genome.fa.s300.2.7.7.80.10.50.1000.1.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: Scaffold300
Parameters: 2 7 7 80 10 50 1000
Length:  363256

Tables:   1   2   3   

This is table  1  of  3  ( 270 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)
440--1073	32	19.8	32	96	0	1081	14	18	35	31	1.91
1056--1574	27	19.0	27	88	3	702	27	14	34	23	1.94
1056--1603	82	6.7	81	89	3	792	27	14	34	23	1.94
1041--1603	219	2.6	218	89	5	839	27	14	34	23	1.94
10058--10132	20	3.8	20	80	3	80	40	12	13	34	1.81
10055--10132	40	2.0	39	87	2	111	39	12	12	34	1.82
10680--11554	27	32.0	27	91	2	1365	23	34	14	27	1.94
10680--11554	82	10.7	81	92	2	1365	23	34	14	27	1.94
10680--11554	109	8.0	109	92	2	1359	23	34	14	27	1.94
11546--12266	32	22.6	32	96	0	1255	31	34	18	14	1.92
12793--12867	20	3.8	20	76	0	78	36	13	10	40	1.79
12793--12870	40	2.0	39	84	2	102	35	12	11	39	1.80
13778--13832	21	2.5	23	88	11	96	18	10	9	61	1.54
13786--13839	21	2.6	21	91	2	65	20	9	9	61	1.54
17261--17327	18	4.0	17	72	21	61	41	0	0	58	0.98
17261--17337	11	6.6	12	71	19	56	40	0	0	59	0.97
17268--17328	31	2.0	31	87	6	88	40	0	0	59	0.98
19757--19805	22	2.2	22	82	10	55	44	2	0	53	1.12
23067--23115	22	2.3	22	89	3	73	44	2	0	53	1.12
23067--23115	21	2.3	21	89	3	53	44	2	0	53	1.12
23916--24098	34	5.4	34	88	0	260	25	7	26	39	1.83
24400--24462	19	3.3	19	90	0	90	28	17	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28528--28712	34	5.5	34	88	0	264	25	7	26	40	1.82
31879--31903	2	12.5	2	100	0	50	52	0	0	48	1.00
32005--32064	30	1.9	32	90	6	97	56	1	0	41	1.09
33932--33984	16	3.3	16	74	10	54	56	0	0	43	0.99
33978--34033	13	4.1	13	77	20	60	57	0	3	39	1.16
35567--35642	19	3.8	20	79	6	75	43	2	3	50	1.34
35567--35642	40	1.9	38	82	10	91	43	2	3	50	1.34
37043--37103	30	2.1	27	88	8	86	45	0	0	54	1.00
39472--39501	14	2.1	14	93	0	51	40	50	10	0	1.36
40882--40915	17	2.0	17	88	11	52	29	0	2	67	1.05
40886--40924	18	2.2	18	86	9	53	30	0	2	66	1.05
40977--41016	19	2.1	19	90	4	62	55	0	0	45	0.99
43056--43119	29	2.2	28	78	10	67	37	0	0	62	0.95
48478--48550	22	3.4	21	77	7	58	12	13	0	73	1.09
48614--48674	26	2.2	28	72	16	65	47	3	0	49	1.18
48621--48671	26	2.0	26	84	7	68	52	3	0	43	1.19
48732--48815	19	4.2	19	82	13	73	54	1	1	42	1.15
48775--48871	31	3.4	29	77	17	98	52	1	3	43	1.23
51732--51776	2	22.5	2	100	0	90	0	51	0	48	1.00
59872--59908	2	18.5	2	88	0	56	48	0	2	48	1.15
61642--61679	19	2.0	19	90	10	60	55	2	0	42	1.14
62171--62214	2	22.0	2	95	0	61	43	0	6	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62683--62800	4	29.5	4	88	0	128	50	9	0	39	1.41
62683--62800	10	11.8	10	84	0	128	50	9	0	39	1.41
62681--62797	14	8.8	14	88	7	165	50	10	0	38	1.42
63371--63433	21	3.0	21	79	9	58	39	1	1	57	1.18
63809--64003	94	2.1	96	98	1	376	39	8	23	29	1.83
65050--65083	2	17.0	2	93	0	59	0	47	2	50	1.16
76444--76488	21	2.1	21	87	0	63	44	0	2	53	1.13
77465--77497	17	1.9	17	88	11	50	66	0	3	30	1.06
77750--77784	17	2.0	18	88	5	54	45	8	0	45	1.34
83549--83586	19	2.1	19	95	5	69	39	26	7	26	1.83
85745--85792	22	2.1	24	84	7	64	39	2	0	58	1.10
86146--86207	27	2.2	30	85	8	85	41	0	0	58	0.98
86155--86227	27	2.7	27	77	8	69	42	1	1	54	1.17
86541--86572	14	2.3	14	94	0	55	53	3	6	37	1.42
86534--86623	19	4.7	19	71	16	53	57	2	2	37	1.23
86593--86634	19	2.2	19	86	4	57	64	0	0	35	0.94
87678--87711	12	2.8	12	86	4	50	64	0	2	32	1.08
87670--87709	20	2.1	19	85	4	53	65	2	5	27	1.27
88185--88236	12	4.2	12	76	13	52	51	0	0	48	1.00
88186--88234	25	1.9	26	95	4	91	51	0	0	48	1.00
93943--94001	20	2.8	20	84	5	73	37	13	13	35	1.84
94570--94658	45	2.0	45	100	0	178	35	34	2	26	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100855--100889	15	2.3	15	90	0	52	20	0	2	77	0.90
101010--101057	19	2.5	19	79	0	60	52	2	4	41	1.32
101130--101207	21	3.7	21	80	11	72	43	3	6	46	1.47
101158--101216	11	5.6	11	78	9	61	47	3	1	47	1.29
101141--101216	21	3.7	20	79	10	73	46	3	3	46	1.40
101157--101286	21	6.4	21	67	19	69	50	6	1	41	1.36
101930--101964	3	11.7	3	100	0	70	65	0	0	34	0.93
102111--102157	25	1.9	25	86	4	69	40	4	4	51	1.41
102260--102306	14	3.2	14	82	14	51	65	0	0	34	0.93
102271--102311	16	2.5	17	88	7	59	65	0	0	34	0.93
102325--102375	26	2.0	26	84	7	68	43	5	0	50	1.26
103179--103249	32	2.2	32	82	0	79	46	9	9	33	1.70
114781--114947	58	2.9	58	82	1	210	35	29	16	18	1.93
121371--121447	33	2.4	29	76	19	75	24	10	6	58	1.55
121378--121440	33	1.9	33	90	6	101	22	9	7	60	1.54
127837--127878	2	21.5	2	95	4	77	50	0	0	50	1.00
128105--128219	23	4.9	23	70	18	69	50	0	1	47	1.11
128160--128247	32	2.6	34	79	15	101	60	0	0	39	0.97
128173--128230	21	2.6	22	78	10	64	58	0	0	41	0.98
128193--128238	10	4.5	10	82	12	58	63	0	0	36	0.95
128193--128238	20	2.2	21	88	3	67	63	0	0	36	0.95
128868--128934	15	4.5	15	74	9	57	49	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130569--130601	14	2.3	15	89	5	50	42	0	3	54	1.15
132197--132230	18	1.9	17	88	5	50	50	0	0	50	1.00
134160--134225	12	5.4	12	74	3	60	40	0	0	59	0.98
134160--134229	37	1.9	37	91	8	117	44	0	0	55	0.99
135340--135450	21	5.4	21	71	11	77	58	0	0	40	1.04
135340--135455	8	14.8	8	69	19	57	57	0	0	41	1.04
135334--135396	22	2.9	22	80	4	74	66	1	0	31	1.01
135385--135427	13	3.4	13	87	12	63	53	0	0	46	1.00
135382--135456	27	2.7	29	81	18	90	52	0	0	48	1.00
136521--136562	16	2.7	16	77	3	50	50	0	4	45	1.23
140760--140797	18	2.1	18	95	0	67	34	0	28	36	1.58
144311--144339	9	3.2	9	100	0	58	31	20	10	37	1.86
144667--144700	16	2.1	16	88	0	50	38	5	11	44	1.65
147897--147927	3	10.3	3	100	0	62	67	0	0	32	0.91
148076--148141	32	2.1	31	83	11	80	31	0	0	68	0.90
148105--148137	15	2.2	15	89	10	50	24	0	0	75	0.80
148077--148138	20	3.0	20	77	9	63	30	0	0	69	0.89
148096--148138	21	2.1	21	86	4	61	25	0	0	74	0.82
149037--149078	17	2.5	17	84	7	59	69	2	26	2	1.13
149037--149079	16	2.5	17	77	11	52	69	2	25	2	1.12
151567--151628	28	2.2	28	79	0	70	54	6	20	17	1.65
155934--155991	22	2.6	22	83	2	71	43	3	0	53	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
156911--156962	24	2.2	24	86	6	70	36	9	1	51	1.46
157335--157368	16	2.1	16	88	5	50	61	0	5	32	1.20
162223--162247	12	2.1	12	100	0	50	52	8	16	24	1.70
163767--163791	10	2.5	10	100	0	50	52	8	0	40	1.31
164163--164213	20	2.5	20	77	0	57	3	17	0	78	0.90
164172--164230	24	2.5	24	77	5	66	6	18	0	74	1.03
165449--165762	32	9.8	32	93	0	513	16	18	33	31	1.93
165745--168543	27	102.1	27	90	2	4349	28	14	34	22	1.93
165745--168543	82	34.0	81	90	2	4349	28	14	34	22	1.93
165745--168543	55	51.1	54	90	2	4349	28	14	34	22	1.93

Tables:   1   2   3