genome.fa.s5.2.7.7.80.10.50.1000.1.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

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

This is table  1  of  14  ( 1571 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)
3218--3253	2	18.0	2	100	0	72	50	0	0	50	1.00
3714--3862	50	3.0	50	86	0	208	32	19	16	32	1.94
8090--8394	50	6.1	50	88	1	423	31	20	17	31	1.95
8837--8932	5	19.8	5	79	12	85	1	21	1	76	0.92
8837--8926	36	2.3	40	83	9	107	1	21	1	76	0.91
8837--8932	46	2.1	46	82	3	113	1	21	1	76	0.92
15102--15150	18	2.6	19	83	6	64	55	0	6	38	1.25
16919--16967	24	2.0	24	100	0	98	24	8	16	51	1.71
18476--18554	40	2.0	39	92	2	131	32	7	22	36	1.83
21374--21435	26	2.4	25	81	10	63	64	1	4	29	1.23
24081--24336	50	5.1	50	89	1	361	31	19	19	29	1.96
28711--28867	50	3.2	50	89	2	237	31	20	19	28	1.97
28893--28997	50	2.1	50	94	3	185	29	19	21	29	1.97
36858--36944	17	5.0	17	71	8	59	51	0	2	45	1.13
36864--36960	9	10.6	9	72	20	67	46	0	3	50	1.17
36855--36906	15	3.7	15	77	15	56	55	0	0	44	0.99
39273--39299	2	13.5	2	100	0	54	0	48	0	51	1.00
39299--39328	2	15.0	2	92	0	51	46	0	0	53	1.00
40112--40151	21	2.0	21	85	9	57	30	2	0	67	1.04
41223--41263	18	2.4	18	84	8	50	60	0	0	39	0.96
43204--43254	27	2.0	26	81	11	61	35	25	11	27	1.91
45088--45141	27	2.0	27	96	0	99	53	22	1	22	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46834--46862	2	14.5	2	100	0	58	48	0	0	51	1.00
48039--48085	24	2.0	24	87	8	69	27	10	2	59	1.42
49524--49550	13	2.1	13	100	0	54	33	7	7	51	1.58
51842--51867	3	8.7	3	100	0	52	65	0	0	34	0.93
53552--53587	15	2.4	15	90	0	54	66	0	33	0	0.92
53800--53831	2	16.5	2	93	6	57	46	0	0	53	1.00
54956--54998	19	2.2	20	83	4	52	39	4	9	46	1.57
57684--57910	109	2.1	111	89	4	343	33	16	7	41	1.77
58129--58170	2	21.5	2	90	4	68	47	2	0	50	1.14
58305--58335	2	15.5	2	93	0	53	48	3	0	48	1.17
58273--58327	28	2.0	28	82	7	67	41	7	3	47	1.49
59826--59862	2	18.5	2	94	0	65	51	2	0	45	1.15
60916--60948	2	16.5	2	100	0	66	48	0	0	51	1.00
64277--64449	92	1.9	92	86	2	249	41	21	16	20	1.90
69876--69908	3	11.0	3	93	0	57	63	0	3	33	1.10
70975--71011	2	18.5	2	100	0	74	48	0	0	51	1.00
71125--71162	3	12.7	3	94	0	67	34	2	0	63	1.09
71946--72019	31	2.4	29	79	16	78	32	0	1	66	1.00
73527--73566	17	2.4	17	91	4	64	47	0	0	52	1.00
73551--73602	20	2.5	20	78	9	61	42	0	0	57	0.98
73518--73652	60	2.3	59	81	10	150	41	0	0	57	1.04
73631--73664	11	3.2	11	83	8	52	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
73555--73664	21	5.4	20	69	20	77	36	0	0	62	1.01
73762--73796	4	9.0	4	87	6	54	77	0	22	0	0.78
73763--73798	16	2.2	17	95	5	65	80	0	19	0	0.71
73972--74009	17	2.2	17	86	13	51	47	0	5	47	1.24
75037--75184	74	2.0	74	100	0	296	32	9	13	44	1.76
81845--81869	2	12.5	2	100	0	50	48	0	0	52	1.00
84226--84260	16	2.2	16	89	0	52	40	2	11	45	1.55
84791--84863	36	2.0	36	100	0	146	57	10	8	23	1.59
85071--85114	21	2.2	20	87	4	61	63	0	0	36	0.95
85100--85191	25	3.7	25	76	13	84	53	1	2	43	1.20
85068--85183	9	12.7	9	68	13	58	57	0	1	39	1.15
85077--85183	47	2.3	44	81	10	133	56	0	1	41	1.17
86723--86971	60	4.2	60	88	0	354	32	20	32	14	1.93
89927--89982	2	28.0	2	92	0	94	48	0	50	1	1.11
100131--100177	3	15.7	3	95	0	85	0	34	2	63	1.06
101598--101644	10	4.7	10	89	0	58	48	6	2	42	1.40
101606--101644	2	19.5	2	89	0	60	51	5	0	43	1.24
108614--108661	2	24.0	2	95	0	87	47	0	0	52	1.00
109935--109968	2	17.0	2	100	0	68	50	0	0	50	1.00
110405--110508	50	2.1	50	94	0	181	38	19	20	22	1.94
110410--110492	24	3.4	24	69	12	78	44	20	16	18	1.87
112028--112080	5	10.2	5	78	13	54	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
112025--112080	16	3.6	16	83	9	71	35	0	0	64	0.94
112108--112189	37	2.2	37	82	4	94	37	1	0	60	1.04
112141--112189	5	10.4	5	80	12	59	38	0	0	61	0.96
112130--112189	19	3.0	22	68	26	62	40	0	0	60	0.97
120398--120423	7	3.7	7	100	0	52	46	15	38	0	1.46
120398--120432	14	2.5	14	90	0	52	42	14	42	0	1.45
129198--129228	2	15.5	2	100	0	62	51	0	0	48	1.00
129459--129490	2	16.0	2	100	0	64	50	0	0	50	1.00
130487--130550	32	2.0	32	90	0	101	39	14	3	43	1.61
131665--131731	33	2.0	33	88	0	98	34	11	13	40	1.81
131685--131709	13	1.9	13	100	0	50	36	16	16	32	1.90
131775--131799	13	1.9	13	100	0	50	32	16	16	36	1.90
135660--135707	24	2.1	24	84	7	64	56	0	0	43	0.99
136369--136394	13	2.0	13	100	0	52	0	7	0	92	0.39
145210--145299	33	2.7	33	76	10	94	47	2	1	48	1.21
145847--145873	11	2.5	11	100	0	54	88	0	11	0	0.50
149217--149284	27	2.5	27	72	13	68	51	1	0	47	1.09
151014--151049	2	18.5	2	94	5	65	50	0	0	50	1.00
155202--155245	20	2.1	21	87	4	63	36	0	4	59	1.18
155240--155297	27	2.1	28	87	6	82	55	3	1	39	1.27
155325--155356	16	1.9	16	93	6	55	65	3	0	31	1.08
155431--155473	12	3.5	12	78	6	50	53	2	0	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155434--155484	25	2.0	25	84	0	66	56	1	0	41	1.10
155806--155838	2	16.5	2	100	0	66	51	0	0	48	1.00
156191--156223	16	2.1	16	88	11	50	72	0	0	27	0.85
156891--156917	2	13.5	2	100	0	54	48	0	0	51	1.00
160886--160928	18	2.3	19	84	8	52	25	2	2	69	1.12
160883--160931	19	2.5	20	80	12	57	28	2	2	67	1.13
164247--164292	17	2.7	18	80	16	53	56	0	4	39	1.19
165418--165463	15	3.0	15	79	14	58	43	0	0	56	0.99
165417--165457	17	2.5	17	84	7	59	43	0	0	56	0.99
165732--165792	18	3.5	19	75	24	71	62	1	0	36	1.05
165718--165794	33	2.3	32	85	12	95	64	1	0	33	1.01
166023--166070	19	2.3	21	79	13	55	70	6	0	22	1.09
166348--166447	35	2.9	33	75	15	87	61	1	0	38	1.03
166463--166503	2	20.5	2	94	0	73	0	46	2	51	1.14
168168--168200	2	16.5	2	100	0	66	48	0	51	0	1.00
173442--173488	15	3.1	15	80	17	53	40	0	0	59	0.97
175807--175845	14	2.7	15	84	8	53	64	0	0	35	0.94
178490--178528	20	2.0	20	85	10	53	48	0	0	51	1.00
179049--179154	30	3.6	28	74	13	97	51	1	4	41	1.33
184175--184204	2	15.0	2	100	0	60	50	0	0	50	1.00
184336--184361	2	13.0	2	100	0	52	50	0	0	50	1.00
185316--185360	17	2.8	17	75	18	51	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
185286--185366	29	2.7	31	77	12	80	51	0	2	45	1.14
186532--186588	13	4.5	13	82	2	71	43	0	1	54	1.10
186532--186592	26	2.4	26	91	2	97	44	0	1	54	1.10
187166--187199	17	2.0	17	88	11	52	67	2	0	29	1.05
189843--190075	123	1.9	122	84	4	310	56	6	7	30	1.51
190349--190383	16	2.2	16	90	5	54	42	0	0	57	0.99
196676--196708	2	16.5	2	100	0	66	0	0	48	51	1.00
197892--197947	20	2.8	20	75	2	60	50	0	1	48	1.11
198459--198493	8	4.4	8	100	0	70	51	11	0	37	1.38
198459--198501	16	2.7	16	92	0	59	53	9	0	37	1.33

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