genome.fa.s226.2.7.7.80.10.50.1000.1.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: Scaffold226
Parameters: 2 7 7 80 10 50 1000
Length:  1170647

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 925 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)
645--700	9	6.1	9	76	19	53	62	0	0	37	0.95
653--694	22	1.9	22	95	0	75	59	0	0	40	0.97
648--713	29	2.2	29	86	2	87	59	0	0	40	0.98
695--768	13	6.0	12	74	16	71	44	1	0	54	1.08
683--760	35	2.3	35	93	6	133	48	1	0	50	1.09
781--850	33	2.1	34	91	2	115	54	0	0	45	0.99
754--845	33	3.3	27	73	19	80	47	0	1	51	1.07
859--899	20	2.0	20	85	0	55	31	0	0	68	0.90
902--955	28	1.9	28	81	7	65	53	0	1	44	1.11
1294--1340	22	2.1	22	96	0	85	25	6	12	55	1.61
2117--2145	2	14.5	2	100	0	58	48	0	0	51	1.00
2175--2203	2	14.5	2	100	0	58	51	0	0	48	1.00
3593--3625	2	16.5	2	100	0	66	51	0	0	48	1.00
3689--3723	13	2.6	14	86	9	54	51	0	0	48	1.00
3782--3816	2	17.5	2	100	0	70	51	0	0	48	1.00
4009--4052	19	2.3	19	84	7	54	34	6	2	56	1.38
4148--4212	27	2.4	26	80	10	69	55	0	0	44	0.99
4159--4221	25	2.5	26	80	12	69	53	0	0	46	1.00
4189--4221	17	1.9	17	93	0	57	60	0	0	39	0.97
4248--4317	36	2.0	35	91	5	115	52	2	22	21	1.60
8228--8259	2	16.0	2	100	0	64	50	0	0	50	1.00
8547--8597	23	2.2	24	82	10	61	68	3	0	27	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11270--11329	27	2.1	28	85	11	79	48	0	0	51	1.00
11900--11960	28	2.2	28	82	5	70	37	0	3	59	1.14
11986--12119	24	5.7	24	72	14	75	61	0	2	35	1.08
12022--12158	11	11.9	11	73	16	84	62	0	2	35	1.07
12035--12115	23	3.5	23	79	14	78	69	0	2	28	1.02
12071--12178	38	3.2	31	71	24	85	59	0	1	37	1.15
12464--12532	23	2.8	23	76	22	61	36	0	2	60	1.11
12469--12531	22	2.7	23	75	15	58	36	0	1	61	1.05
12950--12991	22	1.9	23	85	9	61	0	23	9	66	1.21
13431--13778	162	2.1	161	87	4	502	29	9	12	49	1.72
13780--13833	17	3.2	18	79	7	51	37	1	0	61	1.07
14243--14289	15	2.9	16	81	9	51	61	4	0	34	1.15
14256--14289	15	2.3	15	90	5	52	64	2	0	32	1.08
14275--14317	23	1.9	22	95	4	77	55	9	0	34	1.32
16545--16576	15	2.1	15	94	0	55	28	12	9	50	1.71
24625--24660	2	18.0	2	100	0	72	50	0	0	50	1.00
29020--29049	16	1.9	16	93	6	53	60	3	10	26	1.45
29958--30075	32	3.7	32	71	4	94	48	24	9	17	1.77
37187--37241	23	2.2	25	78	15	62	38	1	0	60	1.08
37428--37471	22	2.0	22	82	8	54	50	2	0	47	1.13
37869--37907	15	2.5	16	79	8	53	56	0	2	41	1.13
37880--37926	23	2.0	23	83	4	58	51	0	4	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38421--38485	16	4.2	15	82	9	78	58	1	3	36	1.23
38373--38456	39	2.1	41	82	6	102	59	0	2	38	1.10
38421--38503	31	2.6	31	83	9	89	56	3	3	36	1.34
38424--38510	16	5.6	16	77	13	76	54	3	3	39	1.34
38600--38654	16	3.6	16	73	9	60	60	0	0	40	0.97
39403--39428	2	13.0	2	100	0	52	50	0	0	50	1.00
39926--40066	70	2.0	70	98	0	273	31	21	12	34	1.90
40753--40783	15	2.1	15	93	0	53	25	12	9	51	1.70
42768--42822	16	3.4	16	74	2	56	30	3	7	58	1.43
42794--42846	22	2.3	23	70	3	54	26	5	9	58	1.52
42816--42890	16	4.8	16	75	14	50	30	5	9	54	1.54
42941--42974	16	2.2	15	89	5	50	38	8	5	47	1.59
47343--47367	2	12.5	2	100	0	50	0	0	48	52	1.00
49937--49974	16	2.4	16	91	8	60	23	7	0	68	1.16
50396--50433	16	2.4	16	90	0	58	23	7	0	68	1.16
51755--51837	40	2.0	41	81	6	98	40	3	0	55	1.17
52100--52149	3	16.7	3	100	0	100	34	0	0	66	0.92
52828--52936	54	2.0	54	100	0	218	40	11	12	35	1.79
53458--53487	2	15.0	2	100	0	60	50	0	0	50	1.00
55084--55127	2	22.0	2	100	0	88	50	0	0	50	1.00
56443--56497	19	2.8	20	75	8	60	34	0	0	65	0.93
56443--56493	24	2.0	26	85	7	70	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56443--56491	5	9.8	5	80	8	55	36	0	0	63	0.95
56573--56634	32	1.9	33	90	3	99	59	1	0	38	1.07
56591--56648	26	2.3	25	91	8	91	60	1	0	37	1.07
56582--56648	12	5.4	12	78	15	57	59	1	0	38	1.06
56741--56811	6	11.7	6	89	7	90	46	0	0	53	1.00
68514--68563	25	2.0	25	88	3	75	32	4	6	58	1.41
70291--70330	19	2.1	19	86	9	55	50	7	5	37	1.53
70502--70541	19	2.2	19	86	13	57	62	0	0	37	0.95
71912--71977	22	2.9	22	76	17	64	59	1	1	37	1.16
72994--73020	3	9.0	3	100	0	54	66	0	0	33	0.92
73287--73325	2	19.5	2	100	0	78	51	0	0	48	1.00
75270--75334	27	2.4	26	76	19	69	50	0	0	49	1.00
75308--75354	19	2.2	23	78	14	57	48	0	0	51	1.00
76022--76071	25	1.9	25	88	8	73	56	0	0	44	0.99
76928--76969	17	2.5	17	88	3	59	52	9	2	35	1.47
77769--77805	15	2.5	15	86	0	56	51	10	0	37	1.37
85140--85226	36	2.4	37	82	7	106	51	1	2	44	1.21
85184--85238	16	3.4	16	82	10	58	50	0	0	49	1.00
85192--85239	16	3.0	16	84	0	60	50	0	0	50	1.00
89402--89447	19	2.5	18	85	3	56	54	0	0	45	0.99
94579--94614	16	2.2	16	90	0	54	19	16	25	38	1.92
94586--94625	16	2.5	16	87	0	53	25	15	20	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94712--94759	15	3.6	14	74	25	50	41	8	12	37	1.73
95542--95609	31	2.2	32	91	2	111	50	11	2	35	1.54
95542--95621	32	2.5	31	89	2	115	50	13	2	33	1.56
97926--97984	29	2.0	31	83	9	79	54	0	0	45	0.99
97965--98011	19	2.5	20	79	10	53	53	0	0	46	1.00
98328--98441	11	11.1	10	74	14	90	40	1	0	57	1.09
98331--98407	2	41.5	2	70	23	53	44	2	0	53	1.14
98328--98441	5	22.2	5	76	15	90	40	1	0	57	1.09
98332--98443	40	2.8	39	79	10	127	41	1	0	57	1.09
98339--98430	35	2.6	36	80	13	102	41	2	0	56	1.11
99021--99072	2	26.5	2	84	3	61	42	0	5	51	1.25
99546--99583	2	19.0	2	100	0	76	50	0	0	50	1.00
100518--100543	3	8.7	3	100	0	52	69	0	0	30	0.89
101839--101888	25	2.0	25	81	11	59	40	2	10	48	1.48
104750--104849	48	2.1	48	94	0	173	46	15	16	23	1.84
106097--106528	150	2.9	149	90	5	684	44	4	13	36	1.65
107134--107164	12	2.6	12	89	0	53	58	0	3	38	1.15
108354--108386	12	2.8	12	100	0	66	42	6	0	51	1.26
109149--109200	11	4.8	11	84	13	56	50	1	0	48	1.12
109328--109363	5	7.2	5	93	0	63	0	22	0	77	0.76
112134--112176	2	21.5	2	100	0	86	51	0	0	48	1.00
115974--116004	15	2.1	14	94	5	53	70	6	0	22	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116217--116301	43	2.0	43	82	13	104	57	0	0	42	0.98
116316--116378	32	2.0	31	81	9	74	52	1	0	46	1.10
116465--116499	16	2.3	15	86	13	54	71	2	0	25	1.00
116523--116571	19	2.5	19	86	3	71	48	0	0	51	1.00
121816--121889	8	9.5	8	71	11	55	40	1	0	58	1.07
126133--126181	21	2.2	22	79	13	57	51	0	0	48	1.00
126724--126765	21	2.0	22	85	4	59	38	0	0	61	0.96
129947--130178	120	1.9	120	96	0	428	40	15	24	20	1.91
131984--132011	4	7.0	4	100	0	56	75	0	25	0	0.81
134421--134453	15	2.1	16	88	5	50	36	3	0	60	1.12

Tables:   1   2   3   4   5   6   7   8