genome.fa.s356.2.7.7.80.10.50.1000.1.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: Scaffold356
Parameters: 2 7 7 80 10 50 1000
Length:  432500

Tables:   1   2   3   4   

This is table  1  of  4  ( 415 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)
15--77	6	10.7	6	74	16	60	17	80	0	1	0.78
10--74	13	4.7	15	79	12	68	18	80	0	1	0.80
208--503	1	296.0	1	85	0	349	2	90	1	6	0.55
1035--1092	25	2.3	25	87	0	80	1	74	15	8	1.14
1725--1762	10	3.9	10	86	6	51	57	0	0	42	0.98
2110--2136	2	13.5	2	100	0	54	51	0	0	48	1.00
3216--3258	21	2.0	22	86	4	61	27	4	2	65	1.25
3216--3260	22	2.0	22	83	8	56	28	4	2	64	1.25
3734--3777	17	2.6	17	92	0	70	50	2	0	47	1.13
3830--3879	26	2.0	26	84	4	66	16	10	6	68	1.38
4569--4602	12	2.7	13	90	9	61	61	0	0	38	0.96
7132--7180	11	4.3	11	76	7	53	4	14	0	81	0.83
7199--7245	3	15.7	3	100	0	94	68	0	0	31	0.90
7350--7384	9	4.0	9	96	3	63	20	0	0	80	0.72
7846--7913	27	2.5	28	81	11	70	39	1	1	57	1.17
8752--8798	20	2.3	21	85	7	62	44	2	0	53	1.12
9926--9964	12	3.3	12	78	7	53	71	5	0	23	1.05
10612--10642	2	15.5	2	100	0	62	48	0	0	51	1.00
12914--12987	36	2.1	36	100	0	148	31	16	13	39	1.87
19290--19332	13	3.4	12	81	9	50	58	0	0	41	0.98
19305--19348	16	2.8	16	82	3	54	65	0	0	34	0.93
25479--25531	27	1.9	27	84	3	70	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)
25873--25897	12	2.1	12	100	0	50	28	0	0	72	0.86
31024--31064	21	2.0	21	85	4	57	36	4	4	53	1.44
33066--33109	22	2.0	22	86	4	63	40	0	0	59	0.98
33510--33543	13	2.6	14	90	9	54	38	0	0	61	0.96
34692--34730	19	2.1	18	85	4	51	48	0	0	51	1.00
34686--34733	17	2.8	17	76	14	53	41	0	0	58	0.98
34724--34772	14	3.3	14	76	15	53	46	0	0	53	1.00
37264--37446	34	5.4	34	85	0	242	26	7	26	39	1.83
37747--37809	19	3.3	19	90	0	90	28	17	19	34	1.94
41875--42059	34	5.5	34	86	0	255	26	7	26	39	1.83
43910--43934	2	12.5	2	100	0	50	48	0	0	52	1.00
44631--44697	20	3.0	20	77	14	62	49	1	1	47	1.19
44941--44986	23	2.0	23	87	8	67	43	0	0	56	0.99
44954--45036	27	3.1	28	76	13	84	45	1	2	50	1.22
46424--46474	17	3.1	16	78	15	59	39	0	1	58	1.09
47337--47362	9	2.9	9	100	0	52	42	0	0	57	0.98
47647--47690	21	2.1	21	86	0	61	54	0	0	45	0.99
47757--47819	33	1.9	33	90	6	101	42	4	3	49	1.39
47928--47960	15	2.1	17	88	11	52	63	0	0	36	0.95
48385--48411	3	9.0	3	100	0	54	66	0	0	33	0.92
48573--48606	9	3.9	9	88	7	52	64	0	0	35	0.94
48573--48606	17	1.9	18	88	5	52	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48784--48834	19	2.7	19	81	3	50	47	0	0	52	1.00
48786--48870	38	2.3	36	75	16	86	49	0	0	50	1.00
49582--49641	16	3.8	16	74	12	52	55	3	0	41	1.16
49576--49696	33	3.7	34	72	14	87	56	1	0	42	1.09
49583--49692	45	2.5	43	76	17	111	56	1	0	41	1.10
49961--50053	47	2.0	48	82	6	118	51	1	0	47	1.07
50578--50614	14	2.6	14	86	0	56	75	2	5	16	1.10
51253--51305	18	2.9	19	84	13	67	49	3	9	37	1.53
51257--51304	19	2.6	19	87	9	64	47	4	8	39	1.53
51383--51473	44	2.1	44	91	0	146	17	16	26	39	1.91
66960--67632	66	10.2	66	87	2	987	27	24	18	28	1.98
71665--71709	19	2.4	19	80	0	54	35	0	2	62	1.08
71674--71711	19	1.9	19	89	5	58	42	0	2	55	1.14
72557--72598	21	2.0	21	86	13	61	59	0	0	40	0.97
72884--72921	2	19.0	2	100	0	76	50	0	0	50	1.00
78299--78359	30	2.0	30	100	0	122	52	13	18	16	1.75
78965--79007	19	2.2	20	84	12	54	67	13	6	11	1.41
81125--81194	3	23.3	3	100	0	140	32	0	0	67	0.91
81228--81266	19	2.0	20	85	5	53	51	7	0	41	1.31
82409--82440	13	2.4	14	90	10	50	62	0	0	37	0.95
82412--82466	14	3.4	16	71	24	53	58	0	0	41	0.98
82563--82592	6	4.8	6	95	4	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83783--83818	19	1.9	19	94	5	65	30	5	8	55	1.52
85220--85251	2	16.0	2	100	0	64	50	0	0	50	1.00
88812--88842	14	2.2	14	94	0	53	38	0	0	61	0.96
88810--88857	21	2.4	19	80	13	51	41	2	0	56	1.11
90218--90277	30	2.1	28	87	6	84	30	3	3	63	1.27
90254--90287	5	6.8	5	93	0	59	35	0	2	61	1.11
90225--90287	15	4.2	15	78	15	67	33	3	3	60	1.28
90225--90321	40	2.4	38	80	13	99	35	2	5	57	1.32
92643--92693	17	2.9	18	76	5	50	72	7	0	19	1.08
92729--92808	13	5.9	14	69	17	53	61	0	2	36	1.10
92779--92822	17	2.6	18	82	13	58	61	0	4	34	1.16
92758--92822	11	6.3	11	75	12	57	63	0	3	33	1.10
92721--92815	46	2.1	46	82	7	113	60	0	2	37	1.09
93356--93394	19	2.1	19	90	0	60	64	0	2	33	1.08
93668--93715	2	24.0	2	86	0	69	47	4	2	45	1.33
95124--95205	41	2.1	39	93	6	139	37	9	26	25	1.87
95694--95721	2	14.0	2	100	0	56	50	0	0	50	1.00
99005--99038	6	5.7	6	96	0	50	61	17	14	5	1.52
100251--100303	5	10.4	5	88	8	56	54	0	0	45	0.99
100253--100292	6	7.2	6	91	8	59	50	0	0	50	1.00
109339--109481	68	2.1	68	98	1	279	41	6	6	44	1.58
109660--109714	12	4.7	12	71	10	51	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111309--111345	2	18.5	2	100	0	74	0	48	0	51	1.00
111345--111380	2	18.0	2	100	0	72	50	0	0	50	1.00
119750--119807	9	6.4	9	72	20	50	36	0	0	63	0.94
119750--119807	18	3.2	18	79	13	66	36	0	0	63	0.94
120093--120137	17	2.7	17	79	3	56	64	0	0	35	0.94
120037--120138	41	2.5	41	76	9	104	58	0	0	39	1.11
123213--123246	14	2.4	14	90	0	50	32	2	0	64	1.08
123593--123751	9	16.6	9	68	20	58	64	3	0	31	1.11
123614--123648	12	2.9	12	95	0	61	68	5	0	25	1.11
123748--123807	28	2.1	28	96	0	111	61	3	5	30	1.33
126714--126755	3	14.0	3	89	0	66	30	64	2	2	1.19
126776--126809	3	11.3	3	100	0	68	67	0	0	32	0.91
127337--127379	17	2.6	16	78	10	50	4	39	4	51	1.44
128228--128264	13	2.8	13	95	4	65	51	0	5	43	1.24
130549--130606	2	29.5	2	96	3	109	48	0	0	51	1.00
131091--131173	23	3.7	23	74	20	77	45	0	0	54	0.99
131091--131142	20	2.5	20	84	15	61	51	0	0	48	1.00
131452--131507	24	2.3	25	82	14	73	57	3	0	39	1.16
131465--131537	34	2.2	33	92	4	121	57	1	0	41	1.07
133162--133213	21	2.6	20	77	16	54	40	0	0	59	0.97
133676--133716	7	5.4	8	83	16	52	48	0	0	51	1.00
134029--134078	22	2.2	23	79	13	59	60	8	0	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134374--134425	16	3.2	17	78	10	65	48	0	0	51	1.00
135181--135211	2	15.5	2	100	0	62	51	0	48	0	1.00
136752--136790	19	2.0	20	90	5	62	61	2	2	33	1.23
137051--137086	16	2.2	17	90	9	58	41	2	2	52	1.30
137133--137189	12	5.1	11	81	10	62	31	1	0	66	1.02
137127--137196	29	2.4	30	79	11	83	31	1	0	67	1.00
137129--137189	17	3.8	17	74	8	65	31	1	0	67	1.01
138125--138163	18	2.2	18	95	0	69	35	2	10	51	1.50
143551--143824	145	1.9	147	93	1	480	40	2	13	42	1.60
144863--144900	2	19.0	2	94	0	67	47	0	0	52	1.00

Tables:   1   2   3   4