genome.fa.s485.2.7.7.80.10.50.1000.1.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: Scaffold485
Parameters: 2 7 7 80 10 50 1000
Length:  999764

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 928 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)
5596--5621	11	2.4	11	100	0	52	84	0	0	15	0.62
5972--6034	12	5.2	12	72	25	53	33	1	1	63	1.13
5991--6061	12	5.8	12	71	23	51	29	4	0	66	1.11
6867--6973	51	2.2	48	84	5	133	27	27	24	21	1.99
7024--7126	33	3.1	33	85	0	143	33	28	20	17	1.95
7059--7111	16	3.2	16	70	15	54	35	28	18	16	1.93
7113--7194	33	2.5	32	80	5	101	31	28	19	20	1.97
7083--7312	84	2.7	84	93	0	379	31	26	19	22	1.98
7140--7240	51	2.0	49	84	7	132	32	26	17	22	1.97
7198--7273	33	2.3	33	88	0	107	31	25	19	23	1.98
7359--7642	33	8.6	33	82	1	291	33	26	17	22	1.96
7209--7480	150	1.8	149	80	6	334	34	24	17	23	1.96
7359--7642	99	2.9	99	84	1	363	33	26	17	22	1.96
7419--7661	18	14.5	17	67	14	96	32	26	18	23	1.97
9322--9385	2	31.5	2	90	9	103	48	1	1	48	1.20
9734--9851	33	3.3	33	64	19	83	22	26	19	32	1.97
9731--9893	75	2.2	75	92	0	263	21	26	21	30	1.98
10044--10080	17	2.1	18	90	5	58	51	2	0	45	1.15
10409--10446	2	19.0	2	88	0	58	47	0	2	50	1.15
13219--13275	15	3.6	15	75	15	53	52	0	0	47	1.00
13648--13694	20	2.4	20	80	13	53	42	4	0	53	1.20
13683--13707	13	1.9	13	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14150--14178	2	14.5	2	100	0	58	48	0	0	51	1.00
14631--14670	2	20.0	2	100	0	80	0	0	50	50	1.00
18406--18472	29	2.3	29	92	0	116	40	2	1	55	1.24
18984--19040	18	3.3	17	82	9	71	66	0	0	33	0.92
18977--19066	34	2.6	34	81	10	96	61	0	1	37	1.04
19011--19062	17	2.9	18	77	11	54	57	0	0	42	0.98
19034--19092	26	2.3	26	88	5	84	55	1	0	42	1.09
19116--19158	22	2.0	22	81	9	52	48	2	9	39	1.48
19741--19795	29	1.9	28	82	10	67	54	0	0	45	0.99
22273--22307	15	2.3	15	90	0	52	37	0	2	60	1.12
22549--22610	23	2.8	23	83	11	76	33	0	0	66	0.92
22581--22626	15	3.3	15	76	11	53	32	0	0	67	0.91
22573--22626	29	1.9	27	92	7	90	33	0	0	66	0.92
26056--26119	34	1.9	33	81	15	78	51	1	0	46	1.10
26180--26225	23	2.0	24	87	12	69	39	0	0	60	0.97
26942--27042	42	2.5	40	84	6	125	27	12	31	27	1.93
28383--28430	17	2.9	16	76	11	53	62	2	0	35	1.07
29743--29770	5	5.6	5	100	0	56	39	21	0	39	1.54
34236--34265	2	15.0	2	100	0	60	50	0	0	50	1.00
36034--36071	2	19.0	2	94	0	67	50	2	0	47	1.15
36179--36219	21	1.9	22	90	5	66	68	0	0	31	0.90
36175--36220	21	2.2	20	82	14	58	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36629--36691	28	2.1	32	82	11	80	65	0	1	33	1.03
38262--38308	20	2.3	21	85	7	62	4	36	0	59	1.17
38335--38393	31	1.9	31	100	0	118	45	23	6	23	1.76
38588--38653	33	2.0	33	85	2	89	54	0	3	42	1.15
38612--38656	16	2.8	16	86	3	63	60	0	2	37	1.09
38980--39027	22	2.2	22	82	14	55	52	6	0	41	1.27
39360--39401	20	2.1	20	91	8	68	73	0	0	26	0.83
43440--43466	3	9.0	3	100	0	54	33	33	33	0	1.58
47408--47477	19	3.5	20	76	16	65	62	0	0	37	0.95
48338--48460	19	7.1	18	66	22	59	56	0	0	43	0.99
48338--48400	26	2.4	26	80	15	67	60	0	0	39	0.97
48356--48442	16	5.1	16	73	21	61	58	0	0	41	0.98
48353--48460	36	3.1	36	78	18	106	57	0	0	42	0.98
48352--48458	16	6.3	16	73	17	58	57	0	0	42	0.99
48338--48452	18	5.7	20	64	27	55	57	0	0	42	0.98
49144--49229	30	2.8	30	75	19	88	48	0	0	51	1.00
49210--49240	16	1.9	16	93	0	53	48	0	0	51	1.00
49152--49226	35	2.2	34	84	11	93	45	0	0	54	0.99
51724--51757	17	2.1	16	94	5	59	47	0	0	52	1.00
51916--51975	18	3.3	18	75	9	59	45	0	0	55	0.99
52365--52391	13	2.1	13	100	0	54	59	0	0	40	0.98
52343--52410	17	3.8	17	74	11	55	51	0	2	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52470--52504	14	2.4	15	85	9	54	57	5	0	37	1.23
52597--52653	28	2.0	27	83	10	69	50	1	0	47	1.11
52612--52665	27	2.0	28	85	3	74	55	1	0	42	1.10
53056--53094	21	1.9	21	84	5	53	35	0	7	56	1.28
53137--53176	21	1.9	21	85	10	55	60	0	0	40	0.97
53527--53566	19	2.2	18	90	4	62	55	2	0	42	1.13
53532--53573	19	2.2	19	86	0	57	57	2	0	40	1.12
53591--53638	24	2.0	24	84	8	62	62	8	2	27	1.35
54874--54955	31	2.6	32	80	7	96	50	0	0	50	1.00
55680--55725	20	2.2	20	85	11	58	43	0	4	52	1.21
57686--57720	9	3.8	9	88	3	52	48	0	0	51	1.00
57681--57722	18	2.3	18	88	11	68	45	0	0	54	0.99
58262--58317	23	2.4	24	76	8	62	46	1	0	51	1.11
59186--59210	2	12.5	2	100	0	50	52	0	0	48	1.00
59193--59240	22	2.3	21	85	7	62	47	0	4	47	1.21
60084--60187	11	9.6	11	67	20	51	42	0	0	56	1.05
60145--60178	5	6.4	5	87	12	50	38	0	0	61	0.96
60145--60187	17	2.6	16	88	7	59	39	0	0	60	0.97
60121--60187	11	5.9	12	76	15	54	37	1	0	61	1.05
61981--62023	21	2.0	22	82	13	54	41	0	2	55	1.12
62180--62262	29	2.5	32	75	20	82	55	3	0	40	1.17
62238--62296	13	4.5	13	77	14	59	45	1	0	52	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65682--65719	17	2.2	17	90	0	58	71	0	0	28	0.87
65764--65802	14	3.0	13	82	10	53	43	0	2	53	1.14
68914--68943	2	15.0	2	92	0	51	46	0	3	50	1.18
69343--69382	20	2.0	21	90	5	64	20	2	12	65	1.38
69369--69498	58	2.2	58	80	2	136	33	3	10	53	1.50
69547--69665	26	4.3	27	81	17	129	47	0	2	49	1.14
69547--69665	28	4.3	25	79	17	105	47	0	2	49	1.14
69558--69676	27	4.3	28	73	18	97	52	0	2	45	1.14
70165--70197	2	16.5	2	100	0	66	51	0	0	48	1.00
70593--70660	21	3.2	21	80	12	68	60	0	0	39	0.97
70603--70660	22	2.7	22	82	10	68	58	0	0	41	0.98
70599--70666	22	3.0	21	77	16	66	58	0	0	41	0.98
71671--71700	2	15.0	2	100	0	60	50	0	0	50	1.00
72449--72540	40	2.2	41	92	3	150	60	3	0	35	1.13
72603--72656	26	2.1	26	89	6	83	14	5	1	77	1.03
74029--74094	19	3.2	20	77	12	71	56	0	0	43	0.99
74017--74098	40	2.0	40	82	13	98	50	1	1	47	1.16
74061--74104	19	2.5	17	82	10	52	52	0	0	47	1.00
74025--74114	41	2.2	41	81	18	109	52	0	0	47	1.00
76325--76363	18	2.1	18	85	4	51	71	0	2	25	0.98
77650--77688	15	2.7	14	84	7	51	58	7	0	33	1.26
82737--82774	19	2.0	20	94	5	69	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83071--83144	13	5.0	15	82	14	59	39	1	0	59	1.06
83087--83133	13	3.6	13	94	0	85	38	0	0	61	0.96
84010--84046	18	2.1	18	94	0	65	32	18	10	37	1.86
85159--85210	16	3.2	16	76	7	52	55	0	0	44	0.99
85142--85205	32	2.0	33	84	9	87	48	1	0	50	1.10
85187--85220	16	2.1	16	88	0	50	67	0	0	32	0.91
88468--88534	26	2.5	27	75	4	73	50	0	10	38	1.37
88897--88940	22	2.0	22	86	8	63	29	11	20	38	1.87
89809--89856	19	2.5	18	81	18	53	60	0	2	37	1.09
89825--89862	18	2.0	20	90	10	62	60	0	0	39	0.97

Tables:   1   2   3   4   5   6   7   8