genome.fa.s14.2.7.7.80.10.50.1000.1.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: scaffold_14 ID=scaffold_14-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  2042280

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 804 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)
4371--4487	21	5.6	21	73	12	73	53	13	11	20	1.71
4384--4488	42	2.5	43	80	11	110	55	14	10	20	1.68
4566--4678	20	5.4	20	79	7	111	53	16	11	18	1.73
4577--4661	43	2.0	43	86	9	120	56	18	8	16	1.64
4577--4661	22	4.0	22	75	7	86	56	18	8	16	1.64
4587--4678	21	4.4	21	77	11	91	53	17	9	19	1.71
4567--4676	42	2.7	40	82	13	125	54	17	10	17	1.70
5328--5352	3	8.3	3	100	0	50	32	0	0	68	0.90
11224--11261	20	1.9	19	94	5	67	18	21	26	34	1.96
11325--11860	201	2.7	199	88	4	747	36	10	12	40	1.76
12328--12381	18	2.9	19	83	10	67	68	3	1	25	1.16
12342--12484	78	1.9	77	80	5	173	62	3	1	32	1.21
12342--12604	10	27.4	10	67	15	72	61	3	2	33	1.25
12495--12555	19	3.2	18	77	9	50	62	1	4	31	1.26
12341--12607	9	28.0	9	67	17	103	60	2	2	33	1.26
16224--16261	15	2.5	15	91	0	67	52	10	13	23	1.71
17156--17181	5	5.2	5	100	0	52	42	19	19	19	1.90
17929--17988	30	2.0	30	83	3	75	41	0	38	20	1.52
18201--18246	9	5.1	9	94	0	74	28	10	15	45	1.79
18300--18330	9	3.4	9	90	0	53	38	22	12	25	1.90
19599--19634	5	7.2	5	100	0	72	41	19	19	19	1.90
20379--20438	30	2.0	31	86	3	86	40	0	40	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20652--20697	9	5.1	9	94	0	83	30	10	13	45	1.77
22660--22737	22	3.5	23	73	18	65	35	14	19	30	1.91
23074--23123	16	2.9	17	77	20	50	36	0	2	62	1.07
29738--29928	95	2.0	95	87	2	276	39	14	13	33	1.84
31983--32032	24	2.1	24	100	0	100	40	20	4	36	1.71
34643--34701	26	2.3	26	87	0	82	40	11	15	32	1.83
41516--41540	13	1.9	13	100	0	50	48	0	0	52	1.00
46391--46540	41	3.7	41	91	0	237	25	28	18	28	1.98
46946--46978	12	2.8	12	90	4	50	51	9	3	36	1.49
46878--47205	114	2.8	114	90	6	543	40	14	4	40	1.66
46880--47208	118	2.8	119	93	3	546	40	14	4	41	1.66
48183--48207	13	1.9	13	100	0	50	68	24	0	8	1.16
50763--50815	26	2.0	26	96	0	97	22	22	5	49	1.71
55483--55522	18	2.2	18	90	0	62	45	17	12	25	1.83
55482--55522	12	3.4	12	86	0	55	43	17	12	26	1.84
56284--56370	40	2.2	40	95	0	156	24	6	27	41	1.80
58961--59001	16	2.6	16	84	0	55	58	17	0	24	1.38
66334--66382	20	2.5	20	82	0	53	69	10	14	6	1.35
79536--80281	44	17.5	43	69	13	271	28	20	22	28	1.98
79703--80126	167	2.5	168	84	3	537	29	20	21	27	1.98
80010--80121	45	2.5	45	76	13	124	30	20	25	23	1.98
79875--80281	217	1.9	215	81	6	500	28	20	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80132--80327	84	2.3	84	88	0	293	28	21	20	29	1.98
80741--80789	20	2.5	20	82	0	53	69	10	16	4	1.32
85356--85381	7	3.7	7	100	0	52	26	0	15	57	1.38
85999--86041	18	2.4	18	84	7	52	18	23	6	51	1.70
86281--86340	21	2.8	20	80	5	57	31	46	15	6	1.71
89618--89889	126	2.2	126	88	2	413	28	19	17	34	1.94
89984--90156	81	2.1	83	93	4	298	38	17	2	42	1.62
90066--90361	97	3.1	96	86	6	415	39	17	1	41	1.59
89904--90247	178	1.9	177	90	2	548	38	16	2	42	1.61
90994--91045	27	1.9	27	96	0	95	40	15	23	21	1.91
91539--91588	21	2.2	22	82	10	57	24	14	18	44	1.86
95530--95708	68	2.9	59	82	13	241	45	8	5	40	1.57
95619--95646	9	3.1	9	100	0	56	57	10	0	32	1.33
95560--95730	68	2.5	68	94	1	292	47	8	4	39	1.54
95728--95760	16	2.1	16	94	0	57	45	6	3	45	1.43
95734--95795	23	2.7	23	82	2	72	48	1	1	48	1.21
101094--101130	15	2.5	15	90	0	56	8	5	56	29	1.51
106703--106899	98	2.0	98	95	0	358	38	24	9	27	1.87
107543--107589	20	2.3	20	81	0	58	55	0	6	38	1.26
107426--107636	114	1.8	115	85	7	295	50	5	9	34	1.59
114918--115027	39	2.8	40	86	6	145	35	22	25	16	1.95
115990--116317	43	7.7	43	81	7	337	26	17	28	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115990--116317	86	3.8	86	85	2	410	26	17	28	26	1.98
115989--116317	129	2.6	126	81	8	378	27	17	28	26	1.98
116943--117007	31	2.1	31	88	0	94	47	12	7	32	1.69
119219--119279	3	21.7	3	83	9	76	67	1	1	29	1.10
121446--121516	31	2.3	31	87	2	99	47	9	7	35	1.64
126420--126613	76	2.6	74	82	10	223	35	11	13	39	1.80
126444--126623	76	2.4	79	85	7	248	34	11	13	41	1.80
126445--126652	76	2.8	76	83	5	199	35	10	13	40	1.79
128479--128566	43	2.0	43	97	0	167	36	7	18	37	1.80
130972--131014	22	2.0	21	86	4	59	32	2	6	58	1.38
131562--131612	25	2.0	25	81	7	59	9	33	0	56	1.32
142999--143036	18	2.0	19	85	10	51	44	18	15	21	1.86
145257--145300	18	2.5	19	78	14	58	45	0	6	47	1.29
145424--145479	23	2.5	22	81	13	62	46	5	0	48	1.25
146182--146217	18	2.0	18	88	0	54	19	0	5	75	1.00
147497--147570	23	3.2	23	94	0	121	36	0	14	48	1.45
147506--147570	13	5.5	13	72	20	70	36	0	15	47	1.46
152707--152743	2	18.5	2	100	0	74	51	0	0	48	1.00
155480--155539	21	2.9	21	94	0	102	11	20	18	50	1.77
156399--156428	12	2.5	12	94	0	51	30	40	23	6	1.80
157753--158185	151	2.8	151	89	3	627	21	30	22	25	1.98
157753--158192	201	2.2	205	85	5	597	21	30	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
157753--158195	50	8.7	50	85	4	548	20	30	22	25	1.98
162677--162741	16	4.1	16	91	0	112	38	4	32	24	1.76
163075--163119	16	2.8	16	80	16	56	60	0	2	37	1.09
163090--163127	18	2.2	17	90	4	58	63	0	2	34	1.09
163098--163266	53	3.0	53	67	22	135	50	5	1	42	1.32
162954--163323	119	3.1	119	90	5	572	52	4	1	41	1.30
163319--163357	20	2.0	20	84	0	51	43	2	12	41	1.56
165123--165184	33	1.9	32	83	3	79	59	11	17	11	1.60
166099--166152	27	2.0	27	88	0	81	38	9	37	14	1.79
169174--169622	50	8.8	50	84	2	531	20	29	22	26	1.99
169961--170017	30	1.9	30	82	13	73	29	19	7	43	1.77
171641--171685	22	2.0	22	100	0	90	37	8	0	53	1.32
171824--171959	4	34.0	4	71	21	74	68	0	30	0	0.95
171813--171883	18	4.1	17	78	10	72	64	0	33	1	1.02
171859--171955	10	9.1	10	71	14	52	70	0	29	0	0.88
171829--171968	41	3.6	39	74	21	125	67	0	31	0	0.96
171856--171956	35	3.1	32	80	16	109	68	0	31	0	0.90
171896--171996	30	3.4	30	73	10	91	66	0	33	0	0.92
171854--172008	62	2.5	63	78	13	153	68	0	31	0	0.90
172597--172626	16	1.9	15	93	6	51	70	0	3	26	1.03
172797--172852	27	2.1	27	93	0	94	41	14	33	10	1.80
175579--175605	11	2.5	11	100	0	54	37	7	14	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
178638--178669	3	10.7	3	100	0	64	68	31	0	0	0.90
178798--178837	11	3.7	11	86	6	64	0	30	0	70	0.88
178800--178838	21	1.9	20	94	5	69	0	30	0	69	0.89
179163--179248	44	2.0	44	92	0	145	18	18	29	33	1.95
181637--181744	20	5.5	20	73	11	89	43	12	6	37	1.68
181650--181744	39	2.4	40	77	8	106	43	13	7	35	1.72
182678--182764	20	4.4	20	73	2	77	24	5	18	51	1.67
187471--187503	17	1.9	17	88	11	50	27	0	3	69	1.03
192894--192992	46	2.2	46	94	1	173	50	14	14	21	1.77
193258--193311	15	3.7	15	73	14	58	40	31	5	22	1.77

Tables:   1   2   3   4   5   6   7