genome.fa.s352.2.7.7.80.10.50.1000.1.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: Scaffold352
Parameters: 2 7 7 80 10 50 1000
Length:  630196

Tables:   1   2   3   4   

This is table  1  of  4  ( 417 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)
3517--3571	19	3.1	17	78	19	58	56	1	0	41	1.10
3966--4001	18	1.9	19	88	5	56	55	0	0	44	0.99
7221--8885	831	2.0	832	99	0	3296	27	15	18	37	1.92
14207--14270	27	2.4	27	78	2	76	59	3	0	37	1.13
15481--15582	50	2.0	50	92	0	168	32	24	19	23	1.98
17443--17472	2	15.0	2	100	0	60	50	0	0	50	1.00
19111--19161	7	7.1	7	78	10	50	43	0	3	52	1.19
21725--21757	11	2.8	12	86	9	50	78	0	0	21	0.75
21799--21833	15	2.4	15	90	4	54	22	28	28	20	1.98
26687--26834	80	1.9	80	82	2	190	34	10	26	28	1.90
29594--29666	21	3.5	20	77	3	65	34	15	12	38	1.84
33837--33951	51	2.3	50	90	1	176	42	12	16	28	1.84
35538--35584	22	2.0	24	92	8	80	38	23	8	29	1.84
36355--36409	23	2.3	23	84	9	65	81	0	12	5	0.84
36372--36410	11	3.5	11	79	6	51	82	0	15	2	0.79
36836--36898	32	1.9	32	84	12	83	36	1	0	61	1.05
37231--37280	18	2.8	18	88	8	75	84	0	16	0	0.63
37231--37280	19	2.7	19	82	14	68	84	0	16	0	0.63
37238--37281	9	4.8	9	83	10	54	79	0	20	0	0.73
37645--37690	23	2.0	23	86	0	65	32	4	0	63	1.14
38077--38127	23	2.2	24	80	13	63	37	3	1	56	1.29
38367--38422	15	3.8	14	79	11	67	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39977--40001	13	1.9	13	100	0	50	32	16	16	36	1.90
40557--40603	23	2.0	24	84	12	62	61	19	4	14	1.49
43626--43651	13	2.0	13	100	0	52	30	23	15	30	1.95
43741--43796	21	2.6	22	94	5	105	37	10	25	26	1.88
43838--43974	53	2.6	53	95	1	247	27	17	18	37	1.93
43944--44014	20	3.5	21	81	7	76	29	12	16	40	1.86
44054--44094	21	2.0	21	85	9	57	39	9	12	39	1.76
44780--44825	24	1.9	24	86	0	65	41	2	2	54	1.25
44913--44963	20	2.8	18	83	16	61	39	1	3	54	1.30
44957--45011	24	2.5	21	81	16	67	43	1	0	54	1.10
45398--45462	32	2.0	33	84	3	87	38	12	13	35	1.83
46107--46414	150	2.1	150	97	1	582	38	5	6	49	1.53
47505--47536	15	2.1	16	94	5	57	40	0	0	59	0.97
48917--48964	14	3.4	14	82	5	62	79	0	20	0	0.74
48917--48966	20	2.4	20	80	12	57	76	0	24	0	0.80
49012--49079	25	2.6	26	79	11	77	36	0	4	58	1.18
49323--49369	12	3.8	12	76	17	51	27	4	0	68	1.08
49350--49384	11	3.4	11	88	11	56	31	0	0	68	0.90
51539--51567	2	15.0	2	92	7	51	48	0	0	51	1.00
51906--51947	20	2.2	19	87	8	59	50	0	4	45	1.23
52060--52109	22	2.1	22	85	10	64	28	0	0	72	0.86
52062--52116	16	3.2	17	78	17	60	29	1	0	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52069--52115	22	2.0	24	84	8	62	27	2	0	70	0.99
52704--52756	20	2.8	19	83	10	65	30	0	7	62	1.23
53393--53438	3	15.3	3	90	0	74	0	34	2	63	1.07
57184--57217	18	2.0	17	88	11	52	14	11	8	64	1.49
59685--59757	36	2.0	36	81	0	83	34	27	15	23	1.94
63862--63948	41	2.1	41	97	0	165	25	10	11	52	1.69
63945--63989	22	2.0	22	95	0	81	22	28	0	48	1.50
73981--74057	21	3.7	21	89	3	111	35	12	16	35	1.88
74093--74162	19	4.0	19	73	21	71	34	10	12	42	1.77
74095--74157	32	2.0	32	90	0	99	34	11	14	39	1.81
74200--74225	13	2.0	13	100	0	52	30	15	15	38	1.88
74180--74246	33	2.0	33	88	0	98	25	14	16	43	1.86
76569--76963	52	7.5	51	68	14	178	29	25	11	32	1.92
76948--77024	28	2.8	28	85	0	91	23	32	19	24	1.97
90497--91523	55	18.3	54	82	10	997	26	29	20	23	1.99
90497--91524	294	3.7	283	84	9	1233	26	29	20	23	1.99
90520--91523	157	6.0	159	82	10	1022	26	29	20	23	1.99
94180--94565	52	7.4	51	74	9	271	29	25	12	32	1.92
94286--94361	27	2.8	27	86	6	100	23	31	21	23	1.98
94548--94624	28	2.8	28	87	0	100	23	33	19	23	1.97
94175--94675	263	1.9	263	91	1	817	28	26	13	31	1.94
94658--94712	28	2.0	28	89	7	85	20	23	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97127--97152	13	2.0	13	100	0	52	38	15	15	30	1.88
97109--97173	32	2.0	32	87	6	94	43	15	13	27	1.85
100810--100844	17	2.1	17	89	10	54	51	5	0	42	1.25
103984--104017	15	2.2	16	89	5	52	41	0	2	55	1.15
104867--104925	27	2.2	27	82	8	68	64	0	0	35	0.94
104896--104925	10	2.8	11	90	10	53	70	0	0	30	0.88
105195--105267	27	2.7	27	81	8	87	39	0	0	60	0.97
120528--120558	2	15.5	2	100	0	62	0	0	48	51	1.00
122354--122991	196	3.5	180	83	9	799	28	15	29	26	1.96
122631--122664	6	5.7	6	100	0	68	17	32	35	14	1.91
125701--125769	33	2.1	33	94	0	120	42	17	7	33	1.77
128915--128973	29	2.0	30	90	3	93	49	3	1	45	1.28
128923--128985	29	2.2	29	79	0	72	58	1	1	38	1.17
129383--129413	16	1.9	16	93	0	53	29	25	6	38	1.81
130390--130430	21	1.9	21	85	5	55	82	2	0	14	0.76
138801--138827	14	1.9	14	100	0	54	66	0	0	33	0.92
138822--138889	21	3.3	21	68	11	61	55	0	0	44	0.99
138850--138931	37	2.3	36	81	12	89	57	2	1	39	1.20
139705--139730	2	13.0	2	100	0	52	50	0	0	50	1.00
140403--140460	24	2.3	26	91	5	93	32	25	15	25	1.95
140448--140546	27	3.8	27	80	9	98	20	9	24	46	1.79
140477--140546	24	2.8	24	85	10	79	20	8	24	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
145000--145057	24	2.3	26	91	5	93	32	25	15	25	1.95
145045--145143	27	3.8	27	80	9	98	20	9	24	46	1.79
145074--145143	24	2.8	24	85	10	79	20	8	24	47	1.78
146996--147028	14	2.3	15	89	5	50	57	12	0	30	1.35
147501--147554	16	3.4	16	72	22	51	25	7	0	66	1.17
147934--147967	18	1.9	17	88	5	50	41	5	11	41	1.66
148341--148398	30	1.9	31	82	10	75	46	5	3	44	1.42
148886--148920	15	2.3	15	95	0	61	28	2	11	57	1.48
151287--151384	42	2.3	41	86	5	133	43	16	15	24	1.86
154441--154490	21	2.4	21	80	3	57	34	4	2	60	1.27
154450--154506	30	2.0	28	82	6	69	35	3	1	59	1.25
157405--157464	22	2.8	21	80	14	70	38	1	5	55	1.32
158255--158285	3	10.3	3	100	0	62	67	0	0	32	0.91
160679--160723	17	2.6	18	83	16	60	22	2	4	71	1.15
161740--161792	13	3.8	13	76	13	52	75	1	0	22	0.90
161746--161797	22	2.3	22	83	3	59	73	1	0	25	0.94
162260--162293	17	1.9	18	94	5	61	5	32	0	61	1.20
162256--162302	18	2.6	17	80	6	58	4	27	0	68	1.08
162292--162328	11	3.3	11	85	7	56	0	21	0	78	0.75
164773--164807	6	5.7	6	86	6	52	82	0	2	14	0.77
165458--165542	36	2.3	37	84	6	102	55	2	1	41	1.20
165565--165606	15	2.9	14	82	6	50	64	0	2	33	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166748--166792	21	2.2	20	81	11	56	33	2	4	60	1.29
168381--168513	27	4.9	26	66	17	83	39	17	22	20	1.92
185452--185526	20	3.8	20	80	3	80	40	12	13	34	1.81
185449--185526	40	2.0	39	87	2	111	39	12	12	34	1.82
187220--187253	16	2.1	16	88	0	50	41	2	11	44	1.56
201647--201691	23	2.0	23	81	0	54	51	4	0	44	1.21
202874--202913	19	2.1	19	100	0	80	32	0	5	62	1.17
204431--204492	17	3.6	16	78	18	63	61	0	0	38	0.96
204430--204490	19	3.3	19	74	21	67	60	0	0	39	0.97
208247--208285	14	2.7	15	84	11	55	20	2	0	76	0.90

Tables:   1   2   3   4