genome.fa.s363.2.7.7.80.10.50.1000.1.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: Scaffold363
Parameters: 2 7 7 80 10 50 1000
Length:  552799

Tables:   1   2   3   4   

This is table  1  of  4  ( 366 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)
10--53	7	6.1	7	82	12	54	11	2	81	4	0.92
10--52	22	2.0	20	86	8	59	11	2	81	4	0.93
10--61	21	2.4	22	81	12	63	11	3	80	3	0.97
114--31715	7	4135.0	7	74	20	18659	39	40	14	5	1.69
114--31715	15	2067.5	14	73	20	18659	39	40	14	5	1.69
842--885	12	3.4	13	84	9	54	47	38	13	0	1.43
179--1952	93	19.3	91	71	21	390	39	41	14	4	1.67
1486--1552	26	2.5	26	81	11	75	35	43	16	4	1.68
2135--2171	10	3.5	11	92	3	51	0	91	0	8	0.41
2135--2166	1	32.0	1	93	0	55	0	96	0	3	0.20
2306--2369	33	1.9	34	87	3	94	39	43	15	1	1.56
2353--31694	39	735.8	40	69	23	4802	40	40	14	5	1.68
2904--3167	8	32.9	9	72	20	50	42	38	14	5	1.69
2242--30751	22	1232.6	23	72	21	7748	39	39	14	5	1.69
5014--5048	10	3.9	9	85	14	54	34	34	28	2	1.72
5609--5665	9	6.2	9	78	10	53	43	35	15	5	1.70
5602--5673	18	4.1	17	77	10	56	44	34	15	5	1.70
2312--31693	100	296.9	92	71	21	8139	40	40	14	5	1.68
12392--12438	10	5.1	9	78	14	51	48	31	10	8	1.68
14946--14997	9	5.7	10	80	15	60	48	32	17	1	1.58
18454--18547	10	10.1	9	75	14	84	48	31	11	7	1.67
27604--27675	10	7.0	10	71	22	60	52	31	11	4	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30521--31970	21	68.3	21	82	10	1411	42	51	2	4	1.34
30521--31973	7	206.3	7	80	11	560	42	51	2	4	1.34
31944--32001	21	2.8	21	78	5	55	39	37	1	20	1.63
31990--32036	20	2.3	21	77	3	51	46	27	0	25	1.53
32103--32198	14	7.0	13	70	13	50	43	25	1	30	1.61
32131--32182	27	1.9	27	84	7	70	44	25	1	28	1.65
33101--33138	14	2.6	14	80	19	51	42	2	0	55	1.14
34647--34671	9	2.8	9	100	0	50	92	8	0	0	0.40
34734--34887	73	2.0	76	86	10	217	28	16	16	37	1.91
37417--37448	3	10.7	3	100	0	64	31	0	0	68	0.90
37447--37481	3	11.7	3	87	0	52	0	0	37	62	0.95
37448--37481	9	3.8	9	96	0	59	0	0	38	61	0.96
38546--38583	14	2.8	14	88	11	53	5	7	0	86	0.69
42067--42105	13	3.0	13	82	14	53	82	12	2	2	0.89
48278--48334	30	1.9	30	92	0	96	29	5	22	42	1.76
48203--48381	34	5.4	34	74	14	142	31	5	18	44	1.73
52753--52866	34	3.4	33	81	3	138	24	6	26	42	1.78
52945--53036	45	2.1	44	91	2	148	41	9	16	32	1.81
57215--57249	18	1.9	18	94	0	61	37	20	11	31	1.88
61546--61600	23	2.4	23	87	0	83	50	10	21	16	1.75
62050--62100	25	2.0	25	85	7	68	47	0	1	50	1.12
62155--62222	32	2.0	33	83	8	84	38	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62335--62379	21	2.1	21	84	8	56	42	0	2	55	1.12
62327--62395	29	2.4	29	76	9	70	44	0	1	53	1.09
65133--65201	20	3.4	21	82	9	81	42	8	14	34	1.77
65242--65295	20	2.7	19	91	5	81	29	12	11	46	1.77
70161--70207	17	3.1	14	82	17	51	53	0	2	44	1.12
71058--71130	38	1.9	38	86	5	103	34	16	6	42	1.75
78755--78919	20	7.8	20	75	16	145	38	13	16	30	1.88
78705--78879	70	2.5	70	88	4	246	39	13	17	29	1.88
79304--79337	9	3.8	9	88	0	50	2	8	2	85	0.80
79693--80435	56	13.1	57	77	7	669	26	16	27	29	1.97
79693--80435	84	8.7	84	79	4	679	26	16	27	29	1.97
79693--80397	28	24.9	28	80	4	605	25	16	27	29	1.97
79988--80916	28	33.4	28	78	8	475	29	14	28	27	1.95
80413--80935	27	19.0	27	80	7	409	31	14	28	25	1.95
80413--80935	55	9.5	55	80	6	483	31	14	28	25	1.95
82214--82287	23	3.3	22	73	9	60	9	10	6	72	1.26
88793--88903	20	5.6	20	83	8	138	36	17	12	33	1.87
91865--91902	2	19.0	2	100	0	76	50	0	0	50	1.00
96393--96426	16	2.2	16	89	5	52	17	20	20	41	1.91
97691--97748	28	2.2	27	81	9	66	32	10	5	51	1.58
99909--99949	21	2.0	20	85	4	55	46	2	51	0	1.14
99913--99947	18	2.0	17	88	5	52	45	2	51	0	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100071--100116	2	23.0	2	100	0	92	0	50	0	50	1.00
108673--108703	3	10.3	3	92	0	53	29	3	35	32	1.73
109058--109084	3	9.0	3	100	0	54	33	0	0	66	0.92
109224--109255	15	2.1	15	100	0	64	65	0	28	6	1.16
117066--117097	2	16.0	2	100	0	64	50	0	0	50	1.00
117120--117146	4	6.8	4	100	0	54	22	0	0	77	0.76
120586--120641	2	28.0	2	96	0	103	48	1	0	50	1.11
122918--122965	24	2.0	24	95	0	87	22	37	20	18	1.94
123008--123050	16	2.7	16	75	13	52	53	0	0	46	1.00
123978--124034	10	5.3	11	73	22	50	71	1	1	24	1.04
123965--124007	22	1.9	23	86	13	63	69	2	2	25	1.12
123948--124040	40	2.3	39	75	15	89	67	3	3	25	1.20
124112--124189	36	2.1	35	84	11	95	47	2	1	48	1.23
124169--124232	11	5.2	12	70	15	51	65	1	0	32	1.02
124122--124200	36	2.2	36	82	11	99	49	2	1	46	1.23
124295--124335	14	2.9	14	85	7	55	65	9	0	24	1.22
124436--124473	3	13.0	3	88	5	60	65	0	2	31	1.06
124916--124958	2	21.5	2	90	0	68	48	0	46	4	1.22
134520--134546	5	5.4	5	100	0	54	81	0	0	18	0.69
134566--134590	5	5.0	5	100	0	50	40	0	40	20	1.52
135890--135926	2	18.5	2	100	0	74	48	0	0	51	1.00
138769--138809	12	3.4	12	89	0	64	41	7	0	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138769--138809	2	20.5	2	84	0	55	41	7	0	51	1.30
141835--141869	2	17.5	2	100	0	70	48	0	51	0	1.00
142104--142135	2	16.0	2	93	0	55	0	53	0	46	1.00
142135--142174	2	20.0	2	94	0	71	47	0	2	50	1.14
146866--146908	3	14.3	3	95	0	77	30	0	2	67	1.03
151265--151292	6	4.7	6	100	0	56	0	0	50	50	1.00
151736--151770	18	2.0	18	88	5	54	77	8	8	5	1.13
164217--164441	58	3.9	57	84	5	281	13	19	33	33	1.91
173579--173611	16	2.0	17	88	5	50	54	0	36	9	1.32
173920--173951	3	10.3	3	93	6	55	68	0	0	31	0.90
173912--173951	16	2.4	17	91	4	64	70	0	0	30	0.88
173912--173953	13	3.5	13	87	12	63	69	0	0	30	0.89
174215--174256	3	14.0	3	94	0	75	30	0	2	66	1.04
176257--176289	3	11.0	3	100	0	66	66	0	0	33	0.92
177563--177596	3	11.3	3	93	0	59	64	2	32	0	1.08
186800--186846	3	15.7	3	95	0	85	31	2	0	65	1.04
187108--187172	14	4.9	12	74	23	51	69	3	1	26	1.12
187129--187176	9	5.1	9	80	9	51	68	2	0	29	1.01
197188--197213	6	4.3	6	100	0	52	65	0	34	0	0.93
198761--198791	4	7.8	4	100	0	62	25	0	0	74	0.82
199752--199783	3	10.7	3	93	0	55	68	3	0	28	1.04
201558--201590	13	2.6	13	90	4	50	78	3	15	3	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
202186--202215	2	15.0	2	92	0	51	0	53	0	46	1.00
203163--203197	2	17.5	2	100	0	70	48	0	0	51	1.00
204115--204139	3	8.3	3	100	0	50	32	0	32	36	1.58
205639--205703	33	2.0	33	96	0	121	46	7	3	43	1.48
205961--206015	17	3.4	17	68	14	53	14	32	3	49	1.61
205959--206020	31	2.0	31	96	0	115	16	33	3	46	1.63
207316--207342	5	5.4	5	100	0	54	59	0	40	0	0.98
208639--208679	2	20.5	2	100	0	82	51	0	48	0	1.00
208803--208841	2	20.0	2	89	5	62	51	0	0	48	1.00
210219--210246	2	14.0	2	100	0	56	50	0	0	50	1.00

Tables:   1   2   3   4