genome.fa.s3295.2.7.7.80.10.50.1000.1.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: scaffold496
Parameters: 2 7 7 80 10 50 1000
Length:  277391

Tables:   1   

This is table  1  of  1  ( 103 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)
2476--2524	17	2.8	17	76	14	55	44	10	18	26	1.81
2968--3008	22	2.0	21	90	9	66	0	17	0	82	0.66
2972--3010	11	3.3	12	86	13	55	0	12	0	87	0.55
3113--3156	23	2.0	23	86	4	63	2	27	43	27	1.67
3400--3490	6	14.3	6	83	6	101	0	23	0	76	0.78
3399--3490	7	13.3	7	78	11	66	0	22	0	77	0.77
3397--3490	24	3.8	24	86	9	120	0	22	0	77	0.77
3418--3492	38	1.9	39	84	12	102	0	26	0	73	0.84
3412--3494	43	1.9	43	85	9	116	0	26	0	73	0.83
3616--3654	17	2.2	17	86	9	51	0	15	17	66	1.25
3805--3850	24	1.9	24	82	8	58	8	23	2	65	1.32
3995--4134	59	2.4	58	84	8	185	36	5	24	33	1.79
3995--4134	29	4.8	28	81	7	138	36	5	24	33	1.79
4425--4484	28	2.1	28	100	0	120	50	3	16	30	1.62
10855--10883	12	2.3	13	94	5	51	24	0	0	75	0.80
11779--11829	3	17.0	3	100	0	102	33	0	0	66	0.92
13947--14001	23	2.3	24	78	3	67	58	0	3	38	1.16
16789--16825	13	2.8	14	88	12	60	72	5	16	5	1.21
19871--19909	17	2.3	18	86	13	64	64	5	0	30	1.15
22696--22736	15	2.8	14	89	10	64	17	0	0	82	0.66
22672--22736	23	2.8	22	86	6	76	21	1	1	75	0.97
22696--22736	8	5.4	8	85	2	50	17	0	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22696--22736	7	5.6	7	88	11	64	17	0	0	82	0.66
29610--29655	24	1.9	24	86	0	65	50	17	21	10	1.77
32428--32479	8	6.6	8	74	12	54	73	0	13	13	1.11
32426--32465	17	2.4	17	87	8	55	70	0	17	12	1.18
32437--32487	22	2.3	23	80	10	70	68	0	15	15	1.21
32446--32479	7	4.7	7	85	7	50	76	0	11	11	1.02
32446--32485	14	2.7	14	88	7	53	75	0	12	12	1.06
33968--34142	44	4.0	43	65	9	102	28	18	25	28	1.98
33847--34434	132	4.5	132	92	2	936	29	18	23	28	1.98
33847--34434	259	2.2	262	91	2	941	29	18	23	28	1.98
34464--34634	93	1.8	94	82	7	222	24	17	9	48	1.76
35119--35400	131	2.2	131	86	1	395	26	22	25	25	2.00
35368--35640	44	6.4	44	68	11	138	32	23	17	26	1.97
35119--35464	131	2.6	131	81	2	318	27	21	25	25	1.99
35938--35983	19	2.4	19	85	0	65	36	39	6	17	1.76
37653--38176	107	5.0	106	85	1	703	30	17	19	32	1.95
40564--40606	13	3.3	13	80	0	50	55	4	2	37	1.33
45369--45534	72	2.3	73	86	6	234	56	13	6	24	1.60
45347--45534	72	2.7	71	82	5	231	54	13	5	26	1.60
48180--48907	50	14.6	50	72	2	449	24	21	22	31	1.99
48429--48919	100	4.9	100	89	1	716	24	21	22	31	1.98
48331--48919	200	2.9	196	82	4	678	24	21	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66609--66671	26	2.4	27	97	2	119	41	9	0	49	1.35
66822--67133	10	36.4	8	67	27	114	68	0	29	1	0.99
66819--66906	14	6.1	14	76	10	63	64	0	35	0	0.94
66856--67135	40	7.0	40	91	5	417	68	0	29	1	0.99
67883--67937	27	2.0	27	96	0	101	43	14	34	7	1.73
69172--69206	16	2.2	16	95	5	63	42	5	0	51	1.25
69172--69214	16	2.7	16	89	7	52	41	11	0	46	1.40
69188--69905	366	2.0	365	99	0	1427	28	25	17	28	1.98
72740--72775	12	3.0	12	95	0	63	5	19	0	75	1.00
72910--72972	26	2.4	27	86	2	83	52	1	9	36	1.44
91142--91291	42	3.6	41	81	8	169	17	20	16	46	1.85
91146--91291	21	7.0	21	69	6	89	17	21	15	45	1.85
100836--102021	593	2.0	593	100	0	2372	41	19	14	24	1.88
107174--107258	23	3.7	23	84	9	111	36	15	18	29	1.92
107505--107535	13	2.4	13	94	0	53	41	12	0	45	1.42
113801--113859	23	2.6	23	89	2	84	30	18	10	40	1.84
115155--115217	20	3.2	20	83	0	90	39	20	30	9	1.84
117626--117864	78	3.1	78	96	0	451	27	5	25	42	1.76
120551--121984	405	3.6	398	83	4	1734	26	24	16	31	1.97
127293--127374	30	2.7	30	86	1	119	24	13	12	50	1.76
131562--131612	26	1.9	27	88	11	79	29	3	15	50	1.62
132094--132228	40	3.4	40	75	10	116	36	22	23	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137010--137042	17	1.9	17	100	0	66	27	0	12	60	1.32
165218--165294	3	25.7	3	91	0	127	32	1	2	63	1.16
169874--169921	19	2.5	19	83	9	62	77	0	18	4	0.93
169874--169921	6	7.7	6	88	9	60	77	0	18	4	0.93
170281--170450	84	2.0	84	97	0	322	59	8	22	9	1.56
170366--170408	14	3.2	13	87	9	52	76	2	11	9	1.10
170371--170408	7	5.4	7	84	9	51	73	2	13	10	1.19
171649--171771	44	2.8	45	80	9	128	27	24	24	23	2.00
171786--171922	43	3.2	42	63	17	100	24	22	25	27	2.00
171728--172436	87	8.2	86	92	1	1057	28	23	24	23	2.00
171728--172436	173	4.1	173	91	1	1098	28	23	24	23	2.00
172090--172225	43	3.2	42	63	15	98	27	25	22	23	2.00
172373--172492	56	2.1	56	92	0	195	31	20	25	22	1.98
172429--172599	87	2.0	87	90	0	270	28	22	24	24	1.99
172286--172579	143	2.1	143	92	0	480	29	22	25	22	1.99
172662--173009	87	4.0	87	92	0	588	29	23	23	23	1.99
182420--182509	40	2.2	40	84	5	119	35	22	23	18	1.96
182420--182569	40	3.7	41	76	5	112	38	24	20	17	1.93
182549--182893	113	3.0	113	90	0	546	26	23	22	27	1.99
182986--183072	41	2.1	41	84	0	111	17	28	29	24	1.97
199728--199841	44	2.6	44	83	2	149	28	26	19	26	1.99
199852--200289	218	2.0	218	89	0	671	25	25	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200101--200421	132	2.4	132	87	0	453	27	24	19	28	1.99
200215--200497	44	6.5	44	65	12	125	27	26	19	26	1.99
201401--201436	15	2.3	16	90	4	56	0	16	0	83	0.65
202908--202943	18	2.0	18	94	0	63	22	25	11	41	1.86
210510--210589	39	2.1	39	100	0	160	32	17	17	32	1.93
216172--216212	20	2.0	20	100	0	82	34	4	9	51	1.56
216495--216536	16	2.6	16	85	7	50	52	0	9	38	1.34
226663--226697	18	1.9	18	94	0	61	45	14	17	22	1.84
226756--226798	18	2.4	18	88	0	59	41	44	2	11	1.53
226906--226999	9	10.4	9	89	8	106	23	11	21	43	1.85
226906--226999	27	3.5	27	81	13	122	23	11	21	43	1.85
227160--227184	12	2.1	12	100	0	50	16	24	36	24	1.94
236673--236800	57	2.2	57	81	11	150	33	19	24	22	1.97
246770--246820	23	2.2	23	89	0	75	27	9	19	43	1.82
247753--248008	128	2.0	128	86	1	361	25	23	16	35	1.95

Tables:   1

The End!