
10685--10748	19	3.3	19	78	8	67	68	0	0	31	0.90
10685--10752	26	2.5	26	75	17	68	66	0	0	33	0.92
11736--11794	30	2.0	28	83	6	73	40	5	3	50	1.41
19805--19868	27	2.5	25	82	7	76	25	7	21	45	1.78
23488--23704	34	6.4	34	84	2	267	25	7	26	40	1.82
23488--23704	102	2.1	101	90	1	344	25	7	26	40	1.82
28115--28333	34	6.5	34	85	2	280	25	7	26	40	1.82
28115--28333	102	2.2	101	91	1	357	25	7	26	40	1.82
30306--30365	20	3.1	18	75	17	50	45	0	3	51	1.17
31147--31180	14	2.5	13	90	4	50	44	0	0	55	0.99
31180--31216	17	2.1	19	90	10	60	51	0	2	45	1.15
32607--32655	20	2.5	20	80	16	57	65	2	0	32	1.04
32856--32888	17	1.9	17	88	11	50	27	0	0	72	0.85
33388--33437	23	2.1	25	85	7	68	34	0	2	64	1.05
33396--33426	14	2.2	14	94	0	53	32	0	3	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33422--33511	44	2.0	44	81	8	103	33	3	1	62	1.19
33701--33736	14	2.6	14	91	4	56	36	2	2	58	1.27
34155--34538	191	2.0	191	100	0	768	28	15	18	38	1.90
34561--34644	42	2.0	42	97	0	159	34	19	10	35	1.86
38445--38495	21	2.4	21	80	6	68	41	27	3	27	1.73
40665--40716	19	2.7	20	84	6	70	38	17	13	30	1.88
42918--42967	21	2.3	21	80	10	57	56	4	18	22	1.58
46871--46907	13	2.8	13	87	0	56	29	16	21	32	1.95
48710--48747	6	6.7	6	96	3	62	0	0	10	89	0.49
49469--49520	19	2.7	20	87	6	79	38	19	13	28	1.89
52629--52738	52	2.1	52	93	0	184	29	16	18	36	1.92
52629--52765	52	2.6	52	83	4	161	31	16	18	34	1.93
52754--52778	13	1.9	13	100	0	50	36	16	16	32	1.90
52819--52885	33	2.0	33	88	0	98	40	14	11	32	1.83
52841--52865	13	1.9	13	100	0	50	32	16	16	36	1.90
54037--54088	20	2.7	20	87	3	70	30	13	17	38	1.88
54121--54173	20	2.6	21	84	3	72	28	16	15	39	1.89
54162--54212	20	2.5	20	87	0	66	33	15	15	35	1.90
55099--55156	30	2.0	30	82	3	73	46	13	5	34	1.66
58757--58823	29	2.3	29	86	0	89	53	1	1	43	1.19
59951--60002	3	17.3	3	100	0	104	67	0	0	32	0.91
61252--61281	2	15.0	2	100	0	60	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)
62247--62287	2	20.5	2	100	0	82	51	0	48	0	1.00
64113--64152	2	20.0	2	100	0	80	50	0	50	0	1.00
65846--65884	18	2.1	18	85	4	51	58	0	0	41	0.98
67588--67637	17	3.1	17	82	5	50	50	0	0	50	1.00
69664--69708	3	15.0	3	85	0	54	57	33	8	0	1.30
69664--69707	12	3.7	12	87	0	61	56	34	9	0	1.31
69667--69708	15	2.8	15	88	0	66	57	33	9	0	1.31
71194--71221	2	14.0	2	100	0	56	50	0	50	0	1.00
71268--71299	2	16.0	2	93	0	55	46	0	0	53	1.00
73457--73486	2	15.0	2	100	0	60	50	0	0	50	1.00
73602--73649	2	24.5	2	95	4	89	50	0	0	50	1.00
74588--74636	3	16.3	3	95	0	89	65	0	2	32	1.04
75384--75440	30	1.9	30	82	13	73	54	0	3	42	1.17
76320--76350	2	16.0	2	93	6	55	48	0	0	51	1.00
76564--76608	2	22.5	2	95	0	81	48	0	2	48	1.13
77328--77479	69	2.2	69	79	0	169	40	26	3	28	1.74
81574--82068	175	2.8	175	90	3	764	43	14	11	30	1.81
84598--84694	20	4.7	20	78	10	88	31	16	15	36	1.90
84536--84634	51	1.9	51	87	0	144	29	18	12	40	1.86
84617--84694	20	3.8	20	85	9	102	32	17	12	37	1.88
93188--93231	24	1.9	22	86	9	61	61	0	0	38	0.96
104000--104079	36	2.2	36	82	8	92	36	7	2	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104126--104183	29	2.0	29	93	0	98	63	1	0	34	1.04
104146--104192	18	2.5	19	79	10	60	68	2	0	29	1.02
106869--106911	2	21.5	2	100	0	86	51	0	0	48	1.00
111233--111324	34	2.9	30	77	20	89	45	0	0	54	0.99
111266--111326	24	2.8	24	69	19	60	42	0	0	57	0.98
111880--111950	24	2.7	26	75	20	67	45	0	0	54	0.99
111842--111940	21	4.6	20	71	14	63	49	0	0	50	1.00
112244--112277	16	2.1	17	88	5	52	55	0	0	44	0.99
112243--112319	29	2.6	31	76	12	81	58	1	0	40	1.06
113243--113284	3	14.0	3	94	0	75	33	2	0	64	1.07
113334--113377	21	2.2	20	84	15	56	59	0	6	34	1.24
113567--113790	112	2.0	112	98	0	430	55	9	4	29	1.53
114134--114176	5	8.8	5	89	5	52	11	0	6	81	0.87
114345--114391	24	1.9	25	83	12	62	53	2	0	44	1.12
114434--114462	2	14.5	2	100	0	58	48	0	0	51	1.00
122201--122265	18	3.7	18	77	20	75	63	0	0	36	0.95
122200--122254	19	2.9	20	86	10	80	63	0	0	36	0.95
126932--126960	6	4.8	6	100	0	58	34	0	17	48	1.47
127131--127155	13	1.9	13	100	0	50	32	16	12	40	1.84
128313--128381	32	2.2	32	84	5	86	55	0	0	44	0.99
128317--128379	19	3.2	20	72	14	60	58	0	0	41	0.98
132371--132409	2	20.0	2	94	5	71	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
136214--136274	32	1.9	31	90	3	95	45	1	3	49	1.28
136231--136327	38	2.4	40	83	11	117	43	2	1	53	1.19
138604--138634	2	15.5	2	93	0	53	48	0	0	51	1.00
139951--139977	3	9.0	3	100	0	54	33	0	0	66	0.92
140174--140320	49	3.0	48	76	13	147	42	3	20	33	1.69
140796--140857	32	2.0	31	90	3	97	40	1	3	54	1.26
140796--140857	31	2.0	32	87	9	92	40	1	3	54	1.26
141694--141734	20	2.0	21	90	4	66	53	2	0	43	1.13
142342--142369	13	2.2	13	100	0	56	32	0	0	67	0.91
143988--144023	11	3.3	11	84	0	54	63	2	0	33	1.08
144551--144599	19	2.6	19	87	6	64	34	4	0	61	1.15
145118--145164	23	2.1	22	84	4	58	61	4	0	34	1.15
145622--145673	15	3.6	14	77	12	52	55	15	0	28	1.40
145885--145989	27	4.1	27	68	17	80	37	0	1	60	1.07
145946--145975	15	1.9	16	93	6	53	40	0	0	60	0.97
145893--145979	28	3.2	27	76	10	81	35	0	1	63	1.02
146186--146224	2	18.5	2	84	10	51	43	2	2	51	1.29
146646--146682	14	2.6	14	82	0	56	37	0	0	62	0.96
146952--146977	13	2.0	13	100	0	52	23	0	0	76	0.78
147205--147250	21	2.3	19	85	7	56	65	4	0	30	1.12
147211--147259	19	2.4	22	83	10	59	63	4	2	30	1.24
147401--147450	23	2.1	23	85	3	64	68	0	32	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
147763--147814	23	2.4	22	81	15	63	30	0	1	67	1.02
147884--147912	3	9.7	3	100	0	58	34	0	0	65	0.93
148522--148571	26	1.9	26	88	8	75	46	2	2	50	1.24
148657--148707	24	2.1	24	85	0	66	47	1	1	49	1.24
148851--148914	32	2.0	31	87	3	92	56	1	1	40	1.18
148855--148955	44	2.3	43	81	6	116	52	0	1	44	1.19
148889--148963	24	3.3	24	72	12	77	48	1	2	48	1.24
154419--154504	44	2.0	44	84	9	113	52	6	11	29	1.64
154354--154469	29	4.0	29	76	10	112	56	6	6	30	1.49
154463--154584	29	4.2	29	82	2	111	54	5	10	28	1.57

Tables:   1   2   3   4   5   6   7