genome.fa.s508.2.7.7.80.10.50.1000.1.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: Scaffold508
Parameters: 2 7 7 80 10 50 1000
Length:  522420

Tables:   1   2   3   

This is table  1  of  3  ( 289 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)
1397--1525	31	3.9	31	80	13	159	31	26	18	24	1.98
1357--1527	69	2.5	69	87	3	229	32	24	18	24	1.97
2036--2079	22	2.0	21	86	4	61	59	11	4	25	1.51
2373--2415	21	2.0	22	86	4	61	41	4	2	51	1.35
5264--5319	6	9.3	6	92	0	85	51	1	0	46	1.11
5264--5319	4	14.0	4	88	0	85	51	1	0	46	1.11
5264--5319	10	5.6	10	93	0	85	51	1	0	46	1.11
6715--6748	16	2.1	17	88	5	52	26	2	8	61	1.40
7121--7162	17	2.5	17	84	7	50	30	16	4	47	1.67
11884--13848	350	5.6	351	81	7	1933	40	10	10	38	1.75
11884--13933	712	2.9	701	78	9	2073	39	11	10	38	1.75
18145--18189	13	3.6	12	79	8	54	42	0	0	57	0.98
22976--23023	6	8.0	6	90	0	69	52	2	0	45	1.12
22976--23023	4	12.0	4	86	0	69	52	2	0	45	1.12
22976--23023	10	4.8	10	92	0	69	52	2	0	45	1.12
27444--27471	14	2.0	14	100	0	56	28	7	14	50	1.69
28460--28486	3	9.0	3	100	0	54	33	0	0	66	0.92
28500--28862	177	2.0	182	90	4	587	39	8	11	39	1.73
29207--29240	18	1.9	17	88	5	50	44	0	11	44	1.40
30422--30639	34	6.5	34	88	1	296	24	7	27	40	1.82
30422--30641	67	3.3	67	88	1	323	24	7	27	40	1.82
30945--31007	19	3.3	19	90	0	90	28	17	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35073--35290	34	6.5	34	88	1	296	24	7	27	40	1.82
35073--35292	67	3.3	67	88	1	323	24	7	27	40	1.82
35986--36029	23	1.9	23	81	9	54	47	6	11	34	1.66
36729--36775	24	2.0	23	87	8	67	55	2	0	42	1.12
37963--38014	16	3.1	17	78	16	54	59	3	0	36	1.16
45362--46353	540	1.8	528	84	5	1301	39	10	11	38	1.76
48400--49558	577	2.0	575	86	4	1602	40	8	11	38	1.73
49091--49537	246	1.8	239	83	5	567	44	8	11	36	1.70
53649--53680	16	1.9	17	93	6	57	46	3	6	43	1.44
55989--56033	13	3.6	12	79	8	54	42	0	0	57	0.98
56835--56868	18	1.9	17	94	5	59	20	0	0	79	0.73
57543--57615	29	2.5	30	71	10	69	53	0	1	45	1.09
78155--78233	41	1.9	41	89	0	122	51	11	3	32	1.55
78342--78431	38	2.3	39	80	1	101	38	18	15	26	1.91
80575--80612	18	2.0	20	85	10	53	47	15	5	31	1.68
80875--81565	344	2.0	343	92	2	1156	38	10	12	37	1.79
81474--81704	125	1.8	126	86	1	338	38	11	14	35	1.83
84245--84486	127	1.9	129	86	1	353	39	12	16	31	1.86
85865--85907	16	2.6	16	82	10	52	58	4	2	34	1.32
90710--90745	2	18.0	2	100	0	72	50	0	0	50	1.00
90673--90718	24	1.9	24	86	0	65	34	4	15	45	1.66
92217--92255	20	2.0	20	85	5	53	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94669--94783	39	2.9	41	71	22	102	49	0	0	49	1.06
98113--98159	22	2.1	22	100	0	94	29	25	8	36	1.86
98342--98383	20	2.1	20	100	0	84	38	26	21	14	1.91
98740--98772	2	16.5	2	93	0	57	48	48	3	0	1.17
99224--99269	17	2.7	17	100	0	92	28	15	13	43	1.83
102389--102762	188	2.0	188	97	0	703	35	12	17	33	1.88
107309--107353	18	2.5	18	89	10	74	62	0	0	37	0.96
109560--109608	12	3.8	12	77	15	53	38	0	4	57	1.18
109551--109607	27	2.1	27	100	0	114	42	0	3	54	1.17
109551--109595	15	3.2	15	75	18	60	44	0	2	53	1.13
110821--110853	4	8.5	4	93	6	59	75	0	0	24	0.80
112877--112906	2	15.5	2	93	6	53	50	0	0	50	1.00
112880--112905	13	2.0	13	100	0	52	53	0	0	46	1.00
112878--112906	15	1.9	15	100	0	58	51	0	0	48	1.00
115821--115863	21	2.0	21	86	8	61	55	2	0	41	1.12
117141--117187	23	2.0	23	95	0	85	44	6	6	42	1.55
119517--121029	348	4.4	344	85	5	1724	39	10	10	39	1.74
119517--121029	692	2.2	684	81	7	1768	39	10	10	39	1.74
119517--121209	348	4.9	349	83	6	1697	38	10	10	39	1.75
123410--123449	19	2.1	19	100	0	80	37	15	22	25	1.93
125605--125646	13	3.4	13	83	6	52	45	9	0	45	1.36
125875--125928	3	18.7	3	74	14	51	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
125871--125908	13	2.8	14	88	8	60	34	0	0	65	0.93
125861--125925	15	4.3	15	73	9	60	41	0	0	58	0.98
126358--126395	19	2.0	20	89	5	60	42	2	5	50	1.39
126537--126607	27	2.6	27	81	0	79	23	4	23	47	1.69
129163--129208	21	2.1	22	84	4	58	30	19	30	19	1.97
131091--131162	27	2.7	27	84	0	90	25	5	22	47	1.73
132837--132948	43	2.7	40	75	15	102	41	0	0	58	0.98
132871--132940	32	2.2	33	80	14	85	42	0	0	57	0.99
132889--132938	17	3.2	16	74	20	52	42	0	0	58	0.98
132900--132955	21	2.5	22	80	11	60	37	0	0	62	0.95
132900--132954	23	2.3	24	87	3	76	36	0	0	63	0.95
133635--133701	33	1.9	33	85	8	89	40	4	5	49	1.48
133864--133888	2	12.5	2	100	0	50	48	0	0	52	1.00
134138--134165	2	14.0	2	100	0	56	50	0	0	50	1.00
136489--136534	20	2.3	20	88	0	65	34	4	50	10	1.57
137811--137854	21	2.0	22	82	8	54	54	2	2	40	1.25
138822--138948	5	26.4	5	70	17	74	41	1	0	55	1.14
138820--138948	18	7.5	17	69	20	74	41	1	0	55	1.14
141727--141756	8	3.9	8	95	4	53	36	0	0	63	0.95
142871--142931	25	2.4	25	83	0	77	54	14	4	26	1.61
143075--143154	38	2.1	38	83	4	99	47	10	5	37	1.59
145980--146031	27	1.9	27	84	7	70	57	1	1	38	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146899--146947	3	16.7	3	91	4	55	30	8	0	61	1.25
146990--147168	92	1.9	92	93	0	304	35	11	17	35	1.86
147770--147800	16	1.9	16	93	0	53	38	6	19	35	1.77
150120--150150	3	10.3	3	100	0	62	32	0	0	67	0.91
150449--150484	2	18.0	2	88	0	54	44	0	5	50	1.25
152834--152872	18	2.2	18	86	4	53	33	0	7	58	1.26
153165--153947	352	2.2	345	81	7	881	37	11	8	41	1.73
157005--157031	13	2.1	13	100	0	54	66	0	0	33	0.92
158522--158561	19	2.1	19	95	0	71	42	5	12	40	1.64
158579--159416	356	2.4	350	80	6	872	38	11	10	38	1.77
162773--162812	16	2.6	16	88	4	55	32	2	2	62	1.22
162773--162814	15	2.7	15	82	13	50	33	2	2	61	1.21
164147--164187	21	2.0	21	85	9	57	58	0	2	39	1.11
170140--170198	30	1.9	31	83	10	77	54	0	0	45	0.99
174154--174181	2	14.0	2	100	0	56	50	0	0	50	1.00
183542--183575	2	17.0	2	93	0	59	52	0	0	47	1.00
184098--184130	17	2.0	16	94	5	57	48	6	3	42	1.43
185528--185561	16	2.1	16	100	0	68	52	5	11	29	1.61
185702--185735	14	2.4	14	95	0	59	44	0	0	55	0.99
190379--190713	179	1.9	179	86	4	480	39	7	11	41	1.70
190384--190753	178	2.1	175	82	8	419	40	7	11	40	1.70
191777--191801	6	4.2	6	100	0	50	52	0	32	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
193631--193692	3	20.3	3	90	3	79	32	1	4	61	1.27
200097--200131	2	17.5	2	100	0	70	51	0	0	48	1.00
202636--202669	18	1.9	18	88	5	52	35	0	5	58	1.22
204356--204397	21	2.0	21	81	13	50	59	2	14	23	1.47
205269--205302	18	1.9	18	88	5	52	35	0	5	58	1.22
207102--207292	92	2.1	92	85	4	253	30	16	14	39	1.88
207579--208083	270	1.9	268	86	3	719	43	8	11	36	1.71
210331--210370	2	20.0	2	100	0	80	50	0	0	50	1.00
211149--211183	15	2.2	15	90	10	52	48	0	0	51	1.00
214157--214183	13	2.1	13	100	0	54	44	25	7	22	1.79

Tables:   1   2   3