genome.fa.s2356.2.7.7.80.10.50.1000.1.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: scaffold131
Parameters: 2 7 7 80 10 50 1000
Length:  1240061

Tables:   1   2   3   4   

This is table  1  of  4  ( 392 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)
68--226	17	9.0	17	75	17	146	30	13	12	43	1.81
114--154	19	2.1	18	90	4	55	46	9	9	34	1.70
114--154	20	2.0	20	90	9	66	46	9	9	34	1.70
68--226	35	4.5	35	80	11	164	30	13	12	43	1.81
3991--4026	3	12.0	3	93	0	63	30	0	2	66	1.06
4670--4708	19	2.1	19	90	4	62	20	20	12	46	1.83
5682--5706	11	2.3	11	100	0	50	36	0	0	64	0.94
6479--6519	20	2.0	20	85	0	55	53	0	0	46	1.00
6645--6709	20	3.2	20	69	16	62	50	3	7	38	1.47
6634--6718	40	2.1	41	93	2	145	52	3	7	36	1.46
6654--6716	20	3.2	20	70	17	67	55	3	6	34	1.41
7450--7525	26	3.0	26	80	14	70	76	2	2	18	1.02
7449--7571	8	14.2	8	66	23	54	75	2	5	16	1.10
7498--7566	19	3.8	18	76	12	61	73	2	8	14	1.18
7542--7571	15	2.0	15	93	0	51	83	0	3	13	0.77
15989--16016	2	14.0	2	100	0	56	50	0	0	50	1.00
28574--28609	18	2.0	18	88	0	54	61	0	0	38	0.96
29735--29770	18	2.0	18	88	0	54	61	0	0	38	0.96
29804--31181	689	2.0	689	100	0	2756	38	20	9	32	1.85
31549--31633	21	4.0	21	80	10	93	40	24	18	16	1.91
31590--31633	23	1.9	23	95	0	79	43	22	15	18	1.88
35906--35947	19	2.3	18	87	4	57	26	0	4	69	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36210--36264	21	2.6	21	82	0	65	25	7	36	30	1.83
36480--36521	22	2.0	20	86	9	57	19	19	4	57	1.58
54551--54592	19	2.2	20	86	4	59	35	0	2	61	1.09
54572--54926	177	2.0	178	98	0	685	38	11	9	40	1.74
70293--70322	15	2.0	15	93	0	51	56	0	6	36	1.26
93381--93406	11	2.4	11	100	0	52	34	0	7	57	1.27
93660--93690	4	7.8	4	100	0	62	51	22	0	25	1.48
93684--93725	16	2.7	15	79	13	50	35	7	0	57	1.26
98185--98221	18	2.1	17	90	5	56	8	54	16	21	1.68
100842--100904	23	2.7	23	92	2	99	34	26	3	34	1.73
103898--103934	9	4.1	9	92	0	65	29	10	13	45	1.77
103988--104018	9	3.4	9	90	0	53	38	22	12	25	1.90
124246--124286	3	13.7	3	100	0	82	65	0	0	34	0.93
124404--124444	3	13.7	3	100	0	82	65	0	0	34	0.93
124235--124551	158	2.0	159	99	0	627	32	8	18	41	1.80
133160--133195	15	2.4	15	85	0	54	30	8	22	38	1.83
145049--145078	9	3.3	9	100	0	60	90	0	10	0	0.47
150279--150313	18	2.0	17	88	5	52	45	0	0	54	0.99
150502--150538	16	2.3	16	95	0	65	24	32	5	37	1.78
157374--157593	110	2.0	110	92	0	368	32	15	28	23	1.96
161996--162086	27	3.6	25	75	17	80	26	2	6	64	1.29
163663--163723	29	2.1	28	85	8	79	47	18	13	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
164204--164250	14	3.4	14	79	2	51	10	6	2	80	0.96
164878--164903	7	3.7	7	100	0	52	23	61	0	15	1.33
165456--165489	17	2.0	17	88	0	50	26	0	8	64	1.22
170493--170851	179	2.0	180	98	0	702	33	17	23	25	1.97
178604--178943	174	2.0	174	86	2	477	40	20	12	26	1.88
185135--185291	73	2.2	73	96	0	296	30	2	8	57	1.42
185679--185708	7	4.3	7	95	0	51	23	13	43	20	1.86
189157--189206	26	1.9	26	83	0	64	48	24	18	10	1.78
193652--193701	26	1.9	26	87	0	73	46	24	20	10	1.81
209384--209417	17	1.9	18	88	5	52	52	14	23	8	1.69
209410--209472	32	1.9	33	84	9	85	47	3	4	44	1.40
211358--211410	20	2.7	20	88	8	74	60	3	0	35	1.15
211359--211425	20	3.3	19	78	18	64	59	1	0	38	1.06
212947--212989	22	1.9	23	85	4	61	41	2	4	51	1.35
214075--214109	16	2.1	16	89	5	52	42	5	0	51	1.25
214946--215002	19	2.7	21	76	18	55	40	1	1	56	1.20
232589--232687	42	2.4	42	92	0	162	38	16	25	20	1.92
236621--237141	260	2.0	260	99	0	1024	29	20	6	43	1.76
244111--244147	18	2.1	18	100	0	74	32	21	21	24	1.98
251720--251815	45	2.1	45	94	3	167	46	9	8	35	1.66
258413--258589	88	2.0	89	98	1	347	35	7	6	49	1.58
261228--261261	16	2.1	16	89	10	52	47	11	14	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
266293--266427	49	2.8	49	91	2	227	44	14	14	27	1.83
266559--266665	43	2.5	42	82	7	126	18	15	22	42	1.88
273475--273512	1	38.0	1	89	0	58	0	5	0	94	0.30
278129--278155	6	4.5	6	100	0	54	81	18	0	0	0.69
290376--290415	20	2.0	20	95	0	71	35	0	62	2	1.09
291537--291711	57	3.1	57	99	0	341	28	18	12	41	1.87
311175--311473	148	2.0	149	99	0	591	44	12	9	34	1.74
330412--330525	44	2.6	44	90	0	174	29	23	13	33	1.93
330583--333302	44	61.8	44	63	16	552	27	25	18	28	1.98
330545--333300	132	20.9	132	97	0	4919	27	25	18	28	1.98
337447--337486	19	2.0	20	85	4	55	47	7	20	25	1.75
344404--344440	9	4.1	9	92	0	65	45	13	10	29	1.77
345052--345077	5	5.2	5	100	0	52	19	19	19	42	1.90
349087--349126	20	2.0	20	90	0	62	27	10	12	50	1.72
349072--349138	34	1.9	35	90	3	109	31	8	13	46	1.74
355553--355907	75	4.7	75	99	0	701	41	4	21	32	1.72
358483--358521	19	2.1	19	85	0	51	79	0	15	5	0.90
360149--360177	12	2.5	12	94	5	51	79	0	0	20	0.74
365749--365997	124	2.0	125	99	0	491	45	4	12	37	1.63
372863--372930	35	1.9	35	96	0	127	41	2	5	50	1.42
377202--377267	27	2.5	27	95	2	116	40	9	1	48	1.44
377268--377304	9	4.0	9	89	3	56	83	13	2	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377268--377303	18	1.9	19	94	5	65	83	13	2	0	0.76
377331--377383	27	2.0	27	88	0	79	26	28	30	15	1.96
378020--378057	18	2.1	18	95	0	67	34	7	47	10	1.67
380783--380807	13	1.9	13	100	0	50	0	36	0	64	0.94
381065--381119	28	2.0	28	100	0	110	54	0	7	38	1.28
381067--381131	28	2.4	28	92	2	105	52	1	7	38	1.40
405591--405736	21	7.0	21	70	4	107	49	16	18	15	1.80
405579--405700	42	2.9	42	82	0	163	48	16	18	17	1.82
405598--405736	42	3.3	42	81	6	147	49	16	18	15	1.80
405582--405736	84	1.8	84	84	2	213	50	16	18	15	1.79
407806--408097	41	7.1	41	87	0	422	31	18	26	23	1.98
407814--408097	82	3.5	82	94	0	469	31	19	26	23	1.98
408275--408363	34	2.5	35	81	3	108	32	8	19	39	1.83
408296--408366	36	2.1	33	86	7	97	32	7	16	43	1.75
410195--410225	2	15.5	2	93	0	53	48	3	0	48	1.17
410730--410776	22	2.1	22	84	7	60	61	6	4	27	1.39
430630--430740	31	3.2	33	72	23	88	35	0	3	61	1.14
431558--431597	18	2.2	19	90	4	64	32	0	5	62	1.17
436566--436649	10	8.9	9	69	12	53	57	8	1	33	1.36
436589--436694	10	10.9	10	68	17	55	56	3	2	36	1.32
436978--437059	31	2.7	30	86	5	103	51	14	4	29	1.63
452974--453007	17	2.0	17	88	0	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460293--460336	19	2.2	20	92	4	72	65	2	0	31	1.05
460322--460350	11	2.6	11	100	0	58	51	0	0	48	1.00
460299--460336	20	1.9	20	94	5	60	65	0	0	34	0.93
467108--467155	21	2.3	22	82	13	57	54	0	4	41	1.20
473196--473247	11	4.0	12	77	22	52	75	0	23	1	0.91
475645--477070	358	4.0	359	84	4	1715	34	12	15	37	1.85
475645--477070	363	4.0	360	84	4	1715	34	12	15	37	1.85
482186--482420	117	2.0	118	97	2	447	38	5	8	48	1.56
482774--482813	9	4.4	9	83	0	53	50	10	7	32	1.64
482884--482912	13	2.1	14	93	6	51	72	6	0	20	1.07

Tables:   1   2   3   4