genome.fa.s1966.2.7.7.80.10.50.1000.1.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: Scaffold1966
Parameters: 2 7 7 80 10 50 1000
Length:  403291

Tables:   1   2   3   

This is table  1  of  3  ( 285 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)
2355--2406	19	2.7	20	90	3	79	30	15	17	36	1.91
2453--2482	13	2.3	13	94	0	51	36	16	10	36	1.82
8666--8691	13	2.0	13	100	0	52	30	15	15	38	1.88
11163--11187	13	1.9	13	100	0	50	36	16	16	32	1.90
11141--11206	33	2.0	32	88	8	98	31	15	15	37	1.88
11172--11230	20	3.0	20	85	7	86	37	15	15	32	1.88
13117--13165	23	2.1	23	100	0	98	36	12	22	28	1.90
17942--17969	13	2.2	13	100	0	56	39	17	14	28	1.89
17924--17989	33	2.0	33	88	5	98	39	15	13	31	1.86
18020--18073	19	2.8	18	77	20	63	31	18	12	37	1.89
26153--26199	22	2.1	22	100	0	94	51	6	8	34	1.58
28599--28652	18	2.8	20	72	13	51	48	1	1	48	1.23
29072--29135	26	2.4	28	82	12	80	39	0	6	54	1.26
30915--30956	18	2.3	18	91	0	66	30	2	4	61	1.29
30915--30944	3	10.0	3	92	0	51	30	0	3	66	1.07
32376--32469	47	2.0	47	93	0	161	40	8	5	45	1.57
32756--32805	25	2.0	25	84	7	66	40	2	14	44	1.56
32955--33096	16	8.6	16	67	26	66	40	0	0	59	0.98
32961--33100	18	8.4	17	71	23	102	40	0	0	59	0.97
32955--33053	7	14.3	7	68	13	62	43	0	0	56	0.99
32961--33093	33	3.9	35	77	21	142	41	0	0	58	0.98
33055--33105	8	6.0	8	80	13	57	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32983--33100	14	7.6	15	70	21	75	40	0	0	59	0.97
33029--33110	18	4.5	19	79	16	68	36	0	0	63	0.95
33003--33106	34	3.0	33	79	10	93	38	0	0	61	0.96
35063--35093	2	15.5	2	100	0	62	48	0	0	51	1.00
35368--35414	2	23.5	2	100	0	94	0	48	0	51	1.00
35636--35666	2	15.5	2	100	0	62	51	0	48	0	1.00
36533--36561	2	14.5	2	100	0	58	51	0	48	0	1.00
36733--36758	2	13.0	2	100	0	52	50	0	0	50	1.00
42969--43100	71	1.9	71	93	0	228	43	6	14	35	1.70
45887--45939	21	2.6	21	80	11	58	56	0	0	43	0.99
47044--47225	50	3.6	50	84	1	240	32	18	18	30	1.95
47044--47225	100	1.8	100	87	2	276	32	18	18	30	1.95
51639--51802	50	3.3	50	86	0	202	33	19	15	31	1.93
52114--52156	22	2.0	22	100	0	86	41	0	11	46	1.40
52148--52178	9	3.4	9	90	0	53	45	3	0	51	1.17
52424--52452	3	9.7	3	100	0	58	34	31	0	34	1.58
52451--52480	3	10.0	3	100	0	60	33	0	0	66	0.92
54945--54978	15	2.3	15	89	0	50	41	0	0	58	0.98
57898--57936	14	2.8	14	76	0	51	53	0	0	46	1.00
58330--58362	2	16.5	2	100	0	66	51	0	0	48	1.00
59059--59094	18	2.0	18	89	10	56	63	0	0	36	0.94
59061--59131	25	2.9	24	85	4	88	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64212--64288	27	2.9	27	80	0	82	25	5	20	48	1.71
64269--64314	24	1.9	24	95	0	83	19	8	23	47	1.77
65228--65271	2	22.0	2	100	0	88	50	0	0	50	1.00
68591--68623	2	16.5	2	100	0	66	51	0	48	0	1.00
71828--71873	18	2.6	18	82	3	58	54	0	2	43	1.12
71938--72021	32	2.7	30	78	12	89	48	0	1	50	1.08
72862--72902	2	20.5	2	100	0	82	0	51	0	48	1.00
74456--74509	22	2.5	22	78	21	60	44	0	12	42	1.43
75632--75669	2	18.5	2	94	5	67	47	0	2	50	1.15
77243--77288	23	2.0	23	87	4	67	43	6	6	43	1.56
78600--78625	13	2.0	13	100	0	52	38	0	7	53	1.30
78627--78667	21	2.0	21	95	0	73	39	9	7	43	1.65
78675--78718	21	2.1	21	86	0	61	25	18	0	56	1.41
79945--79989	22	2.0	22	82	8	54	13	17	2	66	1.34
80539--80567	2	14.5	2	100	0	58	51	0	0	48	1.00
80795--80826	2	15.5	2	93	6	55	46	0	3	50	1.17
82400--82445	23	2.0	23	87	4	67	43	6	6	43	1.56
83384--83421	20	1.9	20	88	0	58	34	21	7	36	1.82
83427--83451	13	1.9	13	100	0	50	32	16	16	36	1.90
87106--87359	124	2.0	124	88	3	375	24	17	16	42	1.89
93528--93573	18	2.8	17	78	15	53	23	0	8	67	1.18
93688--93736	21	2.3	21	85	0	62	55	4	0	40	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94021--94068	16	3.0	16	79	8	53	60	8	0	31	1.26
96591--96643	16	3.5	16	77	10	58	33	0	1	64	1.05
98582--98606	11	2.3	11	100	0	50	28	20	0	52	1.47
100473--100509	12	3.1	12	100	0	74	43	24	16	16	1.87
100869--100902	17	2.0	17	88	0	50	29	0	2	67	1.05
103286--103357	28	2.6	27	75	18	76	47	2	2	47	1.31
106818--106894	31	2.5	31	97	0	145	45	11	15	27	1.81
106877--106954	40	2.0	39	87	2	111	39	12	12	34	1.82
106880--106954	20	3.8	20	80	3	80	40	12	13	34	1.81
108499--108545	4	11.8	4	100	0	94	74	0	0	25	0.82
108893--108930	3	12.7	3	100	0	76	0	34	0	65	0.93
116852--116877	2	13.0	2	100	0	52	50	0	0	50	1.00
119972--120050	39	2.0	42	87	7	119	48	16	13	21	1.81
122761--122811	14	3.6	14	75	19	52	45	9	0	45	1.36
122726--123137	28	15.2	28	71	10	196	39	11	4	44	1.62
122750--123137	55	7.1	54	70	9	200	40	11	4	43	1.61
122963--123090	27	4.7	27	78	11	129	45	8	3	42	1.50
123668--123709	21	2.0	22	90	4	68	59	2	28	9	1.41
123692--123753	10	6.2	10	74	7	54	75	1	22	0	0.88
123692--123753	20	3.1	20	81	4	63	75	1	22	0	0.88
123815--123849	18	2.0	17	88	5	52	17	37	0	45	1.48
125166--125240	20	3.8	20	85	3	98	29	13	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
127789--127843	28	2.0	28	86	13	78	23	27	18	30	1.97
127833--127950	51	2.3	51	86	0	173	33	25	8	33	1.86
127934--128006	28	2.6	28	86	0	92	26	32	16	24	1.96
127990--128108	51	2.3	51	86	2	177	27	26	14	31	1.95
127786--128113	158	2.1	158	82	2	399	28	25	12	33	1.92
127989--128136	51	2.9	50	79	5	170	29	24	12	34	1.91
131408--131446	2	20.0	2	84	5	53	48	2	2	46	1.29
132002--132058	13	3.9	13	76	24	60	35	14	17	33	1.90
131982--132079	32	3.0	32	96	1	178	34	12	17	35	1.87
131980--132077	19	5.8	18	71	28	90	33	12	17	36	1.87
132120--132144	13	1.9	13	100	0	50	32	16	16	36	1.90
132099--132165	34	2.0	33	85	8	91	31	17	11	38	1.87
139120--139189	10	6.8	10	85	6	79	87	11	1	0	0.62
139118--139189	20	3.5	19	85	14	90	87	11	1	0	0.61
139120--139187	29	2.2	30	87	10	93	86	11	1	0	0.63
139118--139177	11	5.5	11	88	7	86	90	10	0	0	0.47
139118--139177	1	60.0	1	79	0	66	90	10	0	0	0.47
140449--141261	34	25.3	33	75	16	434	20	33	13	32	1.92
140483--141236	97	7.9	95	74	14	465	20	33	14	31	1.93
140941--140985	23	2.0	23	100	0	90	26	31	22	20	1.98
140964--141146	30	5.8	30	79	9	150	21	30	16	32	1.95
140881--141047	85	2.0	85	88	4	248	24	30	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141147--141216	35	2.0	36	88	2	106	18	35	11	34	1.87
141089--141249	61	2.6	62	90	4	247	19	34	13	33	1.90
141183--141236	27	2.0	27	96	0	99	22	35	14	27	1.93
141252--141512	33	7.9	33	90	2	400	28	32	18	20	1.96
141512--142082	49	12.0	49	78	12	582	25	25	16	32	1.96
141507--141972	92	5.1	92	85	6	515	25	26	16	31	1.97
141525--141972	141	3.2	140	87	6	578	25	25	17	31	1.97
141517--142025	233	2.2	235	92	3	846	25	25	16	31	1.97
141926--142345	52	7.9	53	65	22	193	25	24	15	35	1.94
141834--142427	266	2.2	266	99	0	1161	24	25	15	34	1.94

Tables:   1   2   3