genome.fa.s392.2.7.7.80.10.50.1000.3.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: Scaffold392
Parameters: 2 7 7 80 10 50 1000
Length:  803515

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 687 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)
237994--238024	2	16.0	2	93	6	55	51	0	0	48	1.00
237997--238022	13	2.0	13	100	0	52	53	0	0	46	1.00
237995--238025	15	2.1	15	100	0	62	54	0	0	45	0.99
242707--242739	2	16.5	2	93	0	57	45	0	3	51	1.16
243295--243357	15	4.1	15	75	6	63	66	0	3	30	1.07
243446--243475	14	2.1	15	93	6	53	83	3	13	0	0.77
243593--243638	23	2.1	21	88	8	65	45	2	0	52	1.13
243594--243639	11	4.1	11	83	13	58	47	2	0	50	1.13
243834--243906	24	3.0	24	73	15	69	46	0	2	50	1.15
244113--244154	22	1.9	22	85	9	59	35	0	0	64	0.94
244131--244193	32	2.0	30	85	11	83	49	0	0	50	1.00
245083--245112	2	15.0	2	100	0	60	50	0	0	50	1.00
245402--245441	19	2.0	20	85	4	55	45	0	0	55	0.99
249610--249665	12	4.3	13	82	12	62	32	0	5	62	1.18
249616--249667	15	3.9	13	78	14	61	34	0	3	61	1.14
249878--249967	44	2.0	44	89	0	135	37	7	18	35	1.80
250344--250501	75	2.2	72	80	10	178	43	1	1	52	1.23
250382--250440	16	3.6	17	73	13	52	37	0	0	62	0.95
251255--251296	10	4.1	10	79	14	50	64	2	0	33	1.07
261545--261583	18	2.2	18	95	0	69	41	0	10	48	1.37
270297--270333	2	18.5	2	94	0	65	54	0	45	0	1.00
270918--270995	36	2.1	37	80	2	86	60	3	0	35	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272201--272276	10	7.3	10	68	24	50	67	1	0	31	0.99
272210--272401	16	11.6	16	64	22	58	59	1	0	39	1.08
272189--272292	31	3.4	31	81	9	117	65	0	0	33	0.99
272226--272318	27	3.4	26	72	20	73	64	1	0	34	1.01
272201--272312	54	2.1	56	81	8	133	65	0	0	33	0.99
272203--272292	22	4.2	23	69	21	70	65	1	0	33	1.00
272213--272319	18	6.3	17	66	21	55	63	0	0	35	1.01
272263--272336	36	2.1	36	82	5	87	58	1	1	39	1.15
272261--272338	41	1.9	40	82	7	95	58	1	1	38	1.14
272631--272673	21	2.0	21	86	0	59	6	41	16	34	1.75
276212--276265	28	1.9	28	96	0	99	46	9	9	35	1.68
276894--276932	14	2.7	15	84	7	55	48	0	0	51	1.00
276897--276932	15	2.6	14	87	12	56	47	0	0	52	1.00
277968--278001	17	2.0	17	94	0	59	47	8	0	44	1.34
278330--278363	17	2.0	17	88	0	50	35	0	20	44	1.52
280239--280269	4	7.8	4	100	0	62	25	0	22	51	1.48
284275--284299	12	2.1	12	100	0	50	40	0	0	60	0.97
285626--285674	2	24.5	2	100	0	98	0	48	0	51	1.00
287400--287452	20	2.6	21	81	3	63	47	0	0	52	1.00
287411--287443	17	1.9	18	88	11	52	51	0	0	48	1.00
287527--287560	2	17.0	2	93	0	59	50	2	47	0	1.16
288932--288971	21	1.9	21	85	10	55	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)
292427--292459	15	2.1	16	88	5	50	81	3	15	0	0.80
292619--292667	24	2.0	24	84	11	64	73	0	0	26	0.83
293470--293559	14	6.1	15	71	13	62	41	3	1	54	1.24
293489--293559	20	3.5	21	77	9	67	40	4	1	53	1.29
293692--293734	18	2.5	17	79	17	52	34	2	2	60	1.22
293801--293843	14	3.2	13	83	9	50	69	0	2	27	1.00
293724--293830	52	2.1	51	86	8	146	54	0	0	44	1.06
294198--294275	32	2.6	28	73	19	77	43	1	2	52	1.23
294204--294265	32	1.9	32	90	0	97	40	1	1	56	1.19
294491--294528	20	1.9	20	89	10	60	39	7	7	44	1.63
295848--295886	19	2.2	18	86	9	53	28	0	0	71	0.86
295936--295967	3	11.0	3	93	6	57	34	0	0	65	0.93
295937--295965	14	2.1	14	100	0	58	34	0	0	65	0.93
300487--300513	12	2.2	12	100	0	54	66	0	0	33	0.92
300512--300588	38	2.0	37	82	9	93	54	1	0	44	1.08
300581--300638	13	4.9	12	72	23	52	60	1	1	36	1.17
300608--300660	23	2.2	24	83	9	65	66	1	1	30	1.13
300629--300680	27	2.0	26	88	3	77	59	5	3	30	1.39
300990--301089	11	8.8	12	70	21	58	48	0	0	52	1.00
301013--301062	19	2.7	19	77	22	54	46	0	0	54	1.00
301019--301096	21	3.6	21	80	14	79	47	0	0	52	1.00
302288--302335	21	2.3	21	82	7	53	37	10	16	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302520--302581	11	5.6	11	76	10	56	43	0	1	54	1.09
303574--303643	8	8.5	8	74	22	65	35	1	0	62	1.04
303574--303638	23	2.7	23	80	7	76	36	1	0	61	1.05
303575--303645	9	8.4	9	80	17	82	35	1	0	63	1.03
303577--303670	38	2.4	40	84	8	104	38	2	0	59	1.09
303961--303999	19	2.1	19	90	9	62	17	0	7	74	1.05
304328--304353	2	13.0	2	100	0	52	50	0	50	0	1.00
305171--305203	2	17.0	2	93	6	59	51	0	0	48	1.00
305687--305763	22	3.5	23	80	18	76	61	0	0	38	0.96
305711--305761	17	3.0	17	82	5	50	62	0	0	37	0.95
312427--312466	6	6.7	6	85	0	53	15	5	62	17	1.49
313899--313939	20	2.0	20	95	0	73	39	19	2	39	1.65
320475--320532	18	3.2	19	76	14	68	43	0	0	56	0.99
321064--321107	10	4.8	10	81	13	51	15	0	2	81	0.78
321070--321108	17	2.2	18	90	4	62	17	0	2	79	0.84
320999--321208	114	1.8	114	82	8	266	38	2	7	51	1.44
321363--321423	16	3.6	16	75	25	54	36	0	0	63	0.94
321342--321426	44	2.0	42	84	11	111	41	0	0	58	0.98
321355--321413	28	2.1	29	84	9	77	38	0	0	61	0.96
321363--321426	21	3.0	20	72	19	58	35	0	0	64	0.94
324349--324408	30	2.0	30	90	6	95	43	13	23	20	1.86
324663--324717	24	2.2	26	83	6	69	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324845--324889	22	2.1	22	88	8	67	57	0	0	42	0.98
325185--325234	17	3.0	18	77	16	54	38	0	4	58	1.17
325185--325242	22	2.5	22	78	10	55	39	0	3	56	1.16
325193--325248	27	2.1	27	83	6	69	39	0	1	58	1.08
325198--325306	40	2.7	39	75	14	98	44	0	0	54	1.12
325695--325721	11	2.5	11	100	0	54	62	0	0	37	0.95
325691--325730	14	3.0	14	79	20	50	60	0	0	40	0.97
325780--325822	22	2.0	23	86	9	63	34	0	0	65	0.93
325794--325846	15	3.5	15	71	5	52	43	1	0	54	1.11
325787--325835	22	2.2	22	79	13	57	38	0	0	61	0.96
325788--325833	23	2.0	22	84	12	58	36	0	0	63	0.95
325866--325895	13	2.3	13	94	0	51	56	0	0	43	0.99
325940--325978	17	2.3	17	86	8	53	51	2	0	46	1.14
329863--329909	2	23.5	2	100	0	94	48	0	0	51	1.00
331493--331560	27	2.5	26	75	17	66	38	0	1	60	1.06
332452--332478	2	13.5	2	100	0	54	51	0	0	48	1.00
332965--333014	16	3.3	16	78	13	52	68	0	0	32	0.90
333964--334261	163	1.8	165	80	6	363	45	8	5	41	1.55
335735--335776	21	2.0	21	90	9	68	59	0	0	40	0.97
335738--335822	37	2.4	34	73	11	82	58	0	0	41	0.98
336052--336076	2	12.5	2	100	0	50	0	48	0	52	1.00
338343--338367	13	1.9	13	100	0	50	40	0	4	56	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338641--338689	13	3.8	13	78	10	55	77	2	18	2	0.96
341617--341683	35	1.9	35	93	0	116	32	7	8	50	1.62
341693--341739	22	2.1	22	84	7	60	29	6	12	51	1.65
343744--343793	19	2.6	19	84	12	66	40	0	2	58	1.10
343746--343805	26	2.2	28	85	5	79	40	0	1	58	1.08
343980--344021	10	3.9	11	76	17	52	0	45	2	52	1.13
344469--344532	22	3.0	22	80	11	78	46	0	0	53	1.00
348775--348861	42	2.1	41	83	10	108	58	2	0	39	1.11
351156--351205	18	2.8	18	77	19	52	54	0	2	44	1.11
351138--351197	15	3.7	15	71	28	52	56	0	0	43	0.99

Tables:   1   2   3   4   5   6