genome.fa.s48.2.7.7.80.10.50.1000.1.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  1  of  27  ( 3212 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)
2913--2952	1	40.0	1	94	0	71	0	97	2	0	0.17
7875--7956	41	2.0	41	88	4	121	34	19	8	37	1.82
16035--16080	24	1.9	24	86	8	67	45	28	8	17	1.78
16037--16133	27	3.7	26	82	4	99	46	25	8	19	1.78
16121--16178	26	2.3	25	88	5	82	27	15	24	32	1.95
20630--20699	24	2.8	25	82	10	81	47	22	8	21	1.78
20639--20728	27	3.5	26	81	4	85	46	20	8	24	1.78
20716--20773	26	2.3	25	88	5	82	27	15	24	32	1.95
21666--21700	10	3.5	10	88	11	54	88	0	11	0	0.51
24094--24123	8	3.6	8	91	8	51	86	0	13	0	0.57
24094--24122	9	3.3	9	95	4	51	89	0	10	0	0.48
30931--30981	19	2.7	19	90	0	84	11	15	35	37	1.84
31001--31055	28	2.0	28	100	0	110	18	10	21	49	1.78
31037--31105	24	2.8	24	82	4	75	21	5	26	46	1.74
31175--31204	13	2.3	13	94	0	51	20	36	6	36	1.79
32788--32857	25	2.5	28	75	20	74	35	1	4	58	1.26
37902--37940	21	1.9	21	89	5	62	28	2	7	61	1.37
41151--41203	22	2.4	22	87	0	70	39	30	11	18	1.86
46125--46160	18	2.1	18	89	5	56	61	0	0	38	0.96
46434--46476	21	2.0	21	90	0	68	30	2	4	62	1.28
49835--49894	22	2.7	22	86	0	93	11	20	40	28	1.87
49955--49991	16	2.4	16	90	4	58	13	21	21	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50500--50550	25	2.2	22	82	10	57	15	0	5	78	0.93
50500--50557	22	2.5	22	77	5	62	17	1	5	75	1.06
51265--51304	18	2.2	19	86	8	57	35	2	5	57	1.34
53537--54641	414	2.7	412	81	6	1276	41	6	8	43	1.60
55049--55116	21	3.2	21	75	8	75	35	4	5	54	1.45
55055--55120	11	6.1	11	73	8	55	39	4	4	51	1.43
55061--55127	21	3.2	21	78	0	80	35	4	5	53	1.46
55165--55241	21	3.5	22	77	10	61	33	5	9	51	1.56
55195--55306	21	5.3	21	66	14	61	33	4	7	54	1.48
55614--55669	10	5.4	10	76	20	53	37	1	1	58	1.19
55615--55669	20	2.7	21	85	2	76	38	1	1	58	1.20
55585--55654	33	2.1	34	83	2	88	35	2	5	55	1.38
56099--56198	21	4.7	21	80	2	101	33	9	6	52	1.57
56099--56191	42	2.2	43	84	1	125	34	9	4	51	1.54
56264--56319	11	5.6	11	72	23	61	37	0	1	60	1.07
56268--56325	19	3.0	19	94	2	98	36	0	1	62	1.06
56264--56336	11	7.2	10	72	22	55	35	0	2	61	1.10
56518--56637	21	5.8	20	81	4	96	36	5	5	51	1.50
56500--56645	41	3.5	42	75	4	127	37	6	5	50	1.50
56970--57074	20	5.2	20	69	13	70	31	5	13	49	1.65
57378--57431	20	2.6	21	88	2	83	38	1	7	51	1.41
57460--57537	21	3.8	21	75	8	79	34	11	3	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57912--57971	20	3.0	20	82	2	66	36	5	3	55	1.38
57937--57997	21	2.9	20	75	18	61	36	6	8	49	1.59
58077--58131	11	5.5	11	73	20	50	34	0	5	60	1.20
58074--58131	18	3.1	18	77	5	62	36	0	5	58	1.20
58081--58227	20	7.3	20	69	8	93	33	5	8	53	1.54
58189--58237	21	2.4	21	79	3	55	34	12	8	44	1.71
58390--58458	21	3.3	21	81	2	77	36	4	5	53	1.45
58513--58557	21	2.1	21	88	8	65	35	4	4	55	1.40
59198--59275	41	1.9	41	81	5	95	35	5	10	48	1.59
59301--59373	21	3.5	21	80	0	83	35	9	5	49	1.59
59747--59805	21	2.9	21	79	2	66	28	1	8	61	1.35
59757--59914	21	7.7	21	68	11	94	29	6	7	55	1.54
59931--59977	21	2.3	20	86	10	69	34	0	0	65	0.93
59940--59979	21	1.9	21	100	0	80	35	0	0	65	0.93
59940--59976	12	3.3	12	78	21	53	32	0	0	67	0.91
59923--59991	21	3.4	19	80	11	66	31	2	2	62	1.25
60122--60201	11	7.7	10	75	17	56	36	1	5	57	1.28
60114--60201	21	4.3	20	80	9	81	35	1	6	56	1.33
60023--60242	41	5.4	40	71	10	122	34	5	9	50	1.58
60149--60268	21	5.8	21	78	8	104	37	5	6	50	1.50
60172--60299	42	3.1	39	74	8	105	39	6	5	49	1.51
60288--60403	62	1.9	61	82	12	148	34	8	8	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60691--60737	21	2.3	21	85	10	62	34	2	14	48	1.56
60749--60835	43	2.0	42	82	6	104	31	5	11	51	1.61
60732--60835	21	4.9	21	78	9	95	32	5	9	51	1.58
61157--61230	21	3.6	21	81	7	71	36	9	20	33	1.85
61265--61402	51	2.7	52	89	2	208	30	13	10	45	1.77
64799--64858	21	2.9	21	74	16	54	28	8	3	60	1.42
64926--65069	21	7.0	21	71	14	93	36	4	7	52	1.50
69188--69242	20	2.8	20	88	0	83	41	20	5	32	1.75
69318--69342	13	1.9	13	100	0	50	36	16	16	32	1.90
69299--69363	32	2.0	33	90	3	105	40	15	15	29	1.88
69462--69504	23	1.9	22	90	4	68	37	11	6	44	1.68
70367--70391	13	1.9	13	100	0	50	32	16	16	36	1.90
70400--70524	52	2.4	52	93	0	205	36	17	17	28	1.93
77410--77450	14	2.7	15	88	11	66	85	14	0	0	0.60
77407--77453	18	2.6	17	90	10	67	87	12	0	0	0.55
77407--77456	22	2.3	22	92	0	82	88	12	0	0	0.53
77407--77456	11	4.6	11	82	2	66	88	12	0	0	0.53
77410--77454	8	5.9	8	79	10	58	86	13	0	0	0.57
78730--79080	34	10.7	31	87	8	303	21	33	13	31	1.92
78855--79080	34	6.7	34	91	4	343	21	36	11	30	1.89
79088--79209	33	3.7	34	90	6	182	31	36	15	17	1.91
82914--82954	3	14.0	3	94	5	75	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105102--105127	4	6.5	4	100	0	52	23	0	0	76	0.78
105671--105723	24	2.2	24	80	16	65	54	0	1	43	1.11
105669--105725	20	2.8	20	84	12	64	54	0	1	43	1.10
111331--111372	2	21.0	2	100	0	84	50	0	50	0	1.00
115513--115540	2	14.0	2	100	0	56	50	0	0	50	1.00
124953--124998	2	23.0	2	90	0	74	0	45	2	52	1.13
125416--125443	2	14.0	2	100	0	56	50	0	0	50	1.00
126119--126143	3	8.3	3	100	0	50	68	0	32	0	0.90
127108--127194	5	18.0	5	73	15	76	59	2	2	35	1.22
127100--127175	18	4.3	18	77	14	79	57	2	1	38	1.21
128047--128109	21	3.0	21	77	11	67	46	0	1	52	1.10
128061--128104	23	2.0	22	82	13	54	43	0	2	54	1.12
129850--129879	15	2.0	15	93	0	51	23	13	0	63	1.29
130568--130603	18	2.0	17	89	10	54	36	0	2	61	1.11
130561--130628	27	2.3	29	83	11	86	35	0	1	63	1.04
130675--130740	25	2.7	24	73	17	64	37	0	1	60	1.06
130892--130942	23	2.2	23	78	0	57	33	1	15	49	1.56
131457--131487	15	2.1	15	100	0	62	32	6	0	61	1.21
131728--131776	21	2.3	20	80	10	53	55	0	0	44	0.99
133907--133933	12	2.2	12	100	0	54	92	0	7	0	0.38
135454--135487	2	17.0	2	100	0	68	50	0	0	50	1.00
135915--135940	4	6.5	4	100	0	52	50	0	23	26	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137700--138025	162	2.0	161	98	0	634	37	24	15	22	1.93
143634--143684	26	1.9	27	88	11	79	50	0	1	47	1.12
145731--145771	20	2.0	20	100	0	82	41	0	19	39	1.52
145728--145773	20	2.5	18	83	16	67	39	0	19	41	1.52
147389--147429	20	2.0	20	100	0	82	19	24	24	31	1.98
150503--150577	20	3.8	19	78	7	87	41	10	13	34	1.79
151141--152408	28	44.4	28	83	6	809	24	17	30	26	1.97
151142--151884	174	4.2	173	85	5	825	21	19	30	28	1.97
151842--152425	27	21.3	27	86	2	700	29	15	30	24	1.96
151162--151884	146	4.9	149	85	4	503	22	19	30	28	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27