genome.fa.s498.2.7.7.80.10.50.1000.6.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  6  of  17  ( 1953 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)
491426--491482	17	3.6	16	83	6	80	77	0	22	0	0.77
491986--492068	22	3.7	22	70	19	64	30	2	0	67	1.03
492266--492324	22	2.7	21	72	12	57	33	3	5	57	1.37
492512--492572	27	2.2	28	81	18	67	29	1	4	63	1.24
492895--492957	8	7.4	8	73	19	56	0	17	0	82	0.67
492894--492951	15	3.9	15	74	26	52	0	17	0	82	0.66
492905--492959	4	14.2	4	85	11	71	0	20	0	80	0.72
492905--492959	27	2.0	27	89	6	85	0	20	0	80	0.72
492905--492959	23	2.4	23	90	0	83	0	20	0	80	0.72
492893--492953	19	3.3	18	78	10	70	0	16	0	83	0.64
493318--493399	36	2.3	37	79	12	100	34	2	0	63	1.08
493334--493392	27	2.2	27	81	6	66	35	1	0	62	1.05
493821--493850	15	1.9	16	93	6	53	40	0	0	60	0.97
496892--496927	2	18.0	2	100	0	72	50	0	0	50	1.00
498735--499289	156	3.6	156	93	0	903	26	22	25	25	2.00
499433--499468	2	18.5	2	94	5	65	0	0	47	52	1.00
500259--500323	27	2.5	24	80	16	67	44	0	0	55	0.99
501162--501186	3	8.3	3	100	0	50	68	0	0	32	0.90
502840--502869	3	10.0	3	100	0	60	66	0	0	33	0.92
505575--505618	15	2.9	14	76	23	52	56	2	0	40	1.11
505580--505612	17	1.9	18	88	11	52	54	3	0	42	1.15
505890--505933	22	2.0	22	95	0	79	52	11	9	27	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506085--506113	2	14.5	2	100	0	58	0	48	0	51	1.00
507046--507136	5	18.2	5	72	14	55	35	2	1	61	1.15
507048--507136	36	2.4	39	81	11	114	35	2	1	60	1.16
507539--507576	16	2.4	17	86	8	53	23	13	15	47	1.81
507571--507619	16	3.1	15	82	11	62	18	18	30	32	1.95
507623--507659	17	2.1	18	90	5	58	13	16	35	35	1.88
508212--508329	56	2.1	56	84	7	152	47	22	15	15	1.82
508796--508825	16	1.9	15	93	6	51	26	16	3	53	1.59
512499--512585	45	1.9	45	81	4	104	44	0	0	55	0.99
512850--512890	21	2.0	21	85	0	55	43	0	4	51	1.23
513339--513425	35	2.4	36	79	14	90	32	1	4	62	1.23
513299--513425	37	3.5	37	78	11	99	32	0	3	62	1.19
513560--513599	12	3.5	12	83	10	57	25	0	2	72	0.97
513690--513751	4	14.8	4	77	9	61	77	0	20	1	0.85
513696--513761	8	7.9	8	83	9	69	78	0	19	1	0.82
513785--513865	38	2.2	37	82	10	94	35	0	0	64	0.94
514079--514104	9	2.9	9	100	0	52	88	0	11	0	0.52
514238--514287	12	4.2	12	76	7	57	24	2	4	70	1.15
514238--514281	23	1.9	23	85	0	61	22	2	4	70	1.17
514662--514698	15	2.5	14	87	12	56	83	0	16	0	0.64
515953--515984	4	7.8	4	96	3	55	78	0	0	21	0.76
516202--516265	25	2.5	26	80	10	69	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516252--516300	18	2.5	19	83	9	55	28	2	2	67	1.13
517359--517418	26	2.3	25	75	13	59	50	1	0	48	1.11
517415--517455	21	2.0	20	85	4	55	53	0	0	46	1.00
517834--517892	23	2.5	23	80	2	64	42	0	6	50	1.28
518027--518063	13	2.8	14	84	12	51	54	0	2	43	1.14
518510--518558	20	2.5	20	93	0	89	34	2	4	59	1.28
519343--519382	20	2.0	21	90	5	64	52	0	0	47	1.00
519370--519410	19	2.2	19	91	4	66	58	0	0	41	0.98
519760--519811	14	3.6	14	82	15	54	28	0	0	71	0.87
521496--521547	27	2.0	26	88	3	77	51	0	0	48	1.00
526825--526862	18	2.1	19	95	5	69	57	2	0	39	1.12
529260--529322	28	2.3	27	78	13	65	61	9	4	23	1.45
534223--534254	4	8.0	4	100	0	64	25	0	0	75	0.81
534601--534629	15	2.0	15	93	6	51	24	6	6	62	1.45
536889--536958	17	4.2	17	72	17	58	40	0	0	60	0.97
539087--539124	18	2.1	18	100	0	76	34	21	13	31	1.91
540345--540422	37	2.2	36	83	4	104	51	1	1	46	1.17
540336--540422	37	2.4	35	80	3	102	50	2	1	45	1.21
540640--540686	14	3.5	13	86	11	60	38	0	2	59	1.09
540696--540745	19	2.4	21	87	9	68	60	2	10	28	1.40
540840--540900	4	15.2	4	85	0	50	37	0	13	49	1.42
546747--546778	2	16.0	2	100	0	64	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)
548517--548555	3	13.0	3	100	0	78	33	0	0	66	0.92
549157--549189	10	3.4	10	83	8	50	60	0	0	39	0.97
549493--549566	24	3.2	22	73	16	62	54	0	0	45	1.00
553176--553200	13	1.9	13	100	0	50	48	0	0	52	1.00
553881--553912	3	10.7	3	100	0	64	65	0	0	34	0.93
555245--555313	19	3.7	18	73	17	61	33	0	2	63	1.09
555274--555317	19	2.2	20	88	4	63	34	0	0	65	0.93
555285--555329	22	2.0	24	82	8	58	31	0	2	66	1.04
555517--555547	16	1.9	16	93	0	53	61	0	9	29	1.28
555677--555717	14	2.7	15	85	14	57	56	0	0	43	0.99
556057--556103	23	2.0	23	87	0	67	25	0	2	72	0.96
556080--556137	10	5.9	10	73	15	50	34	0	1	63	1.04
556073--556108	16	2.2	17	90	5	56	25	0	0	75	0.81
556304--556335	14	2.2	15	94	5	57	71	0	0	28	0.86
557282--557329	18	2.9	16	79	11	60	33	0	4	62	1.14
557386--557412	13	2.1	13	100	0	54	44	0	0	55	0.99
557558--557590	10	3.0	11	91	8	50	66	0	0	33	0.92
557565--557643	26	3.0	27	75	5	72	60	0	2	36	1.10
557603--557676	34	2.2	33	85	7	96	56	1	1	40	1.16
559679--559740	27	2.2	27	83	13	72	43	0	0	56	0.99
559699--559765	16	4.1	17	75	24	56	46	0	0	53	1.00
559708--559775	32	2.1	33	86	2	93	47	1	1	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559708--559790	33	2.5	32	82	3	94	44	1	1	53	1.16
565476--565522	24	2.1	23	84	11	62	57	0	0	42	0.98
565484--565570	23	3.6	23	79	16	88	57	0	0	42	0.98
565490--565549	22	2.8	21	76	16	59	60	0	0	40	0.97
568152--568369	107	2.0	107	90	0	346	42	17	8	31	1.80
570096--570232	11	13.4	11	66	20	57	48	0	0	51	1.05
570186--570248	30	2.2	29	86	11	85	47	1	1	49	1.20
570653--570682	2	15.0	2	92	0	51	46	0	3	50	1.18
575362--575405	22	2.0	21	83	12	54	38	0	0	61	0.96
576401--576450	19	2.7	18	76	17	50	50	0	4	46	1.20
576465--576536	30	2.5	29	73	10	67	43	0	0	56	0.99
577175--577204	2	15.0	2	100	0	60	50	0	0	50	1.00
577496--577572	16	4.7	17	70	17	65	41	0	0	58	0.98
577521--577608	23	4.1	22	75	18	87	47	0	0	52	1.00
577563--577600	17	2.1	19	85	9	53	52	0	0	47	1.00
577767--577824	22	2.6	21	77	17	64	31	0	1	67	1.01
577777--577825	20	2.4	19	83	13	53	34	0	0	65	0.93
577811--577839	10	3.0	10	95	5	51	31	0	0	68	0.89
577856--577930	26	2.9	27	76	13	68	54	4	0	41	1.19
578124--578154	3	10.3	3	100	0	62	32	0	0	67	0.91
578789--578825	18	2.0	20	85	15	53	54	2	0	43	1.14
579126--579157	2	16.0	2	100	0	64	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)
579239--579285	14	3.3	14	72	16	51	34	4	0	61	1.15
579238--579288	15	3.5	15	69	15	52	35	3	0	60	1.15
580246--580286	19	2.2	19	86	8	57	63	9	7	19	1.48
587916--588103	99	1.9	100	80	11	226	44	3	6	45	1.46
588394--588440	10	4.5	10	82	17	60	44	0	0	55	0.99
588394--588452	23	2.6	23	97	0	109	45	0	0	54	0.99
588403--588446	13	3.6	13	82	17	67	43	0	0	56	0.99
588984--589033	14	3.3	16	76	18	54	52	0	0	48	1.00
589661--589712	24	2.2	24	86	6	70	30	0	1	67	1.02
590043--590085	13	3.2	13	83	9	50	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17