genome.fa.s2409.2.7.7.80.10.50.1000.1.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: Scaffold2409
Parameters: 2 7 7 80 10 50 1000
Length:  154369

Tables:   1   2   

This is table  1  of  2  ( 138 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)
10814--10859	17	2.6	17	77	16	58	47	0	0	52	1.00
10909--10967	21	2.8	22	83	16	72	42	0	1	55	1.09
10898--11191	156	1.9	155	90	3	475	46	1	3	48	1.30
11377--11410	17	2.0	17	94	0	59	38	0	2	58	1.13
11487--11552	24	2.8	23	76	17	73	56	0	1	42	1.08
14192--14251	21	2.8	21	80	14	68	53	0	0	46	1.00
14213--14270	30	1.9	30	86	6	82	53	0	0	46	1.00
14506--14537	14	2.2	15	94	5	57	37	0	0	62	0.95
15674--15710	11	3.5	11	78	14	51	27	5	5	62	1.39
15674--15718	20	2.2	20	100	0	90	24	4	4	66	1.29
15735--15785	14	3.4	14	75	19	57	47	0	0	52	1.00
15728--15809	19	4.6	19	77	21	81	45	0	0	54	0.99
15729--15861	18	7.6	16	70	21	63	38	0	0	61	0.96
15749--15862	11	11.0	11	68	24	61	36	0	0	63	0.95
15704--15862	17	9.4	16	73	17	78	36	0	0	63	0.95
15783--15862	28	2.8	29	77	9	76	32	0	0	67	0.91
15760--15862	18	5.8	16	76	17	89	34	0	0	65	0.93
15761--15862	34	2.9	34	81	14	109	35	0	0	64	0.94
16109--16255	16	8.9	15	67	25	66	55	0	0	43	1.04
16122--16269	9	15.4	9	70	23	56	57	0	0	41	1.03
16133--16261	32	3.9	32	75	9	109	55	0	0	44	1.05
16166--16261	16	5.7	17	72	20	69	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)
16110--16222	27	4.0	27	74	10	91	53	0	0	45	1.06
16109--16262	60	2.6	59	79	15	167	56	0	0	42	1.04
16197--16255	23	2.6	23	81	8	75	57	0	0	42	0.98
16651--16719	30	2.3	29	76	11	68	47	0	2	49	1.16
16834--16891	19	2.8	20	71	23	50	34	1	1	62	1.16
17767--17799	2	16.5	2	100	0	66	48	0	0	51	1.00
18083--18149	25	2.6	27	77	13	79	49	1	2	46	1.26
18073--18162	25	3.7	24	73	16	69	47	1	2	48	1.21
24235--24259	1	25.0	1	100	0	50	0	100	0	0	0.00
26109--26145	2	19.0	2	94	5	67	51	0	0	48	1.00
26266--26294	2	14.5	2	100	0	58	48	0	0	51	1.00
27098--27129	2	16.0	2	100	0	64	50	0	0	50	1.00
27369--27438	19	3.3	22	71	16	58	47	1	0	51	1.09
27464--27522	20	2.8	21	80	12	68	49	5	0	45	1.24
27791--27825	5	7.0	5	100	0	70	60	0	0	40	0.97
28731--28764	18	1.9	18	88	5	52	55	0	5	38	1.24
29900--29930	9	3.3	9	91	8	53	90	0	9	0	0.46
29900--29930	10	3.2	10	95	4	55	90	0	9	0	0.46
30589--30613	2	12.5	2	100	0	50	52	0	0	48	1.00
31555--31608	21	2.5	20	80	11	63	59	0	0	40	0.98
31578--31650	23	3.3	23	70	20	66	50	0	0	49	1.00
31815--31880	17	3.8	17	73	13	55	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31848--31880	17	2.0	17	94	5	59	45	0	0	54	0.99
32350--32382	14	2.3	15	90	10	52	36	0	0	63	0.95
32851--32893	12	3.7	12	81	6	52	51	9	0	39	1.34
33014--33073	22	2.8	21	79	5	66	21	5	0	73	1.02
34002--34045	21	2.0	22	91	4	72	70	0	0	29	0.88
34338--34379	20	2.2	20	82	4	50	47	4	2	45	1.36
34473--34538	28	2.3	29	86	2	98	69	3	1	25	1.11
35513--35537	13	1.9	13	100	0	50	80	0	0	20	0.72
35510--35545	14	2.7	13	86	4	54	83	0	0	16	0.65
39215--39287	24	3.1	24	82	9	80	57	0	0	42	0.98
39236--39279	22	1.9	24	90	9	74	56	0	0	43	0.99
40303--40412	24	4.6	22	78	15	105	55	0	3	40	1.24
40317--40412	25	4.0	24	81	15	110	56	1	4	38	1.26
40388--40463	16	4.8	15	72	20	57	55	0	3	40	1.18
40359--40469	58	1.9	57	84	12	147	54	0	3	42	1.18
40680--40719	21	1.9	21	89	0	62	42	0	0	57	0.98
41111--41170	21	2.9	21	80	12	70	43	1	1	53	1.20
41111--41161	14	3.6	14	78	7	59	43	1	1	52	1.23
42211--42252	6	7.0	6	84	10	50	16	30	11	40	1.85
45928--45989	31	2.0	32	93	3	108	51	1	0	46	1.10
46006--46045	19	2.2	19	90	4	64	65	2	0	32	1.06
46443--46667	122	1.8	122	84	3	310	43	13	8	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46690--46819	69	1.9	68	82	1	161	46	12	6	33	1.68
48705--48769	30	2.2	28	86	10	87	35	0	0	64	0.94
48720--48767	22	2.2	21	88	3	69	35	0	0	64	0.94
55511--55581	30	2.3	30	78	9	81	56	1	2	39	1.23
55496--55594	44	2.2	43	81	12	103	55	1	3	40	1.22
55723--55809	16	5.3	16	74	10	61	66	10	0	22	1.22
55715--55809	32	2.9	32	76	10	102	64	11	0	24	1.27
55825--55863	16	2.4	16	91	4	60	64	0	0	35	0.94
56716--56770	28	1.9	29	92	3	94	23	0	0	76	0.79
56741--56780	19	2.1	19	86	9	55	32	0	0	67	0.91
56716--56785	15	4.9	14	75	16	63	25	0	0	74	0.82
60755--60784	2	15.5	2	93	6	53	50	0	0	50	1.00
60989--61034	16	2.9	17	81	12	53	60	2	4	32	1.28
61809--61840	12	2.6	13	85	14	50	56	0	6	37	1.25
62179--62270	10	9.0	10	68	21	57	55	1	0	43	1.07
62178--62243	19	3.4	18	80	16	71	59	0	0	40	0.98
62174--62246	39	2.0	35	86	10	101	58	0	0	41	0.98
62178--62312	9	15.2	9	68	19	70	49	0	0	49	1.06
62231--62328	19	5.3	19	75	8	85	41	2	0	56	1.11
62201--62321	43	2.8	43	79	13	131	46	0	0	52	1.06
67984--68030	16	2.8	16	78	15	51	57	0	0	42	0.98
68648--68697	25	2.0	25	85	11	68	30	2	0	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69381--69408	2	14.0	2	100	0	56	50	0	0	50	1.00
71666--71727	31	2.0	30	84	9	81	40	9	12	37	1.77
71656--71997	81	4.3	81	76	7	286	38	9	17	34	1.82
71916--71980	31	2.2	29	83	10	78	35	9	23	32	1.86
75439--75465	4	6.8	4	100	0	54	22	0	0	77	0.76
79647--79684	19	2.0	19	100	0	76	26	10	10	52	1.68
79673--79701	3	9.7	3	100	0	58	31	0	0	68	0.89
82059--82191	15	8.6	16	68	22	72	44	2	0	53	1.13
82130--82194	16	3.9	17	76	17	66	49	1	0	49	1.10
82158--82200	22	1.9	23	90	4	70	44	0	0	55	0.99
87895--87922	4	7.0	4	100	0	56	75	0	0	25	0.81
89524--89578	2	27.5	2	100	0	110	50	0	49	0	1.00
93756--93810	26	2.2	25	80	9	58	41	1	5	50	1.36
93995--94024	15	2.0	15	93	0	51	43	0	0	56	0.99
94871--94910	21	1.9	21	84	0	53	62	5	0	32	1.17
95449--95501	23	2.3	24	77	9	56	35	0	1	62	1.06
95446--95479	15	2.1	17	89	10	54	44	0	0	55	0.99
95505--95564	29	2.0	30	84	9	79	56	0	1	41	1.09
98048--98081	16	2.1	17	94	5	61	20	0	0	79	0.73
99318--99360	16	2.7	16	85	10	52	55	2	0	41	1.12
101839--101923	42	2.0	42	86	0	116	28	12	27	31	1.93
101903--101939	18	2.1	18	94	0	65	21	18	32	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103799--103915	31	3.8	30	75	4	108	47	14	17	20	1.83
103795--103916	62	2.0	62	91	3	201	47	14	17	20	1.82
103926--103979	23	2.3	23	87	0	72	42	9	11	37	1.73
105746--105790	21	2.1	21	87	0	63	6	17	0	75	1.01
108951--108977	13	2.1	13	100	0	54	40	14	14	29	1.86
108932--108997	33	2.0	33	87	0	96	42	12	13	31	1.81
109434--109467	2	17.0	2	87	0	50	55	0	0	44	0.99
109955--109981	2	13.5	2	100	0	54	0	48	0	51	1.00
110178--110228	19	2.8	18	77	13	59	39	0	1	58	1.09
110182--110228	20	2.5	19	75	6	51	38	0	2	59	1.09

Tables:   1   2