genome.fa.s4079.2.7.7.80.10.50.1000.1.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  1  of  11  ( 1218 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)
3463--3541	24	3.1	24	75	15	61	1	15	6	77	1.03
7426--7464	18	2.1	19	86	13	55	51	10	17	20	1.74
13515--13650	64	2.2	62	79	11	147	50	13	7	28	1.69
16680--16714	16	2.1	17	89	5	54	8	22	0	68	1.16
18524--20224	849	2.0	849	99	0	3384	35	16	17	30	1.93
37802--37837	18	2.0	18	89	10	56	19	11	13	55	1.68
43979--44013	18	1.9	18	88	11	54	20	11	14	54	1.70
48501--48571	29	2.4	29	86	9	83	54	11	22	11	1.67
69747--69823	24	3.2	24	66	23	70	37	10	19	32	1.86
69743--69842	49	2.0	49	100	0	200	35	12	20	33	1.89
69755--69831	24	3.2	24	66	23	70	35	11	22	31	1.90
75302--75385	41	2.0	40	81	4	96	23	17	25	33	1.97
89821--89867	20	2.3	20	85	7	60	27	29	17	25	1.97
91475--91507	17	1.9	17	100	0	66	36	24	18	21	1.95
96502--96553	27	1.9	27	92	0	86	21	21	15	42	1.89
96907--96956	20	2.5	20	80	9	57	36	14	20	30	1.91
98577--98615	16	2.3	18	91	8	64	12	15	0	71	1.14
98590--98632	16	2.5	16	85	11	50	13	16	0	69	1.19
98595--98661	27	2.4	28	82	12	75	11	19	1	67	1.30
98667--98761	18	5.4	17	74	10	59	8	17	1	72	1.15
98625--98747	6	20.0	6	69	8	77	8	19	1	70	1.20
100529--100577	20	2.5	20	75	0	53	22	16	32	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103794--103845	14	3.3	15	84	12	61	5	17	3	73	1.19
106182--106219	10	3.8	10	83	13	51	26	13	28	31	1.93
106184--106221	20	1.9	20	88	0	58	23	15	31	28	1.96
108192--108265	33	2.2	33	86	9	98	70	1	24	4	1.13
108219--108291	28	2.7	26	75	14	67	71	1	23	4	1.11
110148--110194	23	2.1	23	84	7	62	51	12	4	31	1.59
115445--115487	16	2.7	16	96	0	77	18	11	4	65	1.42
115525--115571	12	3.9	12	91	0	76	19	2	6	72	1.17
115525--115568	13	3.5	13	90	3	63	15	2	4	77	1.04
116262--116308	23	2.1	23	84	7	62	51	12	4	31	1.59
118796--118866	37	1.9	37	91	5	117	30	15	29	23	1.95
125832--125895	23	2.8	23	82	0	74	21	12	21	43	1.86
125840--125897	23	2.5	23	82	0	80	20	13	25	39	1.90
127640--128121	235	2.1	234	88	3	713	18	33	9	38	1.83
129432--129557	35	3.6	35	91	2	173	25	12	17	44	1.84
141577--141643	10	6.9	9	79	15	71	32	14	28	23	1.95
141882--142028	78	1.9	75	82	9	181	40	5	14	39	1.70
142449--142528	41	2.0	41	87	0	115	26	18	22	32	1.97
142450--142551	41	2.5	41	82	3	107	28	19	21	30	1.98
150790--150822	17	2.0	17	88	5	50	45	0	0	54	0.99
171078--171116	20	2.0	20	84	0	51	56	2	7	33	1.41
171931--172249	41	7.8	42	77	8	264	20	21	24	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
172027--172249	123	1.8	123	83	5	299	21	20	23	34	1.97
179026--179222	50	3.9	50	79	7	200	28	20	27	22	1.99
193339--193709	183	2.0	183	97	0	708	38	6	22	33	1.79
194815--194948	12	10.2	13	72	20	57	23	11	8	55	1.64
194826--194938	12	8.9	12	72	18	59	24	12	8	53	1.66
197618--197680	25	2.5	25	92	0	99	17	22	25	34	1.95
197692--197811	41	2.9	41	83	3	152	18	19	27	35	1.95
198864--198989	53	2.4	53	93	1	216	30	10	15	44	1.79
198941--198979	19	2.1	19	95	0	69	28	10	10	51	1.68
199091--199126	9	4.0	9	100	0	72	22	0	22	55	1.44
199366--199437	24	3.1	24	67	25	64	43	13	13	29	1.83
199731--200051	52	6.2	52	99	0	624	34	22	17	25	1.95
215124--215196	29	2.5	29	93	0	119	31	10	13	43	1.79
221110--221172	12	5.2	12	75	21	60	11	22	0	66	1.22
221202--221248	15	3.1	15	84	9	60	10	19	0	70	1.16
252298--252388	28	3.2	28	78	9	105	23	23	23	30	1.99
254219--254278	18	3.2	18	72	9	57	8	18	3	70	1.27
257086--257115	13	2.3	13	94	0	51	43	6	0	50	1.28
257798--257845	24	2.0	24	100	0	96	29	29	4	37	1.76
261316--261395	24	3.5	24	68	13	78	35	2	16	46	1.60
270861--270892	14	2.3	14	94	0	55	15	15	0	68	1.21
271640--271737	19	4.8	19	83	13	115	36	7	16	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
271641--271703	21	3.1	21	93	4	103	38	7	14	39	1.75
271703--271747	23	2.0	23	86	4	65	33	4	15	46	1.66
293827--293859	17	2.0	17	88	5	50	54	12	3	30	1.52
295214--295257	17	2.5	17	85	3	52	9	13	0	77	0.99
295218--295270	18	2.8	18	80	11	54	7	15	0	77	0.98
295218--295281	25	2.6	25	83	14	87	7	15	0	76	1.00
297983--298021	20	2.0	20	90	10	62	15	23	5	56	1.59
298277--298415	50	2.8	50	75	4	136	21	30	19	28	1.98
298790--298960	90	1.9	90	97	0	324	31	22	11	35	1.89
301596--301629	17	2.1	16	88	5	50	55	11	2	29	1.50
301586--301629	16	2.8	16	80	12	56	54	11	4	29	1.56
307336--307360	11	2.3	11	100	0	50	28	0	8	64	1.22
308629--308695	25	2.7	25	81	2	64	28	25	23	22	1.99
316399--316508	6	17.3	6	74	14	80	4	19	0	75	1.03
316391--316507	43	2.6	42	84	11	146	5	19	0	74	1.06
316404--316509	19	5.9	18	70	12	74	4	19	0	74	1.05
321579--321676	35	2.8	35	84	4	108	36	32	3	27	1.72
321594--321676	35	2.3	35	87	6	114	37	28	2	31	1.70
326491--326552	28	2.2	28	97	0	115	43	17	17	20	1.88
331855--331900	23	2.0	23	86	0	65	56	10	13	19	1.66
344851--344982	50	2.6	51	80	3	167	37	13	13	34	1.84
355416--355559	27	5.3	27	83	8	159	39	19	20	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355737--355814	26	3.0	26	74	7	68	19	19	19	42	1.90
355919--356003	28	3.0	28	88	6	134	24	24	22	28	1.99
362464--362736	27	10.1	27	86	2	318	41	20	19	19	1.91
362464--362736	134	2.0	135	87	3	390	41	20	19	19	1.91
363095--363183	30	3.0	30	90	6	137	26	24	22	25	2.00
363109--363213	30	3.5	29	85	8	88	25	26	24	22	2.00
365393--365459	33	2.0	33	100	0	134	29	22	2	44	1.67
366275--366403	55	2.3	55	90	2	197	24	32	19	23	1.97
372177--372253	37	2.1	36	97	2	145	33	33	10	22	1.88
373517--373554	20	1.9	20	94	0	67	21	34	0	44	1.52
373538--373568	16	1.9	16	93	0	53	19	29	3	48	1.64
380510--380689	96	1.9	96	97	0	342	28	12	17	41	1.86
384224--384253	14	2.1	14	93	6	51	0	33	0	66	0.92
387496--387540	21	2.1	21	83	0	54	15	20	24	40	1.91
389816--389877	25	2.5	25	89	0	88	30	19	17	32	1.95
398093--398470	116	3.2	115	67	18	295	41	5	6	46	1.54
398021--398501	240	2.0	240	97	0	899	42	5	6	45	1.54
399774--399987	28	7.5	28	81	5	230	28	21	25	24	1.99
400082--400136	26	2.1	26	86	0	74	36	21	21	20	1.95
400324--400392	27	2.6	27	85	0	93	14	20	18	46	1.84
413579--413657	40	2.0	40	100	0	158	22	20	12	44	1.85
419504--419607	11	9.7	11	71	15	67	9	12	2	75	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421435--421547	41	2.7	43	84	5	158	27	25	1	45	1.64
432989--433017	12	2.3	13	94	5	51	3	13	0	82	0.79
432971--433025	19	3.0	17	79	12	56	3	20	0	76	0.94
437143--437219	4	19.2	4	97	0	145	25	0	24	49	1.51
444339--444524	95	2.0	94	81	1	219	40	20	13	25	1.89
449258--449389	50	2.6	52	78	8	144	38	12	14	34	1.84
456338--457078	298	2.5	298	81	6	751	34	15	9	40	1.79
457065--457100	15	2.4	15	90	9	56	19	36	19	25	1.95
459621--459659	16	2.4	16	80	16	53	82	7	10	0	0.86
463263--463295	12	2.5	13	90	9	50	30	0	0	69	0.88

Tables:   1   2   3   4   5   6   7   8   9   10   11