genome.fa.s134.2.7.7.80.10.50.1000.1.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: Scaffold134
Parameters: 2 7 7 80 10 50 1000
Length:  811437

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 559 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)
1--9833	7	1375.0	7	77	15	7466	40	42	12	4	1.63
8610--9535	60	15.4	60	75	17	509	42	42	2	13	1.57
9850--9910	7	8.9	7	78	10	63	31	34	0	34	1.58
9850--9910	13	4.5	13	80	10	68	31	34	0	34	1.58
9857--9911	28	2.0	28	88	0	83	30	36	0	32	1.58
9858--9914	13	4.2	13	80	8	69	33	35	0	31	1.58
10668--10697	6	5.0	6	91	0	51	46	16	20	16	1.84
10983--11008	3	8.7	3	100	0	52	0	0	30	69	0.89
16837--16905	32	2.2	32	81	0	75	44	5	2	46	1.42
16848--16975	32	4.1	31	77	5	107	42	2	3	51	1.33
17950--17985	18	2.0	18	89	10	56	44	5	0	50	1.25
18248--18285	2	19.0	2	94	0	67	50	0	2	47	1.15
18491--18533	18	2.6	16	85	7	50	23	11	16	48	1.78
18497--18533	16	2.2	18	85	9	51	18	13	16	51	1.76
21336--21364	15	1.9	15	100	0	58	0	13	0	86	0.58
21337--21370	15	2.3	15	89	0	50	0	20	0	79	0.73
21628--21657	14	2.1	14	100	0	60	20	6	33	40	1.78
21649--21767	61	2.0	61	83	3	150	25	15	27	31	1.95
27189--27223	18	1.9	18	100	0	70	40	11	5	42	1.65
29090--29114	13	1.9	13	100	0	50	32	16	20	32	1.94
31196--31226	15	2.1	15	93	0	53	12	22	16	48	1.80
35285--35348	32	2.0	33	84	3	85	29	15	12	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36772--36810	21	1.9	21	89	5	62	51	2	23	23	1.61
36768--36817	20	2.5	20	83	6	66	54	2	22	22	1.55
38683--38707	13	1.9	13	100	0	50	36	16	16	32	1.90
38663--38728	32	2.0	33	88	2	98	37	12	15	34	1.84
38769--38918	52	2.9	52	91	2	239	35	16	17	31	1.92
45527--45655	52	2.5	52	96	0	240	27	17	18	35	1.94
45664--45688	13	1.9	13	100	0	50	36	16	16	32	1.90
45726--45794	32	2.1	33	91	2	113	37	17	11	33	1.86
45745--45774	13	2.2	14	94	5	53	36	16	13	33	1.88
52343--52378	17	2.1	18	89	5	56	75	2	16	5	1.12
52629--52667	19	2.0	20	90	5	62	61	0	0	38	0.96
57475--57515	3	13.7	3	94	0	73	63	0	0	36	0.95
59576--59746	84	2.0	84	100	0	342	36	26	9	26	1.87
66836--66863	13	2.2	13	100	0	56	39	17	14	28	1.89
66818--66883	33	2.0	33	88	5	98	40	13	15	30	1.85
66850--66945	20	4.8	20	100	0	192	39	10	14	35	1.80
66975--67059	19	4.7	19	71	20	74	32	15	14	37	1.87
66962--67039	32	2.4	32	93	0	129	33	15	15	35	1.89
77631--77677	17	2.7	17	86	3	58	40	0	0	59	0.97
77695--77742	25	1.9	25	83	8	62	62	2	2	33	1.18
85837--85869	2	16.5	2	100	0	66	51	0	0	48	1.00
87279--87314	6	6.2	6	90	3	56	33	2	33	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88227--88260	2	17.0	2	100	0	68	50	0	0	50	1.00
89603--89665	32	2.0	32	93	0	108	30	20	17	31	1.96
95880--95918	2	19.5	2	100	0	78	48	0	0	51	1.00
98830--98907	27	2.9	28	84	3	106	23	6	20	50	1.71
98862--98933	24	2.9	24	81	10	74	23	9	19	47	1.79
98999--99042	14	3.2	14	87	6	72	11	38	6	43	1.67
99002--99054	13	4.0	13	85	4	70	11	33	7	47	1.68
98999--99054	27	2.1	27	93	0	94	12	33	7	46	1.69
101918--101969	21	2.5	21	100	0	104	42	11	25	21	1.86
103435--103500	27	2.4	27	84	0	87	28	7	18	45	1.76
103600--103644	13	3.5	13	84	0	54	11	35	4	48	1.59
113030--113071	6	7.0	6	91	0	66	19	2	28	50	1.60
130752--130786	15	2.4	15	95	4	63	0	82	5	11	0.82
134488--134522	2	17.5	2	87	0	52	48	5	0	45	1.26
134931--134988	25	2.4	24	85	2	71	43	0	5	51	1.24
135108--135142	2	17.5	2	100	0	70	0	48	0	51	1.00
137459--137490	15	2.1	15	100	0	64	21	15	25	37	1.93
144219--144248	2	15.0	2	100	0	60	50	0	0	50	1.00
149877--149904	3	9.3	3	100	0	56	0	32	0	67	0.91
155843--156009	42	4.0	41	90	2	226	51	15	15	17	1.77
155843--156009	83	2.0	83	86	0	235	51	15	15	17	1.77
157817--157850	17	2.0	17	88	0	50	58	0	2	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
158223--158322	20	5.4	20	68	25	78	45	0	1	54	1.06
160552--160594	21	2.0	22	86	4	61	53	0	2	44	1.13
160554--160590	14	2.5	15	83	16	51	51	0	2	45	1.15
160891--160940	17	3.0	17	79	2	57	46	0	0	54	1.00
161448--161529	32	2.5	32	83	11	96	43	0	1	54	1.07
161410--161532	42	2.8	43	73	15	103	41	0	4	52	1.28
164865--164904	7	5.9	7	82	5	55	17	17	25	40	1.91
164865--164903	20	2.0	20	94	0	69	17	17	23	41	1.91
170647--170692	20	2.3	20	76	0	56	54	4	2	39	1.32
173438--173470	17	2.0	17	88	5	50	54	0	0	45	0.99
174716--174798	42	2.0	42	97	0	157	34	7	8	49	1.61
174783--174814	2	16.0	2	93	0	55	46	0	0	53	1.00
176873--176911	13	2.9	14	80	7	53	48	0	0	51	1.00
180091--180120	5	6.0	5	96	0	51	36	0	3	60	1.14
184734--184760	2	13.5	2	100	0	54	48	0	0	51	1.00
189401--189458	30	2.0	30	86	3	82	31	1	6	60	1.33
189569--189620	27	1.9	27	84	7	70	63	9	1	25	1.35
189600--189778	9	19.2	9	71	23	115	69	3	0	27	1.04
189617--189778	17	9.1	18	73	16	101	69	2	0	28	1.02
189790--189994	9	23.2	9	71	16	85	33	1	4	60	1.25
189773--190011	8	29.2	8	68	25	62	33	1	4	61	1.23
189948--189997	22	2.2	23	89	3	75	24	2	2	72	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189948--190000	23	2.4	22	87	3	70	24	1	1	71	1.06
189938--190011	28	2.5	29	87	12	98	25	2	1	70	1.09
190249--190365	25	4.4	27	72	21	70	55	1	0	41	1.16
190321--190367	12	3.8	12	76	15	51	55	0	0	44	0.99
190612--190683	2	37.0	2	80	5	76	54	2	0	43	1.15
190586--190688	39	2.6	39	84	9	129	54	2	0	41	1.22
191309--191335	2	13.5	2	100	0	54	48	0	51	0	1.00
193293--193337	23	1.9	24	82	13	58	40	0	0	60	0.97
193289--193337	24	2.0	23	85	14	64	38	0	0	61	0.96
193330--193369	6	6.7	6	88	11	64	65	0	0	35	0.93
193330--193369	13	3.3	12	89	10	64	65	0	0	35	0.93
193330--193369	17	2.2	19	91	8	66	65	0	0	35	0.93
193328--193374	13	3.6	13	83	16	62	65	0	0	34	0.93
193701--193770	35	2.0	36	83	13	92	40	0	0	60	0.97
193737--193798	19	3.4	18	71	10	54	33	1	0	64	1.03
193714--193760	20	2.3	20	78	7	51	38	0	0	61	0.96
193710--193822	17	6.5	17	73	10	77	36	0	0	62	1.01
193700--193815	36	3.2	35	78	9	101	37	0	0	62	1.02
193757--193832	23	3.3	23	77	10	68	34	1	0	64	1.02
193796--193832	12	3.2	12	88	3	58	37	0	0	62	0.96
193720--193825	18	6.2	17	73	11	83	34	0	0	64	1.00
199676--199714	21	1.9	20	85	15	53	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199719--199795	37	2.1	36	81	13	86	45	5	0	49	1.24
199723--199806	31	2.8	30	78	8	84	47	4	0	47	1.23
199807--199853	14	3.3	14	80	14	51	25	2	2	70	1.10
200424--200474	23	2.2	23	79	6	59	56	0	1	41	1.10
200639--200686	13	3.4	15	72	21	50	56	2	0	41	1.11
203102--203147	23	2.0	23	87	8	67	60	0	6	32	1.22
203972--204012	2	20.5	2	100	0	82	48	0	0	51	1.00
204996--205065	13	5.4	13	72	16	56	64	0	1	34	1.03
205016--205071	19	2.9	19	80	15	71	62	0	0	37	0.95
205008--205075	17	3.7	18	80	20	70	66	0	0	33	0.92

Tables:   1   2   3   4   5