genome.fa.s404.2.7.7.80.10.50.1000.1.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: Scaffold404
Parameters: 2 7 7 80 10 50 1000
Length:  638648

Tables:   1   2   3   4   

This is table  1  of  4  ( 431 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)
8116--8243	52	2.5	52	93	3	215	31	17	17	33	1.93
8252--8276	13	1.9	13	100	0	50	36	16	16	32	1.90
8317--8383	33	2.0	33	88	0	98	40	13	11	34	1.81
8339--8363	13	1.9	13	100	0	50	32	16	16	36	1.90
9245--9796	164	3.3	164	85	5	677	31	9	5	52	1.57
10358--10398	15	2.8	15	85	10	50	73	0	24	2	0.96
10353--10399	21	2.2	22	84	3	60	74	0	23	2	0.93
11200--11659	164	2.8	162	89	2	679	36	11	10	41	1.76
11548--11776	127	1.8	127	88	3	354	34	10	13	41	1.80
12452--13767	156	8.6	155	76	8	711	23	15	20	39	1.91
12610--13430	314	2.6	308	80	6	818	22	15	21	39	1.91
13315--13654	145	2.3	144	81	4	396	23	16	22	37	1.93
15648--15680	2	16.5	2	100	0	66	48	0	0	51	1.00
18521--18560	21	1.9	21	84	0	53	40	0	0	60	0.97
18609--18652	15	2.9	15	86	10	63	77	2	6	13	1.07
18625--18662	19	2.0	20	89	5	60	81	0	2	15	0.80
20451--20509	21	2.8	21	86	0	73	27	1	23	47	1.61
20595--20636	22	1.9	22	85	9	59	40	19	7	33	1.78
21039--21067	2	14.5	2	100	0	58	51	0	0	48	1.00
25826--25869	2	22.0	2	100	0	88	50	0	0	50	1.00
34184--34217	6	5.3	6	93	6	50	52	0	0	47	1.00
34185--34217	7	5.0	7	96	3	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34536--34586	24	2.2	24	86	6	70	50	0	0	49	1.00
34539--34625	37	2.4	35	76	18	97	45	0	0	54	1.00
34545--34600	24	2.4	24	79	8	62	48	0	0	51	1.00
34552--34631	37	2.3	34	85	8	99	46	0	0	53	1.00
36693--36752	16	3.5	17	84	11	70	30	0	1	68	0.99
36714--36752	18	2.1	19	85	4	53	30	0	2	66	1.05
36702--36766	28	2.4	28	79	7	71	27	1	3	67	1.14
37105--37140	16	2.2	17	90	5	56	41	0	0	58	0.98
37506--37530	9	2.8	9	100	0	50	36	0	0	64	0.94
38685--38709	13	1.9	13	100	0	50	64	0	4	32	1.12
38875--38920	20	2.3	21	85	11	69	67	0	4	28	1.10
50576--50633	22	2.7	21	74	15	55	55	1	0	43	1.10
51319--51350	2	16.0	2	93	0	55	46	0	0	53	1.00
51929--51979	20	2.7	18	82	14	66	47	1	1	49	1.24
52808--52841	17	2.1	17	88	5	52	55	0	0	44	0.99
53032--53070	18	2.2	18	86	4	53	64	0	0	35	0.94
53375--53501	65	2.0	65	93	0	218	42	20	10	26	1.84
54538--54581	21	2.0	21	86	4	61	36	15	11	36	1.84
54569--54631	19	3.7	18	76	24	73	33	12	17	36	1.88
54588--54612	13	1.9	13	100	0	50	36	16	16	32	1.90
54567--54639	32	2.3	32	97	0	137	34	12	17	35	1.88
54656--54697	21	2.0	21	100	0	84	42	9	19	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54684--54709	13	2.0	13	100	0	52	30	15	15	38	1.88
56874--56909	18	2.0	18	100	0	72	66	22	0	11	1.22
57059--57455	52	7.6	51	68	9	219	29	25	11	32	1.92
57176--57250	28	2.7	28	83	4	89	24	32	18	25	1.97
57438--57512	28	2.7	29	83	8	84	24	32	18	25	1.97
57071--57565	262	1.9	262	93	0	857	28	26	12	31	1.93
57468--57649	79	2.3	79	83	1	222	25	29	15	30	1.96
65517--65546	11	2.7	11	100	0	60	26	10	13	50	1.73
69307--69360	20	2.7	20	100	0	108	35	11	11	42	1.76
69255--69391	72	1.9	72	95	0	247	31	16	16	36	1.90
69255--69411	72	2.2	72	88	2	226	32	15	16	35	1.90
69487--69511	13	1.9	13	100	0	50	32	16	16	36	1.90
72644--72718	16	4.7	16	75	15	57	37	1	2	58	1.20
72644--72718	32	2.3	34	80	13	95	37	1	2	58	1.20
74940--74982	19	2.4	17	84	7	50	39	0	2	58	1.11
75320--75372	26	2.0	26	82	7	63	52	0	0	47	1.00
77456--77631	79	2.2	79	79	4	176	32	11	11	43	1.78
83613--83722	42	2.6	42	91	0	175	10	46	1	41	1.48
83646--83721	12	6.9	11	78	15	61	10	48	1	39	1.46
83641--83701	9	7.1	9	72	10	56	11	44	1	42	1.50
91624--91663	21	1.9	21	94	0	71	40	15	7	37	1.75
92691--92720	15	2.0	15	93	0	51	16	6	33	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102033--102073	22	1.9	21	85	5	55	36	0	12	51	1.40
102077--102647	294	1.9	296	88	2	873	34	10	9	45	1.71
105137--105498	155	2.3	155	82	6	428	26	12	17	43	1.85
105260--105617	155	2.3	152	83	7	429	26	13	18	41	1.88
106441--106486	19	2.4	19	85	3	56	63	4	2	30	1.26
106882--106953	16	4.6	16	78	1	83	22	15	19	43	1.88
106940--107024	16	5.3	16	68	0	53	14	11	28	45	1.79
107782--107842	16	3.8	16	77	14	54	47	0	1	50	1.10
107790--107839	17	2.9	17	77	14	50	50	0	2	48	1.12
108398--108451	2	27.5	2	84	3	74	44	0	5	50	1.25
112565--112631	16	4.2	16	69	7	55	17	10	23	47	1.79
120102--120134	15	2.4	14	85	14	50	57	0	0	42	0.98
122119--122169	19	2.5	22	72	21	56	43	0	1	54	1.11
122234--122409	62	2.7	64	82	7	212	42	7	3	45	1.52
122564--122608	16	2.8	16	74	12	56	57	0	0	42	0.98
122564--122609	17	2.8	17	77	9	60	58	0	0	41	0.98
122743--122796	28	2.0	28	88	3	83	46	1	0	51	1.11
123270--123304	12	2.9	12	88	12	54	11	14	0	74	1.08
133029--133069	18	2.3	18	86	0	55	39	9	2	48	1.49
136204--136232	9	3.3	9	90	9	51	10	13	34	41	1.79
138636--138677	16	2.5	17	84	3	50	42	0	0	57	0.99
138748--138797	20	2.5	20	81	15	59	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138756--138798	20	2.2	19	88	12	61	51	0	0	48	1.00
138780--138838	31	2.0	28	83	9	73	47	0	1	50	1.11
138835--138886	27	1.9	27	92	0	86	38	0	0	61	0.96
139403--139433	2	15.5	2	93	0	53	51	3	0	45	1.17
140702--140757	29	2.0	28	82	10	69	58	12	1	26	1.44
140849--140876	2	14.0	2	100	0	56	50	0	0	50	1.00
141230--141280	3	17.0	3	100	0	102	66	0	0	33	0.92
144374--144442	30	2.4	27	79	11	75	2	14	2	79	0.96
144380--144444	26	2.5	25	78	11	60	3	16	1	78	0.96
144384--144440	19	2.9	19	89	7	80	3	17	1	77	1.00
145000--145325	165	2.0	165	83	7	412	50	8	10	30	1.67
146875--146922	2	24.0	2	100	0	96	50	0	0	50	1.00
147019--147051	2	16.5	2	100	0	66	51	0	0	48	1.00
149088--149138	25	2.0	25	92	0	84	21	21	5	50	1.69
149570--149698	46	2.8	44	75	15	120	27	11	16	44	1.82
150488--150544	28	2.0	28	96	0	105	31	14	5	49	1.65
152996--153074	20	3.9	20	77	9	70	45	11	8	34	1.71
153100--153173	21	3.6	21	78	7	80	28	13	13	44	1.82
153680--153940	87	3.0	87	83	1	335	24	20	23	31	1.98
153906--154102	31	6.4	31	69	6	121	19	21	28	29	1.98
153920--154096	62	2.9	61	79	12	182	19	22	27	31	1.98
154175--155351	41	28.3	41	75	9	765	42	12	26	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
154252--155360	125	8.9	122	72	12	552	41	12	26	18	1.87
154175--155360	166	7.1	165	76	9	906	42	12	26	18	1.86
154891--155191	167	1.8	164	82	8	394	44	12	23	18	1.84
156508--156542	15	2.3	15	90	0	52	0	2	11	85	0.69
156505--156545	12	3.5	12	84	15	50	0	2	9	87	0.62
171259--171312	20	2.6	21	91	2	83	29	16	12	40	1.86
172461--172498	20	1.9	20	88	0	58	81	5	10	2	0.94
179386--179426	13	3.2	13	100	0	82	39	17	14	29	1.89
183285--183312	2	14.0	2	100	0	56	50	0	0	50	1.00
184956--184988	12	2.7	13	90	9	52	30	0	3	66	1.06

Tables:   1   2   3   4