genome.fa.s65.2.7.7.80.10.50.1000.1.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  1  of  17  ( 1956 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)
2566--2618	25	2.1	25	82	6	63	50	1	9	37	1.46
2675--2727	2	26.5	2	92	0	88	47	0	1	50	1.12
8232--8283	2	26.0	2	96	0	95	51	0	48	0	1.00
12483--12508	12	2.2	12	100	0	52	57	11	23	7	1.59
13393--13450	24	2.4	24	97	0	107	24	17	27	31	1.97
16275--16319	22	2.0	23	82	4	56	48	15	17	17	1.81
17095--17129	2	17.5	2	93	0	61	45	0	2	51	1.16
24526--24583	30	1.9	31	89	3	91	24	27	15	32	1.95
24551--24644	46	2.0	46	93	0	161	24	28	11	35	1.91
24609--25449	27	30.9	27	94	1	1457	21	35	14	27	1.93
24609--25449	82	10.3	81	95	1	1457	21	35	14	27	1.93
24609--25449	109	7.7	108	94	1	1457	21	35	14	27	1.93
25432--26320	32	28.8	32	87	6	1123	30	32	18	18	1.95
25432--26263	305	2.7	306	92	4	1340	30	32	18	18	1.95
26353--26471	49	2.5	47	80	9	127	19	29	22	28	1.98
27154--27180	1	27.0	1	100	0	54	100	0	0	0	0.00
27169--27213	22	2.0	23	82	4	56	48	15	17	17	1.81
27988--28018	2	15.5	2	93	0	53	45	0	3	51	1.17
30570--30596	3	9.0	3	100	0	54	66	0	0	33	0.92
33638--33671	16	2.1	16	88	0	50	50	8	0	41	1.34
33810--33842	2	17.0	2	87	6	50	51	3	0	45	1.16
35047--35461	212	2.0	204	88	5	609	25	14	23	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36238--36302	13	5.3	12	75	15	62	67	0	1	30	1.00
36254--36301	23	2.2	21	88	7	69	66	0	2	31	1.03
36231--36303	13	5.8	13	76	18	57	67	0	1	31	1.00
36437--36484	22	2.2	22	92	7	80	50	0	0	50	1.00
36437--36493	22	2.6	22	86	2	71	47	0	0	52	1.00
42992--43036	19	2.4	18	88	7	63	51	0	0	48	1.00
44133--44175	22	1.9	23	85	4	61	67	2	0	30	1.03
44676--44724	25	2.0	25	87	0	71	59	0	2	38	1.09
45103--45142	2	20.0	2	89	0	62	0	50	2	47	1.14
55028--55132	17	6.2	17	65	22	51	48	0	0	51	1.00
54978--55065	29	3.1	27	73	17	81	43	0	1	55	1.07
55036--55105	32	2.1	34	86	5	99	51	0	0	48	1.00
55841--55965	32	3.7	32	70	20	92	40	2	0	56	1.12
55894--55929	18	1.9	18	88	5	54	52	0	0	47	1.00
55839--55975	71	1.9	70	92	4	231	43	2	0	54	1.12
56036--56093	30	1.9	31	82	3	73	53	1	0	44	1.10
56754--56801	2	24.0	2	100	0	96	50	0	50	0	1.00
57005--57055	2	25.5	2	89	0	75	43	0	1	54	1.11
57876--58060	34	5.5	34	87	3	257	40	26	7	25	1.82
62126--62188	19	3.3	19	88	0	81	33	19	19	28	1.96
62493--62675	34	5.4	34	84	3	235	39	25	7	26	1.83
62493--62675	102	1.8	101	91	1	303	39	25	7	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63244--63286	14	3.2	13	80	9	50	65	0	4	30	1.13
63244--63286	13	3.2	13	80	6	50	65	0	4	30	1.13
63762--63812	21	2.4	22	86	3	77	60	0	0	39	0.97
63767--63812	16	3.0	16	82	17	62	60	0	0	39	0.97
63962--63991	2	15.0	2	100	0	60	50	0	0	50	1.00
64516--64573	14	3.5	17	75	24	61	55	1	0	43	1.10
64682--64720	19	2.0	21	85	10	55	46	0	0	53	1.00
70434--70469	2	18.0	2	100	0	72	50	0	0	50	1.00
73354--73400	2	23.5	2	95	0	85	46	0	2	51	1.13
74136--74160	12	2.1	12	100	0	50	0	8	0	92	0.40
81503--81542	9	4.4	9	83	0	53	15	25	7	52	1.68
83053--83105	2	26.5	2	100	0	106	50	0	0	49	1.00
91125--91166	17	2.3	19	88	8	61	40	0	0	59	0.97
91083--91186	55	1.9	53	84	7	138	42	0	0	56	1.05
91151--91225	29	2.6	30	79	8	84	38	0	0	61	0.96
91568--91625	29	2.0	29	83	10	73	51	3	6	37	1.46
92263--92319	26	2.2	25	81	12	62	52	7	1	38	1.39
96848--96880	2	16.5	2	100	0	66	48	0	0	51	1.00
97606--97638	16	2.0	17	94	5	59	60	0	0	39	0.97
97633--97672	19	2.0	20	90	4	64	35	2	0	62	1.09
99124--99159	11	3.1	11	92	8	54	30	0	0	69	0.89
102036--102073	2	19.0	2	100	0	76	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)
118140--118171	2	16.0	2	100	0	64	50	0	0	50	1.00
127986--128023	15	2.5	16	79	12	53	76	21	0	2	0.91
129224--129402	97	1.9	95	82	9	231	46	7	0	45	1.36
129516--129564	20	2.5	20	83	6	55	38	10	2	48	1.48
129619--129661	19	2.3	19	91	0	68	37	27	2	32	1.70
134281--134310	2	15.0	2	92	0	51	50	3	46	0	1.18
135185--135233	22	2.2	22	96	0	89	26	26	20	26	1.99
136532--136594	26	2.3	26	74	15	65	36	1	4	57	1.30
137223--137345	31	4.0	31	80	4	133	30	16	20	32	1.94
146422--146462	3	13.7	3	100	0	82	65	0	0	34	0.93
151286--151310	3	8.3	3	100	0	50	36	0	0	64	0.94
152977--153086	31	3.4	32	74	19	97	45	1	0	52	1.11
153033--153096	17	3.5	19	71	25	57	42	0	0	57	0.98
153933--153961	13	2.3	13	94	5	51	48	6	6	37	1.57
155356--155405	20	2.5	19	87	6	64	36	0	2	62	1.07
157522--157567	20	2.2	21	88	3	67	34	4	2	58	1.30
157535--157590	23	2.3	26	80	17	66	42	1	0	55	1.10
157563--157626	18	3.7	18	75	19	64	48	0	0	51	1.00
157564--157611	23	2.0	25	84	8	64	52	0	0	47	1.00
157535--157631	5	19.8	5	68	16	51	44	1	0	54	1.06
158050--158084	13	2.8	13	95	4	63	40	22	17	20	1.92
159538--159582	18	2.6	18	78	3	56	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165654--165678	2	12.5	2	100	0	50	48	0	0	52	1.00
166096--166140	13	3.5	13	78	0	54	55	0	0	44	0.99
166091--166141	26	1.9	27	92	4	86	50	0	0	49	1.00
167037--167090	27	2.0	27	85	3	72	44	0	3	51	1.19
169148--169195	12	3.8	13	78	15	55	52	2	0	45	1.12
169892--169920	15	1.9	15	100	0	58	13	6	13	65	1.45
170785--170880	12	7.3	13	73	21	76	52	1	2	44	1.19
170810--170952	20	6.9	19	66	21	65	53	1	2	42	1.21
170827--170907	32	2.6	30	84	11	101	51	1	1	45	1.16
170810--170971	81	2.0	80	80	14	183	54	1	1	41	1.22
174102--174135	2	17.0	2	100	0	68	50	0	0	50	1.00
174982--175016	17	2.1	16	89	5	52	51	0	0	48	1.00
174999--175042	14	3.1	14	83	3	52	56	0	0	43	0.99
175722--175831	56	1.9	57	90	1	177	38	6	16	39	1.74
175859--175906	25	2.0	24	83	4	60	58	0	0	41	0.98
175869--175916	17	2.8	18	87	9	73	54	0	0	45	0.99
175893--175978	29	3.0	28	80	14	86	63	0	1	34	1.02
178718--178770	25	2.2	22	83	12	61	52	1	0	45	1.11
178787--178815	11	2.5	12	94	5	51	51	0	0	48	1.00
178864--178910	13	3.7	13	83	11	53	65	0	0	34	0.93
178844--178916	25	2.8	26	73	12	69	61	1	0	36	1.05
179330--179463	17	7.2	17	70	25	62	61	1	0	37	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179383--179428	20	2.3	20	85	10	60	56	2	0	41	1.11
179387--179471	31	2.7	34	77	15	101	58	1	0	40	1.05
179443--179498	26	2.1	27	83	9	71	62	1	0	35	1.06
180586--180632	13	3.4	13	83	16	67	61	0	0	38	0.96
180669--180786	3	41.3	3	69	17	56	38	0	1	59	1.14
180670--180783	17	6.9	17	66	19	71	38	0	1	58	1.14
180685--180785	27	3.6	27	82	6	114	40	0	0	57	1.12
180675--180812	65	2.1	64	76	14	140	41	0	1	56	1.13
181117--181159	19	2.2	20	83	4	52	51	0	2	46	1.13
189103--189167	20	3.3	19	77	18	71	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17