genome.fa.s448.2.7.7.80.10.50.1000.1.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: Scaffold448
Parameters: 2 7 7 80 10 50 1000
Length:  1056520

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 763 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)
3467--3516	24	2.1	24	100	0	100	28	12	24	36	1.91
4108--4134	13	2.1	13	100	0	54	29	14	14	40	1.86
4118--4173	19	2.9	19	82	10	69	33	16	16	33	1.91
7317--7391	28	2.6	29	75	12	82	44	6	17	32	1.75
10951--10987	19	1.9	19	94	0	65	72	0	2	24	0.97
15301--15327	6	4.5	6	100	0	54	14	37	18	29	1.91
23110--23139	15	2.0	15	93	0	51	50	0	0	50	1.00
24489--24627	58	2.4	58	81	2	163	26	11	14	47	1.78
24523--24756	58	4.1	58	74	6	167	26	13	13	47	1.79
25365--25390	13	2.0	13	100	0	52	38	15	15	30	1.88
25347--25410	32	2.0	33	87	3	94	40	17	14	28	1.88
29452--29482	15	2.1	15	93	0	53	48	16	22	12	1.80
31476--31555	20	3.8	20	75	15	79	27	13	15	43	1.84
31541--31579	13	3.0	13	88	0	60	30	15	15	38	1.88
34135--34160	13	2.0	13	100	0	52	38	15	15	30	1.88
34117--34180	32	2.0	33	87	3	94	40	17	14	28	1.88
42630--42654	13	1.9	13	100	0	50	32	16	16	36	1.90
42610--42674	33	2.0	33	87	6	96	32	16	15	35	1.91
42744--42770	13	2.1	13	100	0	54	40	14	14	29	1.86
43721--43789	33	2.1	33	88	0	102	31	18	23	26	1.97
47654--47705	13	4.5	13	71	26	53	38	17	11	32	1.85
47654--47722	33	2.1	33	89	5	104	37	17	11	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47772--47798	13	2.1	13	100	0	54	40	14	14	29	1.86
48206--48242	18	2.1	18	89	0	56	32	16	10	40	1.83
50162--50215	21	2.6	20	75	16	56	46	0	18	35	1.50
53984--54112	52	2.5	52	97	0	240	29	17	17	35	1.93
54154--54218	32	2.0	33	90	3	105	38	15	12	33	1.85
54244--54277	16	2.1	16	100	0	68	11	20	32	35	1.89
54974--55352	43	8.0	49	77	11	319	30	15	26	26	1.96
54939--55159	49	4.8	45	74	13	155	30	16	25	27	1.97
54939--55353	92	4.4	92	79	10	414	30	16	26	26	1.97
55075--55262	104	1.8	104	90	4	308	32	14	25	27	1.95
55358--55613	33	7.9	33	83	8	346	21	18	31	28	1.97
55358--55608	65	3.9	65	97	0	457	20	19	31	28	1.97
55599--55720	28	4.3	28	90	3	165	19	17	28	34	1.94
55371--55725	65	5.8	57	89	5	219	21	17	30	29	1.96
55711--55783	34	2.1	35	87	5	105	35	10	31	21	1.88
55764--55933	29	5.9	29	80	4	175	24	16	30	28	1.96
55782--55939	86	1.8	86	87	2	237	24	15	31	29	1.96
57370--57429	1	60.0	1	76	0	57	0	1	10	88	0.59
57361--57429	12	5.8	12	79	12	72	0	1	11	86	0.62
57361--57430	27	2.6	26	86	6	95	0	1	12	85	0.66
57360--57429	35	2.0	34	89	10	106	0	2	11	85	0.69
57361--57429	32	2.2	30	85	12	95	0	1	11	86	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60711--60736	13	2.0	13	100	0	52	30	23	15	30	1.95
60826--60870	21	2.1	22	91	4	74	40	11	20	28	1.86
60928--60968	21	2.0	21	85	9	57	39	9	12	39	1.76
72537--72665	52	2.5	52	96	0	231	30	17	16	35	1.92
72725--72751	13	2.1	13	100	0	54	40	14	14	29	1.86
72707--72771	33	2.0	33	93	3	114	38	16	12	32	1.86
73494--73565	19	3.7	19	94	1	126	37	11	11	40	1.76
73608--73632	13	1.9	13	100	0	50	32	16	16	36	1.90
73641--73769	52	2.5	52	94	0	222	36	15	17	30	1.91
85856--85918	34	1.9	33	93	6	110	44	12	12	30	1.80
89967--89997	15	2.1	15	93	0	53	48	16	22	12	1.80
92079--92116	13	2.9	13	92	0	58	36	18	13	31	1.89
92228--92273	21	2.2	20	81	11	58	32	19	4	43	1.71
94623--94687	21	3.6	19	73	26	70	44	15	12	27	1.82
94641--94666	13	2.0	13	100	0	52	38	15	15	30	1.88
94623--94687	34	2.0	33	93	6	114	44	15	12	27	1.82
98518--98842	29	10.9	29	76	10	230	28	29	16	25	1.97
98518--98855	56	5.7	57	73	13	193	29	29	15	24	1.96
98512--98883	86	4.2	86	74	12	252	30	29	15	24	1.96
98667--98741	35	2.2	35	82	2	98	21	34	12	32	1.90
98732--98883	28	5.3	28	85	5	182	36	28	15	18	1.92
98903--99143	48	4.9	49	83	5	281	23	25	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98950--99136	100	1.9	100	85	2	259	23	25	19	32	1.98
99889--99916	13	2.2	13	100	0	56	32	14	14	39	1.86
99870--99980	33	3.4	33	75	16	115	37	14	12	35	1.84
99956--99980	13	1.9	13	100	0	50	32	16	16	36	1.90
99989--100117	52	2.5	52	94	0	231	34	17	18	29	1.94
101486--101521	13	2.8	13	91	0	54	38	19	11	30	1.86
101592--101647	21	2.6	22	94	5	105	37	10	25	26	1.88
101689--101743	19	2.9	19	97	0	101	29	10	14	45	1.79
101708--101844	53	2.6	53	95	1	238	26	17	18	37	1.93
101832--101886	21	2.7	20	80	5	65	30	14	16	38	1.89
102835--102862	14	2.0	14	100	0	56	50	14	7	28	1.69
105184--105348	83	2.0	84	83	5	210	25	18	3	52	1.62
107416--107451	13	2.8	13	91	0	54	38	19	11	30	1.86
107544--107574	10	3.1	10	90	0	53	41	6	29	22	1.78
107598--107731	53	2.5	53	90	1	205	26	17	19	37	1.93
114335--114403	33	2.1	33	84	10	88	36	14	11	37	1.83
120469--120493	13	1.9	13	100	0	50	32	16	16	36	1.90
123031--123055	13	1.9	13	100	0	50	32	16	16	36	1.90
127601--127646	3	15.3	3	90	0	74	30	32	0	36	1.58
129312--129387	20	3.9	19	86	6	91	38	15	17	28	1.90
129874--129900	14	1.9	14	100	0	54	88	0	11	0	0.50
131126--131182	8	6.6	8	75	15	51	24	7	1	66	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131126--131182	17	3.3	17	80	2	60	24	7	1	66	1.26
134415--135079	339	2.0	331	83	7	824	29	9	10	50	1.67
134551--135079	167	3.2	161	83	6	607	28	9	10	51	1.67
135483--135528	13	3.6	13	83	13	60	76	0	23	0	0.79
135483--135544	13	5.2	12	79	13	56	74	0	22	3	0.96
135482--135533	8	6.0	8	76	14	50	76	0	23	0	0.78
139152--139279	65	2.0	66	84	1	168	29	21	22	25	1.99
140003--141140	167	6.8	166	74	12	648	30	10	7	51	1.64
140003--141519	500	3.0	500	88	3	2037	29	10	8	51	1.65
140167--141557	167	8.4	165	80	7	1363	29	10	8	51	1.66
142057--142088	4	8.5	4	86	13	50	81	0	18	0	0.70
142057--142089	11	3.0	11	86	13	50	81	0	18	0	0.68
142054--142100	18	2.5	19	89	3	69	76	0	21	2	0.89
145209--145414	81	2.5	82	78	10	199	33	13	24	29	1.93
145444--145695	140	1.8	139	83	6	339	40	8	22	28	1.83
145565--145940	80	4.6	80	80	6	364	31	9	28	30	1.88
149818--150162	157	2.2	153	79	7	376	38	20	17	24	1.93
152187--152428	20	12.9	20	66	22	100	30	15	13	40	1.86
152246--152363	31	3.5	31	68	18	92	29	15	14	40	1.86
152206--152405	71	2.8	71	90	1	294	31	15	14	39	1.87
152277--152471	91	2.1	92	90	0	302	30	15	13	40	1.86
155746--155874	31	4.0	31	81	7	134	35	11	22	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
158219--158260	15	2.7	15	86	13	59	80	7	2	9	0.97
159860--159938	40	2.0	40	89	0	122	15	22	17	44	1.86
160036--160229	43	4.6	42	70	15	116	22	25	10	41	1.86
160106--160506	84	4.8	82	71	10	224	19	19	14	46	1.84
165781--165901	52	2.3	52	97	0	224	28	18	18	34	1.94
165781--165921	52	2.7	51	90	4	212	30	17	18	33	1.94
165910--165934	13	1.9	13	100	0	50	36	16	16	32	1.90
166000--166024	13	1.9	13	100	0	50	32	16	16	36	1.90
165978--166044	33	2.0	33	88	0	98	40	13	11	34	1.81
166844--167509	49	14.0	49	83	5	882	30	17	26	25	1.97

Tables:   1   2   3   4   5   6   7