genome.fa.s316.2.7.7.80.10.50.1000.4.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: Scaffold316
Parameters: 2 7 7 80 10 50 1000
Length:  597962

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 496 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)
465919--466084	31	5.5	30	74	20	111	40	0	0	58	1.02
465927--465978	16	3.4	15	74	10	52	36	0	0	63	0.95
465939--466071	32	4.2	31	73	18	89	40	0	0	58	1.03
465970--466083	14	7.6	15	68	20	53	42	0	0	57	1.05
467354--467397	23	1.9	23	86	9	63	56	0	2	40	1.11
467352--467403	23	2.3	23	76	6	61	53	0	1	44	1.11
467413--467475	21	3.1	21	70	20	62	58	0	0	41	0.98
467725--467795	16	4.4	16	78	8	74	45	12	14	28	1.81
467725--467810	32	2.7	33	80	5	86	45	16	13	24	1.84
468790--468895	53	2.0	53	81	3	124	33	26	16	22	1.96
468909--468961	16	3.3	16	81	5	63	41	26	16	15	1.88
471080--471139	19	3.1	19	73	21	61	60	5	0	35	1.19
471288--471318	16	1.9	16	93	0	53	64	0	0	35	0.94
473161--473194	17	2.0	17	88	0	50	52	11	5	29	1.61
473352--473408	23	2.5	23	97	0	105	40	10	21	28	1.86
478159--478202	20	2.2	20	88	8	63	22	9	6	61	1.50
480889--480928	2	20.0	2	100	0	80	50	0	0	50	1.00
482808--482846	20	2.1	19	85	9	53	28	0	0	71	0.86
483268--483311	22	2.0	23	82	13	56	45	4	4	45	1.44
485121--485167	17	3.1	15	75	24	53	42	0	0	57	0.98
485108--485167	32	1.9	31	86	10	86	43	1	0	55	1.10
485306--485335	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489241--489294	22	2.5	21	85	14	74	57	0	0	42	0.98
490163--490206	19	2.5	17	77	7	52	40	0	0	59	0.98
490129--490226	42	2.3	41	77	16	110	46	0	0	53	1.00
491227--491306	2	41.5	2	83	7	85	43	2	2	51	1.28
491682--491729	24	1.9	26	83	8	64	47	0	0	52	1.00
495797--495827	16	1.9	16	93	0	53	41	6	9	41	1.63
496948--497028	25	3.2	25	78	14	85	60	0	0	39	0.97
496942--496997	16	3.4	18	72	25	52	62	0	0	37	0.95
496935--496995	11	5.8	11	75	14	58	62	0	1	36	1.05
496950--497030	24	3.0	26	82	13	85	58	0	0	41	0.98
496975--497098	32	3.7	33	69	25	91	55	0	0	43	1.05
496991--497048	25	2.4	24	78	16	66	55	0	0	44	0.99
497035--497109	29	2.7	26	73	17	69	52	0	2	45	1.15
497836--497860	13	1.9	13	100	0	50	8	24	0	68	1.16
498525--498566	14	3.0	14	83	13	59	59	0	0	40	0.97
498565--498639	36	2.2	36	80	7	84	54	1	0	44	1.08
500737--500804	20	3.3	20	68	4	55	58	4	1	35	1.27
501888--501926	20	2.0	19	85	14	53	48	5	0	46	1.24
503601--503630	11	2.8	11	95	5	53	43	0	0	56	0.99
503592--503632	21	1.9	22	90	5	66	41	0	0	58	0.98
509660--509690	2	15.5	2	100	0	62	48	0	0	51	1.00
511460--511488	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512969--513002	3	11.3	3	87	0	50	0	0	58	41	0.98
524456--524490	3	11.7	3	100	0	70	0	31	34	34	1.58
530200--530272	22	3.3	22	73	11	60	43	0	4	52	1.20
530207--530288	21	4.0	20	75	10	67	41	0	3	54	1.18
530209--530289	37	2.2	36	82	10	94	40	0	3	55	1.17
530209--530304	37	2.6	37	79	11	90	42	0	3	54	1.16
533388--533414	2	13.5	2	100	0	54	48	0	0	51	1.00
536580--536614	2	17.5	2	100	0	70	51	0	0	48	1.00
536851--536899	17	2.8	17	79	14	55	57	0	0	42	0.99
536866--536910	21	2.1	21	87	0	63	55	0	0	44	0.99
539285--539328	22	2.0	22	100	0	88	40	4	9	45	1.56
539291--539339	22	2.3	22	89	3	73	44	4	10	40	1.57
539740--539783	22	2.1	21	87	8	63	38	18	0	43	1.50
540869--540900	2	16.0	2	100	0	64	50	0	0	50	1.00
541383--541434	14	3.6	14	87	7	61	50	11	0	38	1.39
546058--546136	31	2.5	31	95	4	142	49	0	0	50	1.00
546242--546298	22	2.5	22	82	8	69	59	0	5	35	1.20
546286--546406	8	14.1	8	70	22	61	57	2	0	39	1.12
546265--546402	28	4.8	29	72	22	112	58	2	0	39	1.10
546303--546361	17	3.5	17	70	25	54	54	3	0	42	1.17
546346--546406	9	7.1	8	79	17	61	60	1	0	37	1.07
546271--546410	9	16.0	9	68	21	52	57	2	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546505--546538	18	2.0	17	88	11	52	61	0	2	35	1.11
546557--546600	22	1.9	24	86	9	65	36	2	0	61	1.09
547297--547331	12	3.0	11	88	12	52	48	0	0	51	1.00
548261--548285	2	12.5	2	100	0	50	52	0	0	48	1.00
548669--548767	20	5.2	20	74	20	81	45	0	0	54	0.99
548674--548747	15	5.5	14	68	28	54	47	0	0	52	1.00
548678--548750	31	2.4	31	82	11	96	45	0	0	54	0.99
549290--549318	15	2.0	15	93	6	51	55	0	0	44	0.99
550049--550093	23	2.0	23	86	8	65	62	0	11	26	1.29
554578--554625	6	7.8	6	81	11	53	0	16	2	81	0.79
554575--554624	17	2.8	18	84	6	57	0	16	2	82	0.77
554547--554625	24	3.2	24	77	10	81	2	18	1	77	0.96
554576--554634	24	2.6	22	77	12	66	0	20	1	77	0.85
556154--556214	31	2.0	31	83	6	79	36	24	9	29	1.88
556269--556344	31	2.6	29	79	8	73	25	18	7	48	1.74
556739--557205	231	2.0	231	100	0	934	34	13	11	40	1.81
559310--559344	2	17.5	2	93	0	61	51	2	0	45	1.16
559724--559773	20	2.5	20	86	0	64	2	24	0	74	0.93
559907--559955	20	2.5	20	83	6	55	28	4	10	57	1.50
564151--564222	8	8.8	8	70	22	51	58	0	0	41	0.98
564173--564219	15	3.1	15	76	14	51	59	0	0	40	0.97
564175--564229	18	3.1	18	75	20	53	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564158--564232	25	3.0	26	75	16	77	57	0	0	42	0.98
564775--564816	20	2.1	20	86	8	59	52	0	0	47	1.00
567085--567121	19	1.9	20	88	5	58	0	21	13	64	1.27
568223--568269	2	23.5	2	91	0	76	53	0	0	46	1.00
569376--569409	16	2.1	16	88	0	50	52	0	0	47	1.00
570296--570343	17	2.8	17	81	12	62	39	0	0	60	0.97
570402--570457	29	2.0	26	83	10	67	42	19	5	32	1.74
570907--570945	19	2.0	20	85	5	53	41	0	0	58	0.98
571076--571119	5	8.6	5	90	5	70	2	0	40	56	1.11
571504--571543	19	2.2	18	86	4	53	42	0	0	57	0.98
571574--571613	15	2.8	14	88	7	62	62	0	0	37	0.95
571750--571807	18	3.1	20	69	23	54	58	0	0	41	0.98
573014--573064	27	1.9	26	84	4	66	47	0	0	52	1.00
573021--573082	31	2.0	30	84	9	81	45	0	1	53	1.10
573091--573149	22	2.8	21	85	10	84	35	3	0	61	1.13
573466--573533	30	2.3	29	80	10	75	61	0	1	36	1.05
573470--573511	11	3.4	12	87	12	59	61	0	0	38	0.96
573912--573953	22	1.9	22	90	9	68	59	0	4	35	1.19
573903--573961	22	2.6	23	73	7	59	52	0	3	44	1.17
574634--574670	2	18.5	2	94	0	65	48	0	2	48	1.15
575097--575136	2	21.0	2	85	10	57	50	2	0	47	1.14
575091--575136	10	4.4	11	83	13	53	50	4	0	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575223--575259	16	2.3	16	90	0	56	32	0	0	67	0.91
575220--575263	18	2.3	20	80	11	56	36	0	0	63	0.95
575957--576013	26	2.3	24	87	6	78	36	0	0	63	0.95
575957--576053	24	3.9	24	74	8	79	35	0	2	62	1.07
575957--576073	16	6.9	16	72	19	78	34	0	2	62	1.15
576119--576180	28	2.1	29	83	16	76	56	1	3	38	1.25
576470--576501	3	10.7	3	100	0	64	65	0	0	34	0.93
576753--576788	3	12.0	3	100	0	72	66	0	0	33	0.92
576791--576824	3	11.3	3	100	0	68	32	0	0	67	0.91
577347--577380	2	17.0	2	100	0	68	50	0	0	50	1.00

Tables:   1   2   3   4   5