genome.fa.s341.2.7.7.80.10.50.1000.1.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: Scaffold341
Parameters: 2 7 7 80 10 50 1000
Length:  1349338

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1050 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)
361--400	20	2.0	20	85	5	53	75	5	2	17	1.10
537--577	20	2.0	21	85	4	57	7	29	0	63	1.21
1456--1493	12	3.2	12	88	3	60	42	5	0	52	1.24
4189--4223	6	5.8	6	86	0	52	82	17	0	0	0.66
4186--4224	12	3.2	12	88	0	60	79	20	0	0	0.73
7585--7617	2	16.5	2	100	0	66	48	0	0	51	1.00
8722--8754	16	2.1	16	88	5	50	54	6	6	33	1.50
8875--8913	2	19.5	2	100	0	78	48	0	0	51	1.00
10822--10868	24	2.0	24	83	8	60	38	0	0	61	0.96
12162--12202	3	13.7	3	100	0	82	31	0	0	68	0.90
16431--17355	462	2.0	462	97	0	1753	36	12	22	29	1.90
19272--19405	51	2.7	50	83	1	160	43	11	12	32	1.79
22958--23009	21	2.5	21	84	3	70	48	11	15	25	1.78
23070--23146	40	1.9	40	87	10	113	35	12	11	40	1.80
26879--26928	20	2.5	20	83	3	75	32	18	16	34	1.92
28589--28618	9	3.3	9	95	0	51	46	0	23	30	1.52
29046--29082	15	2.4	17	82	17	53	51	0	13	35	1.41
36571--36597	13	2.1	13	100	0	54	29	14	14	40	1.86
36582--36628	19	2.4	19	89	3	67	29	17	14	38	1.89
37625--37679	27	2.0	27	96	0	101	38	21	9	30	1.85
40155--40303	78	1.9	78	85	0	208	32	19	15	32	1.93
43931--43962	15	2.1	15	100	0	64	50	6	18	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43999--44023	13	1.9	13	100	0	50	20	0	8	72	1.10
44504--44623	58	2.1	57	80	7	127	28	7	13	50	1.68
44640--44858	58	3.8	57	75	1	186	28	12	12	46	1.78
47400--47585	7	24.3	7	66	19	61	36	0	0	62	1.04
47409--47488	29	2.6	30	73	16	74	41	1	0	57	1.07
47464--47523	17	3.6	17	72	22	56	45	0	1	53	1.10
47520--47604	21	4.3	20	79	11	86	28	0	0	71	0.86
47525--47602	23	3.7	22	79	19	78	26	0	0	73	0.84
47515--47606	18	4.8	19	74	19	84	27	0	1	71	0.93
55767--55807	21	2.0	21	95	0	73	19	24	29	26	1.98
56918--56955	19	2.0	19	85	10	51	28	0	10	60	1.30
56948--56977	11	2.6	11	94	5	51	26	0	10	63	1.26
57563--57594	6	5.2	6	96	3	55	37	0	0	62	0.95
57564--57601	12	2.8	14	88	11	53	34	0	0	65	0.93
58088--58382	104	2.8	104	84	4	351	45	4	4	45	1.42
59366--59419	26	2.2	24	83	6	63	48	1	0	50	1.11
59607--59646	19	2.0	20	90	4	64	57	2	0	40	1.12
60573--60773	99	2.0	100	87	1	287	39	4	10	44	1.61
61916--61989	22	3.4	21	74	7	67	51	2	10	35	1.51
62125--62178	21	2.5	22	81	3	65	55	3	9	31	1.49
63026--63063	18	2.1	18	90	0	58	57	0	7	34	1.28
63487--63529	16	2.6	17	85	3	52	60	2	0	37	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64337--64429	46	2.0	45	80	10	100	53	1	2	43	1.19
64484--64535	19	2.9	18	83	13	63	38	1	0	59	1.08
64534--64588	27	2.2	25	83	9	76	60	1	0	38	1.08
64665--64780	29	3.9	31	76	8	91	50	2	3	43	1.33
64733--64767	18	2.0	17	88	5	52	45	0	0	54	0.99
64656--64792	30	4.5	30	72	10	91	49	2	2	44	1.32
65304--65407	19	5.3	19	70	22	72	44	0	0	54	1.06
65301--65408	22	4.9	22	70	15	80	45	0	0	53	1.06
65311--65407	9	11.0	9	69	15	60	43	0	1	55	1.06
65667--65691	13	1.9	13	100	0	50	68	0	0	32	0.90
65684--65734	15	3.4	15	81	5	50	45	0	0	54	0.99
71817--71863	10	4.6	10	77	15	51	68	0	0	31	0.90
71804--71863	13	4.1	15	78	18	54	65	0	0	35	0.93
72179--72210	5	6.8	5	92	7	50	0	12	0	87	0.54
76582--76624	14	3.1	14	93	0	68	20	20	9	48	1.77
78823--79035	70	3.0	70	78	11	209	53	7	2	36	1.43
79197--79228	17	2.0	17	88	11	50	46	0	0	53	1.00
79589--79660	26	2.7	26	93	2	126	47	0	0	52	1.00
79662--79726	24	2.6	25	75	15	64	58	0	0	41	0.98
79828--79907	29	2.6	31	80	11	85	37	0	0	62	0.95
81779--81804	2	13.0	2	100	0	52	50	0	0	50	1.00
88950--89000	26	2.0	26	92	0	84	33	31	27	7	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100941--100973	16	2.1	16	94	0	57	51	0	3	45	1.16
100973--101025	27	2.0	26	82	10	63	33	0	0	66	0.92
100967--101010	20	2.1	21	87	4	63	34	0	0	65	0.93
100967--101029	21	3.0	21	83	6	65	34	0	0	65	0.93
101058--101112	22	2.6	23	75	13	55	47	0	3	49	1.19
101637--101668	11	3.1	11	86	13	50	37	0	0	62	0.95
106435--106486	26	2.0	26	92	0	86	32	32	26	7	1.85
118447--118499	27	2.0	26	82	10	63	33	0	0	66	0.92
118441--118484	20	2.1	21	87	4	63	34	0	0	65	0.93
118441--118503	21	3.0	21	83	6	65	34	0	0	65	0.93
118532--118586	22	2.6	23	75	13	55	47	0	3	49	1.19
119605--119648	19	2.3	20	85	11	58	40	0	2	56	1.11
120224--120282	15	3.9	15	68	18	50	47	0	3	49	1.18
120905--120938	3	11.3	3	100	0	68	67	0	0	32	0.91
121183--121307	70	1.9	66	83	11	166	52	1	0	44	1.16
121192--121421	121	2.0	119	81	12	280	54	1	0	43	1.16
121352--121437	22	3.9	23	72	15	74	59	0	1	39	1.05
122928--123004	15	5.3	15	75	12	70	49	3	1	45	1.28
123171--123220	22	2.3	22	89	6	75	50	8	6	36	1.57
123260--123343	15	5.3	15	78	12	78	55	2	2	39	1.26
123260--123343	34	2.6	30	76	10	78	55	2	2	39	1.26
123667--123719	21	2.6	21	80	11	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123642--123763	51	2.5	50	81	9	126	54	0	0	44	1.05
124577--124612	4	9.0	4	100	0	72	25	0	0	75	0.81
125566--125614	13	3.8	13	83	0	62	20	40	6	32	1.77
125566--125626	26	2.4	25	78	10	61	18	39	6	36	1.76
133727--133771	13	3.5	13	81	6	56	22	4	28	44	1.72
137115--137165	26	2.0	26	96	0	93	39	3	15	41	1.66
137439--137469	3	10.3	3	92	0	53	29	0	3	67	1.06
138349--138422	12	5.8	12	76	9	76	36	9	10	43	1.72
138349--138423	25	2.9	26	80	7	98	36	9	10	44	1.72
139380--139425	16	3.0	16	81	6	51	39	0	2	58	1.10
140216--140246	16	2.0	15	93	6	53	58	12	0	29	1.35
140988--141022	2	17.5	2	100	0	70	48	0	0	51	1.00
141297--141384	25	3.5	24	75	13	63	32	2	2	62	1.20
141443--141485	22	1.9	24	86	13	65	58	2	2	37	1.24
147360--147389	13	2.3	13	94	0	51	56	0	0	43	0.99
147907--147993	16	5.2	16	74	17	70	64	1	2	32	1.13
147946--147979	15	2.2	16	89	5	52	61	2	2	32	1.26
147912--147994	25	3.2	25	78	14	80	61	1	2	34	1.17
149111--149152	20	2.0	21	90	4	68	30	2	0	66	1.04
149442--149473	2	16.0	2	100	0	64	50	0	0	50	1.00
151674--151719	3	15.3	3	100	0	92	32	0	0	67	0.91
152314--152364	20	2.6	19	81	9	57	47	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152427--152453	2	13.5	2	100	0	54	48	0	0	51	1.00
153034--153065	17	1.9	17	93	6	57	43	6	0	50	1.27
153033--153101	16	4.1	16	70	9	57	46	2	1	49	1.25
153118--153165	22	2.2	22	88	7	71	56	0	2	41	1.11
154435--154488	24	2.3	24	96	3	101	38	9	7	44	1.65
155073--155110	2	19.0	2	88	0	58	44	0	5	50	1.24
158656--158721	26	2.5	27	71	22	68	45	0	0	54	0.99
158728--158780	22	2.2	25	80	9	67	62	0	0	37	0.96
159187--159228	13	3.3	13	87	12	61	50	0	4	45	1.23
163152--163220	21	3.3	20	78	9	68	68	2	1	27	1.13

Tables:   1   2   3   4   5   6   7   8   9