genome.fa.s502.2.7.7.80.10.50.1000.4.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: Scaffold502
Parameters: 2 7 7 80 10 50 1000
Length:  762056

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 619 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)
493041--493092	13	3.7	13	76	16	50	42	0	1	55	1.10
499904--499929	6	4.3	6	100	0	52	65	0	0	34	0.93
500388--500422	17	2.0	18	88	5	54	71	0	0	28	0.86
500993--501026	14	2.4	14	95	0	59	44	0	2	52	1.16
502059--502098	2	20.0	2	100	0	80	50	0	0	50	1.00
502429--502463	2	17.5	2	87	0	52	0	45	2	51	1.16
505079--505132	17	3.3	17	80	15	69	51	0	0	48	1.00
505102--505148	24	2.0	24	87	8	69	51	0	0	48	1.00
505099--505148	12	4.0	12	77	10	55	52	0	0	48	1.00
507285--507350	32	2.1	32	85	5	89	46	0	1	51	1.10
507338--507372	12	3.0	12	91	4	54	40	0	5	54	1.24
507429--507466	11	3.5	11	85	0	58	23	0	0	76	0.79
507502--507553	10	4.6	11	78	17	54	59	0	0	40	0.97
507464--507553	24	3.9	24	73	22	68	54	0	1	44	1.07
508176--508217	18	2.4	18	82	17	54	59	0	0	40	0.97
508181--508218	18	2.1	18	90	9	60	57	0	0	42	0.98
508175--508239	21	3.0	21	78	17	62	55	1	0	43	1.09
508730--508760	2	15.5	2	100	0	62	48	0	0	51	1.00
509646--509685	16	2.5	16	95	0	71	40	7	2	50	1.44
510531--510589	18	2.9	21	71	19	54	44	3	0	52	1.17
511839--511890	17	3.3	15	86	13	61	46	0	0	53	1.00
511843--511914	33	2.3	33	86	11	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512744--512769	13	2.0	13	100	0	52	61	0	0	38	0.96
514582--514642	29	2.1	28	82	11	70	40	1	3	54	1.27
514604--514642	14	2.7	14	81	18	53	38	2	5	53	1.37
519840--519878	2	19.5	2	100	0	78	48	0	0	51	1.00
520314--520355	17	2.4	18	84	11	61	71	2	0	26	0.98
520314--520359	6	8.0	6	83	9	60	69	2	0	28	1.00
520317--520359	11	3.8	11	90	3	59	69	2	0	27	1.00
520961--521006	23	2.0	23	83	8	58	58	0	0	41	0.98
523397--523442	18	2.5	19	86	10	60	50	2	0	47	1.13
523818--523844	13	2.1	13	100	0	54	37	0	0	62	0.95
523916--523953	15	2.4	17	86	8	53	52	2	0	44	1.14
525056--525131	39	2.0	36	85	12	100	44	1	1	52	1.17
525562--525597	17	2.1	17	94	0	63	58	0	11	30	1.33
527385--527420	15	2.3	16	90	4	56	50	2	0	47	1.15
529238--529268	14	2.2	14	94	0	53	35	0	0	64	0.94
532244--532280	18	2.1	18	100	0	74	27	24	16	32	1.96
532508--532555	25	1.9	25	83	8	62	52	12	12	22	1.73
533993--534040	20	2.3	21	82	10	62	66	2	0	31	1.03
534309--534371	23	2.7	23	85	7	74	52	7	1	38	1.40
535651--535690	19	2.0	20	90	9	64	50	0	0	50	1.00
536091--536126	6	6.0	6	90	9	56	36	0	0	63	0.94
543426--543458	17	1.9	17	93	0	57	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543709--543764	28	1.9	30	82	10	71	55	0	0	44	0.99
543957--544004	14	3.4	14	80	8	53	54	0	0	45	0.99
544110--544134	2	12.5	2	100	0	50	52	0	0	48	1.00
544425--544465	21	1.9	22	85	5	57	2	46	0	51	1.14
548182--548219	3	12.7	3	100	0	76	31	0	0	68	0.90
549622--549660	2	19.5	2	83	0	51	48	2	2	46	1.29
551812--551845	2	16.5	2	87	6	50	52	2	0	44	1.16
555181--555219	13	3.1	13	85	14	55	30	0	0	69	0.89
555181--555219	12	3.2	12	89	10	53	30	0	0	69	0.89
557933--557988	15	3.5	16	78	19	55	53	0	3	42	1.18
557943--557986	18	2.5	18	85	10	56	54	0	2	43	1.12
558301--558339	18	2.2	18	85	0	51	53	0	0	46	1.00
558299--558392	40	2.5	39	79	14	101	45	0	0	54	0.99
558371--558417	20	2.3	21	85	10	71	38	0	0	61	0.96
558376--558428	12	4.8	12	75	17	51	35	0	3	60	1.15
558481--558546	35	1.9	34	81	9	80	48	9	0	42	1.35
558965--559018	23	2.3	23	84	6	65	42	1	0	55	1.10
559698--559740	20	2.0	23	83	16	58	55	0	0	44	0.99
560254--560283	2	15.0	2	92	0	51	3	50	0	46	1.18
562521--562564	23	2.0	22	86	4	61	50	0	2	47	1.13
562520--562568	23	2.2	23	78	14	57	48	0	2	48	1.12
563332--563357	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564271--564332	27	2.2	30	83	13	78	40	1	1	56	1.19
567088--567135	17	3.1	17	77	22	61	56	0	0	43	0.99
567088--567140	15	3.6	15	76	18	58	54	0	0	45	0.99
567115--567174	15	3.7	16	74	14	52	46	0	0	53	1.00
567137--567205	33	2.3	29	75	22	70	40	1	1	56	1.17
567985--568141	41	3.8	41	86	1	199	31	15	12	40	1.85
567953--568132	82	2.2	82	82	5	213	30	15	11	42	1.83
570443--570508	2	35.0	2	73	11	59	50	0	1	48	1.10
570448--570531	15	5.4	16	71	13	59	48	0	1	50	1.08
570867--570928	31	2.0	31	83	0	79	37	0	1	61	1.06
571216--571265	23	2.2	22	82	7	55	48	2	0	50	1.12
571416--571498	10	8.0	10	70	20	55	53	1	1	44	1.16
571417--571478	31	1.9	32	90	6	99	53	1	1	43	1.20
571429--571502	20	3.5	21	83	10	89	52	1	0	45	1.09
571450--571558	20	5.7	19	70	20	59	55	0	0	44	0.99
571515--571558	11	3.9	11	79	5	52	63	0	0	36	0.95
571515--571575	29	2.1	28	82	14	72	63	0	1	34	1.04
571524--571571	18	2.7	18	84	9	62	68	0	2	29	1.01
576736--576796	33	1.9	32	83	12	81	50	1	0	47	1.10
577347--577402	19	2.9	19	84	7	60	57	0	3	39	1.16
577366--577447	11	7.7	11	70	20	50	59	1	1	37	1.13
578208--578243	2	18.5	2	94	5	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579692--579746	22	2.5	22	82	8	60	45	0	0	54	0.99
581163--581194	2	16.0	2	100	0	64	50	0	0	50	1.00
581311--581378	24	3.0	21	75	19	66	47	0	0	52	1.00
582324--582373	25	2.0	24	81	11	57	42	4	0	54	1.19
582790--582835	24	1.9	24	95	0	83	43	0	6	50	1.28
583507--583537	2	15.5	2	100	0	62	51	0	0	48	1.00
585993--586926	467	2.0	467	97	0	1769	32	17	23	26	1.96
588946--589023	27	2.9	26	77	5	84	24	7	21	46	1.77
590745--590844	28	3.5	28	72	12	69	33	5	3	59	1.34
591402--591435	11	3.1	11	91	0	50	26	0	0	73	0.83
595469--595510	2	21.0	2	95	0	75	50	0	2	47	1.14
595740--595777	9	4.2	9	83	10	51	57	2	0	39	1.12
596400--596426	2	13.5	2	100	0	54	51	0	0	48	1.00
597331--597405	38	2.0	38	89	0	114	46	0	4	49	1.20
597671--597724	25	2.2	25	87	12	76	46	0	0	53	1.00
599931--600005	36	2.1	36	83	14	93	53	1	0	45	1.08
600410--600450	18	2.3	19	91	8	68	41	0	0	58	0.98
600415--600459	18	2.3	19	88	11	65	40	0	0	60	0.97
602879--602944	9	7.2	9	72	16	55	62	0	0	37	0.96
602882--602938	29	2.0	29	89	0	87	61	0	0	38	0.96
602888--602975	25	3.6	24	71	18	65	54	1	1	43	1.15
602879--602943	20	3.6	18	78	10	60	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604450--604478	15	2.0	15	93	6	51	41	13	0	44	1.44
604731--604774	22	2.0	23	86	4	63	13	0	9	77	0.99
609415--609463	17	2.9	17	93	0	80	46	16	0	36	1.47
609934--609977	19	2.2	20	80	8	54	68	0	0	31	0.90
610530--610564	16	2.2	16	89	0	52	37	0	0	62	0.95
610635--610687	21	2.3	25	81	15	69	41	3	0	54	1.18
612309--612338	5	6.0	5	100	0	60	40	0	0	60	0.97
612402--612437	2	18.0	2	100	0	72	50	0	0	50	1.00
614044--614088	21	2.1	22	84	12	58	40	4	11	44	1.60
614909--614954	17	2.8	17	86	3	58	45	4	4	45	1.43

Tables:   1   2   3   4   5   6