genome.fa.s302.2.7.7.80.10.50.1000.1.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: Scaffold302
Parameters: 2 7 7 80 10 50 1000
Length:  555664

Tables:   1   2   3   4   

This is table  1  of  4  ( 430 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)
3493--3606	1	114.0	1	76	0	102	87	7	1	2	0.70
5264--5520	58	4.4	59	85	8	330	31	29	17	21	1.97
5264--5520	88	3.0	87	90	4	387	31	29	17	21	1.97
5044--5522	30	16.1	30	79	7	365	29	28	16	25	1.97
5264--5521	115	2.2	115	87	2	347	31	29	17	22	1.97
5511--5722	52	4.2	52	76	13	208	24	25	16	33	1.96
5526--5615	43	2.1	43	93	0	153	26	24	17	31	1.97
6317--6366	10	5.0	10	100	0	100	30	10	10	50	1.69
6395--6427	10	3.3	10	100	0	66	27	9	12	51	1.69
6601--6625	13	1.9	13	100	0	50	36	16	16	32	1.90
6688--6712	13	1.9	13	100	0	50	32	16	16	36	1.90
6721--6901	52	3.5	52	95	0	317	35	18	16	28	1.93
10032--10093	32	1.9	33	86	3	90	29	16	14	40	1.88
10143--10179	13	2.8	13	91	0	56	32	13	16	37	1.87
10625--10693	36	1.9	35	88	2	102	31	11	28	27	1.92
16308--16664	162	2.2	164	87	5	494	31	8	8	51	1.63
16806--16864	27	2.2	27	96	0	109	23	10	10	55	1.63
17137--17183	10	4.6	10	85	15	69	80	0	19	0	0.70
17134--17189	22	2.6	21	84	15	78	78	0	19	1	0.84
18046--18106	30	2.0	30	100	0	122	36	14	3	45	1.62
21292--21332	20	2.0	21	85	9	57	7	31	43	17	1.76
27960--28022	19	3.6	19	70	24	66	28	15	15	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27927--28022	32	3.0	32	93	1	156	28	14	17	39	1.89
28064--28118	20	2.7	21	83	8	69	29	16	14	40	1.88
33578--33743	90	1.8	91	88	1	253	42	13	16	27	1.85
33620--33744	20	5.8	20	70	17	79	41	13	15	29	1.85
33760--33801	10	4.2	10	93	0	75	21	28	0	50	1.49
35624--35947	79	4.1	79	80	4	334	33	12	24	28	1.93
35641--35945	157	1.9	158	81	3	364	33	11	25	29	1.90
35881--35998	51	2.3	51	91	0	182	32	10	26	31	1.89
35801--36082	135	2.1	132	85	5	365	31	13	24	30	1.93
35930--36156	84	2.8	79	77	7	276	33	14	23	28	1.94
35826--36090	130	2.0	126	81	8	300	34	13	22	29	1.93
35730--36160	214	2.0	208	85	4	569	33	13	23	29	1.93
38654--38759	49	2.2	48	86	6	146	31	19	28	20	1.97
38803--38919	32	3.9	32	77	15	99	23	18	28	29	1.98
38819--39254	28	15.5	28	79	11	229	24	17	29	28	1.97
38951--39260	56	5.4	57	85	5	369	23	18	30	28	1.97
38978--39256	28	9.9	28	85	3	328	22	18	29	28	1.98
40446--40493	7	6.6	7	81	15	53	4	0	10	85	0.73
40445--40502	8	6.9	8	80	9	53	3	0	12	84	0.74
42453--42656	80	2.6	79	83	3	232	28	17	29	24	1.97
42611--42682	28	2.6	28	88	0	99	23	19	34	22	1.96
42531--42845	108	2.9	108	85	4	323	29	15	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42723--42791	27	2.5	27	88	6	95	23	21	30	24	1.99
42778--42903	51	2.4	52	84	7	166	30	11	25	31	1.92
45248--45273	13	2.0	13	100	0	52	38	15	15	30	1.88
45227--45293	33	2.0	33	88	0	98	43	16	14	25	1.86
45335--45359	13	1.9	13	100	0	50	32	16	16	36	1.90
45316--45378	32	2.0	32	87	6	92	39	12	11	36	1.79
45416--45492	21	3.7	21	85	3	102	36	16	11	35	1.86
46323--46638	55	5.7	55	86	5	377	24	20	28	26	1.99
46457--46593	26	4.9	28	64	22	83	20	20	30	28	1.98
47261--47576	55	5.7	55	86	7	379	23	20	28	26	1.99
47395--47531	26	4.9	28	64	22	83	20	20	30	28	1.98
48198--48513	55	5.7	55	87	5	404	23	21	28	26	1.99
45621--63561	937	19.2	937	97	0	33729	28	19	26	25	1.99
48356--48443	26	3.3	26	68	20	81	19	18	35	27	1.95
49135--49450	55	5.7	55	86	5	395	23	21	28	26	1.99
49293--49380	26	3.3	26	68	20	81	19	18	35	27	1.95
50072--50388	55	5.7	55	87	5	397	23	21	28	26	1.99
50231--50318	26	3.3	26	68	20	81	19	18	35	27	1.95
51010--51325	55	5.7	55	87	5	404	23	21	28	26	1.99
51168--51255	26	3.3	26	68	20	81	19	18	35	27	1.95
51948--52263	55	5.7	55	86	5	395	23	21	28	26	1.99
52106--52193	26	3.3	26	68	20	81	19	18	35	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52908--53155	55	4.5	55	89	4	374	20	20	30	27	1.98
53043--53130	26	3.3	26	68	20	81	19	18	35	27	1.95
53822--54137	55	5.7	55	87	5	404	23	21	28	26	1.99
53980--54067	26	3.3	26	68	20	81	19	18	35	27	1.95
54784--54976	50	3.8	48	77	16	142	19	20	31	28	1.97
54901--55002	51	2.0	50	85	9	136	20	18	31	29	1.97
55690--55987	55	5.6	54	76	16	259	23	20	28	26	1.99
56609--56924	55	5.7	55	86	7	406	23	21	28	26	1.99
56767--56854	26	3.3	26	66	20	72	20	18	34	27	1.96
57546--57861	55	5.7	55	87	6	397	23	21	28	27	1.99
57704--57791	26	3.3	26	66	20	72	20	17	34	28	1.95
58483--58798	55	5.7	55	87	6	397	23	21	28	27	1.99
58641--58728	26	3.3	26	66	20	72	20	17	34	28	1.95
59420--59729	55	5.7	55	86	6	405	22	21	28	27	1.99
60351--60666	55	5.7	55	86	5	395	23	20	28	26	1.99
60509--60596	26	3.3	26	68	20	81	19	18	35	27	1.95
61288--61603	55	5.7	55	90	4	438	23	20	28	27	1.99
61446--61533	26	3.3	26	68	20	81	19	18	35	27	1.95
62225--62540	55	5.7	55	87	5	404	23	21	28	26	1.99
62383--62470	26	3.3	26	68	20	81	19	18	35	27	1.95
63163--63477	55	5.6	56	86	7	376	23	21	28	26	1.99
63321--63407	26	3.2	26	67	20	79	18	18	35	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72131--72172	20	2.1	20	100	0	84	28	28	14	28	1.95
76516--76546	10	3.1	10	100	0	62	22	29	0	48	1.51
77584--77638	20	2.8	20	74	0	56	36	9	21	32	1.85
80202--80233	16	2.0	16	93	0	55	40	12	28	18	1.87
85824--85849	13	2.0	13	100	0	52	30	15	15	38	1.88
85803--85867	32	2.0	34	90	6	107	27	12	18	41	1.86
86489--86546	25	2.3	25	93	0	98	27	27	8	36	1.86
88967--88997	15	2.1	15	93	0	53	12	22	16	48	1.80
90802--90846	21	2.1	21	84	8	56	22	20	4	53	1.63
91313--91345	17	2.0	17	88	5	50	0	27	12	60	1.32
93042--93094	19	2.7	20	88	8	81	28	11	18	41	1.85
93042--93100	19	3.0	18	85	14	73	25	10	22	42	1.84
93825--93854	13	2.3	13	94	0	51	36	16	10	36	1.82
93840--93894	20	2.8	20	88	0	74	34	10	21	32	1.89
94236--94307	20	3.7	19	76	14	67	29	12	13	44	1.81
100488--100514	13	2.1	13	100	0	54	37	14	7	40	1.74
100636--100693	21	2.7	22	91	2	75	27	18	3	50	1.63
100644--100693	21	2.4	21	100	0	100	26	18	4	52	1.63
102428--102501	24	3.1	24	92	3	123	28	12	21	37	1.89
102428--102501	23	3.1	23	94	3	121	28	12	21	37	1.89
103109--103156	13	3.5	13	78	15	51	29	14	12	43	1.82
103206--103259	20	2.7	20	85	5	74	33	12	16	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106713--106778	31	2.1	31	94	0	114	36	19	27	16	1.93
107316--107408	31	3.0	31	87	3	134	19	39	18	22	1.92
108354--108396	13	3.4	13	81	12	54	79	2	0	18	0.85
108367--108398	16	2.0	16	93	0	55	78	3	0	18	0.89
112861--112905	22	2.0	23	82	4	56	33	20	2	44	1.63
121067--121983	42	22.0	42	81	4	998	14	30	18	37	1.90
128175--128233	31	1.9	31	89	0	91	22	42	13	22	1.88
128317--128380	32	2.0	32	84	0	83	32	35	20	10	1.87
129117--129150	11	3.0	11	91	4	50	76	2	0	20	0.92
129117--129164	16	3.1	16	77	22	57	75	2	0	22	0.91

Tables:   1   2   3   4