genome.fa.s339.2.7.7.80.10.50.1000.1.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: Scaffold339
Parameters: 2 7 7 80 10 50 1000
Length:  1314099

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1034 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)
2060--2095	3	12.0	3	100	0	72	66	0	0	33	0.92
3536--3570	2	17.5	2	100	0	70	48	0	0	51	1.00
3695--3840	72	2.0	72	95	0	265	32	6	36	24	1.80
4548--4582	2	17.5	2	100	0	70	48	0	0	51	1.00
6159--6209	23	2.2	23	79	6	59	56	0	0	43	0.99
6461--7314	429	2.0	429	99	0	1681	43	8	9	38	1.68
18767--18824	28	2.1	28	83	6	73	55	0	0	44	0.99
19063--19161	35	2.9	34	80	8	96	53	0	0	46	1.00
19361--19413	22	2.5	22	78	6	56	56	3	1	37	1.28
20221--20273	20	2.7	19	82	5	61	64	0	1	33	1.05
20733--20804	10	6.5	11	73	17	51	66	0	1	31	1.00
20766--20824	19	3.1	18	75	20	57	59	0	0	40	0.97
20736--20824	36	2.4	36	80	12	99	64	0	1	34	1.01
20847--20877	14	2.1	15	94	5	55	48	0	0	51	1.00
24151--24215	10	6.8	10	73	15	57	24	1	1	72	1.02
24162--24214	9	5.7	9	75	16	54	26	1	1	69	1.09
24492--24528	19	1.9	20	88	5	58	27	0	2	70	1.01
24733--25072	183	1.9	183	94	0	608	31	3	12	52	1.54
25114--25285	67	2.5	69	86	8	244	27	9	15	47	1.77
28328--28376	15	3.2	16	83	11	59	42	20	24	12	1.86
30428--30474	19	2.4	20	86	10	62	76	6	2	14	1.08
32469--32533	20	3.2	20	80	4	76	27	4	16	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37206--37245	2	20.0	2	92	0	62	2	45	0	52	1.14
39413--39483	37	1.9	37	91	5	117	30	18	12	38	1.88
44837--44865	2	14.5	2	100	0	58	48	0	0	51	1.00
54349--54383	2	17.5	2	100	0	70	51	0	0	48	1.00
60162--60200	20	2.0	20	89	0	60	61	5	2	30	1.31
60400--60461	23	2.7	22	82	5	79	48	0	0	51	1.00
61075--61165	32	2.7	36	82	12	97	61	0	1	37	1.03
61113--61220	9	12.6	9	69	23	56	57	0	0	41	1.05
61113--61179	18	4.0	17	75	16	68	56	0	0	43	0.99
61082--61147	19	3.6	18	74	15	64	60	0	1	37	1.06
61165--61203	21	1.9	20	94	5	69	53	0	0	46	1.00
62016--62098	30	2.6	32	86	7	125	45	0	0	54	0.99
63185--63348	84	2.0	84	90	2	258	50	8	9	31	1.65
64585--64638	21	2.3	23	81	15	67	40	1	1	55	1.21
65074--65104	14	2.3	14	94	5	55	38	0	0	61	0.96
65436--65522	31	2.9	29	75	14	79	36	1	2	59	1.17
65488--65526	20	2.0	20	89	0	60	41	0	0	58	0.98
65823--65847	2	12.5	2	100	0	50	52	0	0	48	1.00
65853--65983	61	2.2	61	86	6	187	34	19	7	38	1.81
66791--66865	2	39.5	2	81	10	59	42	0	9	48	1.35
66807--66844	14	2.7	14	95	0	67	36	0	13	50	1.42
66791--66844	16	3.4	16	89	0	81	37	0	12	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66791--66848	18	3.4	18	83	11	86	37	0	12	50	1.40
66791--66831	20	2.0	20	95	0	73	36	0	12	51	1.40
66835--66864	5	5.8	5	96	4	51	56	0	0	43	0.99
69443--69481	20	1.9	21	85	15	55	33	10	2	53	1.48
69644--69685	22	1.9	22	95	0	75	42	4	2	50	1.36
69955--69988	15	2.3	15	89	0	50	20	2	14	61	1.46
72307--72375	18	4.4	17	68	24	53	55	2	0	42	1.15
72304--72374	20	3.3	20	69	27	56	54	2	0	42	1.14
72400--72441	20	2.1	20	100	0	84	40	9	4	45	1.58
72664--72691	14	2.0	14	100	0	56	28	0	0	71	0.86
73446--73483	17	2.2	17	95	0	67	39	5	2	52	1.38
73928--74012	10	8.8	10	67	11	52	36	0	1	62	1.03
73956--74015	27	2.3	27	80	8	70	40	0	0	60	0.97
74220--74276	13	3.6	16	77	20	50	47	0	0	52	1.00
74224--74272	14	3.4	14	84	15	64	48	0	0	51	1.00
74200--74274	29	2.6	29	87	6	98	46	0	1	52	1.09
74452--74498	14	3.3	14	77	16	60	46	0	4	48	1.21
74656--74746	16	5.7	16	79	5	103	56	1	2	40	1.19
75924--75966	16	2.7	16	77	0	50	48	0	0	51	1.00
76510--76594	30	2.9	30	81	10	95	43	7	0	49	1.29
76652--76694	19	2.2	20	87	4	61	67	2	0	30	1.03
76652--76699	20	2.5	19	86	3	60	66	2	0	31	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
77721--77978	127	2.0	128	94	2	457	51	4	5	39	1.45
79432--79473	13	3.2	13	77	12	50	35	0	0	64	0.94
79497--79568	27	2.6	27	72	21	69	47	0	1	51	1.09
79785--79820	3	12.0	3	100	0	72	0	33	0	66	0.92
82741--82810	28	2.3	30	78	16	81	27	8	12	51	1.69
82751--82816	28	2.3	28	92	2	105	28	10	15	45	1.79
82801--82875	32	2.3	32	84	8	91	21	4	18	56	1.58
84680--84749	24	2.8	25	82	10	81	47	22	8	21	1.78
84689--84778	27	3.5	26	83	4	94	46	21	8	23	1.79
84766--84823	26	2.3	25	88	5	82	27	15	24	32	1.95
89277--89346	24	2.8	25	85	14	92	48	22	8	20	1.76
89279--89375	27	3.7	26	84	4	117	47	22	8	21	1.77
89363--89420	26	2.3	25	91	5	91	25	15	25	32	1.95
90068--90112	21	2.0	21	83	12	54	46	4	0	48	1.22
90139--90192	23	2.2	25	78	15	60	46	5	5	42	1.50
91648--91689	17	2.6	16	85	7	57	42	2	0	54	1.13
91658--91725	20	3.4	20	78	15	61	47	0	0	52	1.00
91848--91881	17	2.0	17	94	0	59	38	0	0	61	0.96
92023--92096	15	5.0	16	72	27	58	47	0	0	52	1.00
92054--92109	15	3.5	15	79	16	51	46	0	0	53	1.00
92276--92319	21	2.1	21	87	8	63	65	0	0	34	0.93
92405--92457	24	2.2	24	81	15	65	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93243--93320	32	2.5	31	78	13	88	33	2	2	61	1.23
94253--94297	22	2.0	22	82	0	54	22	4	6	66	1.33
95755--95786	2	16.0	2	100	0	64	50	0	0	50	1.00
96625--96662	2	19.0	2	100	0	76	50	0	0	50	1.00
96928--96990	30	2.1	30	91	5	101	46	6	3	44	1.45
103254--103284	2	15.5	2	100	0	62	48	0	0	51	1.00
107713--108126	176	2.4	176	81	7	484	44	4	8	42	1.53
108984--109015	2	16.0	2	100	0	64	50	0	0	50	1.00
109577--109618	15	2.8	16	78	10	52	76	2	4	16	1.07
110505--110545	22	1.9	21	85	14	57	36	0	4	58	1.20
110873--110924	18	2.9	18	88	5	70	57	1	0	40	1.10
110949--110986	20	1.9	20	89	10	60	55	0	0	44	0.99
110894--110989	48	2.0	48	80	11	108	54	0	0	45	0.99
111374--111433	22	2.8	21	73	21	54	46	0	0	53	1.00
111416--111453	20	1.9	20	88	0	58	55	7	0	36	1.29
113308--113455	14	10.3	13	70	21	75	74	3	0	21	1.01
113315--113455	8	18.4	8	72	18	63	74	3	0	21	1.01
113308--113452	22	6.6	22	72	18	81	74	3	0	21	1.01
113331--113451	20	5.9	20	72	20	74	74	4	0	20	1.03
113848--113881	18	1.9	18	88	5	52	52	14	23	8	1.69
114961--114998	19	2.1	19	85	5	51	65	2	18	13	1.37
115249--115283	17	2.1	17	100	0	70	28	0	28	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119204--119315	58	1.9	59	92	1	190	43	10	21	24	1.84
119566--119610	19	2.5	17	78	7	54	48	2	22	26	1.62
122723--122856	62	2.2	59	81	7	153	35	9	16	38	1.82
126603--126752	69	2.2	66	81	12	164	27	16	12	43	1.84
126730--126812	43	2.0	42	86	6	116	28	14	22	33	1.94
129360--129577	120	1.8	120	86	4	314	33	13	23	29	1.93
129440--129512	26	2.8	27	85	6	89	30	15	28	26	1.96
130008--131283	434	2.9	431	87	5	1867	39	13	17	29	1.88
134142--134177	17	2.1	17	89	5	54	83	0	13	2	0.76
138511--138585	20	3.8	19	78	7	78	42	12	12	33	1.79

Tables:   1   2   3   4   5   6   7   8   9