genome.fa.s175.2.7.7.80.10.50.1000.3.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: Scaffold175
Parameters: 2 7 7 80 10 50 1000
Length:  1254584

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 923 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)
347068--347154	26	3.3	26	68	17	79	26	27	20	25	1.99
347008--347495	177	2.9	169	80	11	598	26	25	20	27	1.99
347039--347487	55	8.0	55	85	8	505	27	25	20	26	1.99
347411--347495	28	3.1	28	64	20	70	27	23	21	28	1.99
348329--348414	19	4.8	18	73	21	74	36	12	16	34	1.87
348371--348428	13	4.0	13	74	23	53	34	15	15	34	1.89
348350--348427	32	2.4	32	95	0	138	34	14	16	34	1.89
348489--348531	20	2.1	21	95	4	79	32	23	11	32	1.90
350825--350997	51	3.4	49	76	4	148	28	27	13	30	1.94
350944--351093	76	1.9	79	86	4	216	26	24	15	33	1.95
351056--351126	28	2.5	29	90	6	119	22	28	22	26	1.99
351084--351382	79	3.8	79	78	5	320	27	23	15	34	1.94
353308--353346	20	2.0	20	94	0	69	28	12	10	48	1.74
358253--358279	14	1.9	14	100	0	54	18	7	0	74	1.05
358529--358558	2	15.0	2	92	0	51	50	3	0	46	1.18
358818--358846	2	14.5	2	100	0	58	48	0	0	51	1.00
360078--360112	2	17.5	2	87	0	52	51	2	0	45	1.16
362370--362415	23	2.0	23	100	0	92	26	17	17	39	1.91
363836--363886	20	2.7	18	85	11	75	3	37	0	58	1.16
364228--364462	118	2.0	117	92	0	389	31	14	25	28	1.94
365620--365683	33	1.9	33	83	0	83	40	14	18	26	1.89
367812--367954	42	3.3	42	74	15	137	46	11	23	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367833--367972	46	3.3	42	77	13	137	40	14	22	22	1.90
367806--367980	88	2.0	84	82	8	210	44	12	22	20	1.85
367945--368517	61	9.6	61	84	7	721	28	18	26	26	1.98
367945--368486	116	4.6	116	79	13	557	28	18	26	26	1.98
367951--368486	177	3.0	176	89	3	803	27	18	26	26	1.98
369487--369535	8	5.8	8	77	13	53	6	0	6	87	0.66
369480--369536	19	3.2	18	80	11	73	7	1	5	85	0.78
369480--369537	16	3.4	16	78	19	64	8	1	5	84	0.83
369486--369535	16	2.9	17	88	11	75	8	0	6	86	0.72
381907--382079	78	2.2	79	87	1	249	33	13	22	30	1.93
381907--382126	78	2.8	78	81	6	214	32	14	24	29	1.94
382109--382259	79	1.9	79	84	0	203	31	13	26	28	1.94
382196--382307	51	2.2	51	85	3	154	35	12	21	30	1.90
382318--382436	51	2.3	51	84	2	150	32	14	25	27	1.94
381982--382496	130	4.0	130	83	2	572	33	12	25	28	1.92
384867--384943	29	2.6	30	87	2	111	41	18	14	25	1.88
384933--384986	21	2.6	21	96	0	99	33	12	20	33	1.91
385474--385529	23	2.3	25	84	6	80	67	0	0	32	0.91
386760--386798	19	2.1	19	100	0	78	30	12	15	41	1.85
388347--388394	18	2.6	19	77	12	55	52	0	0	47	1.00
388454--388490	9	4.2	9	87	12	51	21	0	0	78	0.75
390107--390164	21	2.8	22	75	20	70	43	13	8	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395627--395653	14	1.9	14	100	0	54	40	29	22	7	1.81
396238--397213	485	2.0	485	98	0	1898	38	11	23	26	1.89
397533--397558	10	2.6	10	100	0	52	42	15	19	23	1.89
402718--402758	20	2.0	20	85	0	55	39	19	12	29	1.88
402818--402884	33	2.0	33	82	0	80	29	17	16	35	1.92
402931--403008	22	3.7	21	83	10	88	39	15	14	30	1.87
402951--403005	20	2.7	20	88	8	76	40	18	12	29	1.87
403134--403199	30	2.3	28	92	7	107	15	19	9	56	1.66
403131--403192	30	2.1	30	100	0	124	16	19	9	54	1.68
408225--408274	24	2.0	25	92	3	84	20	18	12	50	1.78
409181--409212	7	4.6	7	92	0	55	0	12	0	87	0.54
421043--421074	3	10.7	3	100	0	64	68	0	0	31	0.90
421238--421264	13	2.1	13	100	0	54	92	0	7	0	0.38
424246--424287	22	2.0	21	86	13	59	50	7	2	40	1.43
424227--424307	25	3.4	23	74	22	69	55	4	1	38	1.29
424268--424316	25	2.0	25	84	8	64	57	6	2	34	1.35
424226--424325	47	2.1	47	79	0	110	55	5	2	38	1.33
425468--425512	23	2.0	23	91	8	74	66	0	2	31	1.04
425468--425511	11	3.9	11	85	14	63	68	0	2	29	1.02
426112--426158	25	1.9	25	86	4	69	65	12	4	17	1.40
427564--427601	13	2.8	13	81	18	51	60	28	0	10	1.30
428943--428984	22	1.9	22	90	0	66	38	14	0	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429447--429733	96	3.0	97	75	2	274	30	22	8	38	1.84
430763--430814	26	2.0	26	100	0	104	42	34	3	19	1.69
437179--437208	12	2.5	12	100	0	60	56	0	26	16	1.40
437244--437275	2	16.0	2	100	0	64	50	0	0	50	1.00
438147--438201	2	28.0	2	96	3	103	50	0	0	49	1.00
442598--442622	13	1.9	13	100	0	50	32	16	16	36	1.90
442650--442718	22	3.2	22	87	4	97	26	23	10	40	1.86
442754--442813	22	2.8	22	80	12	79	28	30	8	33	1.86
444842--445002	84	1.9	84	79	5	182	54	3	16	26	1.57
448119--448143	13	1.9	13	100	0	50	32	16	16	36	1.90
448171--448222	22	2.5	20	87	6	68	25	25	9	40	1.85
449218--449243	2	13.0	2	100	0	52	50	0	0	50	1.00
449876--450198	106	2.9	110	75	13	338	44	9	7	38	1.65
450855--452404	520	3.0	517	88	3	2293	37	18	12	31	1.88
452604--452642	21	1.9	20	94	5	69	35	15	12	35	1.86
452701--452758	13	4.0	13	74	23	53	36	15	15	32	1.89
452796--452823	13	2.2	13	100	0	56	28	14	17	39	1.89
452776--452841	33	2.0	33	85	5	89	30	13	13	42	1.83
456614--456655	17	2.5	17	85	14	52	64	7	2	26	1.32
456836--456880	20	2.2	20	84	7	56	53	4	11	31	1.56
457209--457243	6	6.0	6	93	6	63	17	48	17	17	1.81
464710--464766	21	2.7	21	78	10	62	33	5	10	50	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464895--464928	3	11.3	3	93	0	59	29	2	0	67	1.05
465584--465642	22	2.5	23	75	8	57	32	0	5	62	1.17
466123--466168	16	2.9	16	87	3	67	50	0	2	47	1.13
474467--474538	32	2.2	32	82	0	90	29	16	22	31	1.96
474479--476217	28	61.6	28	84	3	1959	23	17	28	31	1.97
476217--476289	28	2.6	27	83	8	101	27	15	34	23	1.94
478283--478311	10	2.7	11	94	5	51	58	0	10	31	1.31
486516--486562	17	2.8	17	78	12	51	2	25	0	72	0.96
486914--486958	23	2.0	23	90	0	72	4	35	0	60	1.17
486916--486970	23	2.4	23	75	0	56	10	34	0	54	1.36
487976--488046	9	8.1	9	76	16	53	16	1	7	74	1.10
488003--488040	15	2.4	16	86	8	51	15	2	5	76	1.08
487976--488046	24	3.1	23	82	13	76	16	1	7	74	1.10
487991--488046	16	3.5	16	76	11	53	16	1	5	76	1.05
491271--491326	20	2.7	22	81	16	82	32	10	17	39	1.84
491271--491329	21	2.9	21	85	12	86	30	11	16	40	1.85
491376--491466	20	4.6	18	72	22	58	32	13	13	40	1.83
495005--495054	20	2.5	20	100	0	100	50	18	16	16	1.79
495914--496034	52	2.3	52	94	0	215	28	17	18	35	1.93
495914--496054	52	2.7	52	85	4	187	29	17	19	34	1.94
496043--496067	13	1.9	13	100	0	50	36	16	16	32	1.90
496130--496154	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496109--496174	32	2.0	33	88	2	98	39	13	12	34	1.82
497869--497904	18	2.0	18	100	0	72	38	11	0	50	1.38
499298--499324	13	2.1	13	100	0	54	29	14	14	40	1.86
499308--499365	19	3.1	18	85	9	80	34	15	15	34	1.89
499393--499461	33	2.1	33	86	5	95	33	13	17	36	1.88
503098--503332	78	3.0	78	99	0	461	33	14	18	34	1.91
503342--503401	26	2.3	26	97	0	111	51	15	8	25	1.70
507704--507744	21	1.9	21	85	5	55	36	9	34	19	1.85
507714--507787	22	3.4	21	85	5	94	37	4	31	27	1.75
507754--507822	33	2.1	33	97	0	129	46	2	30	20	1.65

Tables:   1   2   3   4   5   6   7   8