genome.fa.s112.2.7.7.80.10.50.1000.5.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: Scaffold112
Parameters: 2 7 7 80 10 50 1000
Length:  1714866

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1240 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)
513791--513832	16	2.6	16	96	0	75	45	0	0	54	0.99
515539--515589	23	2.2	23	92	0	84	31	3	5	58	1.40
516682--516725	19	2.3	19	76	11	54	52	0	0	47	1.00
516671--516729	22	2.6	23	83	8	75	49	0	0	50	1.00
516901--516964	32	2.0	32	82	11	78	46	0	1	51	1.10
517590--517629	19	2.0	20	86	13	57	72	2	17	7	1.19
518650--518676	2	13.5	2	100	0	54	48	0	0	51	1.00
519925--520016	45	2.0	45	91	0	148	28	23	23	23	2.00
520002--520089	45	2.0	45	93	0	149	32	27	20	19	1.97
520175--520232	24	2.4	24	91	2	89	20	17	3	58	1.53
520179--520244	12	5.4	12	83	5	80	21	15	3	60	1.48
520538--520576	15	2.5	15	88	12	53	38	0	0	61	0.96
520976--521040	33	2.0	33	90	0	103	47	12	18	21	1.81
522154--522182	14	2.0	15	93	6	51	34	6	6	51	1.55
522190--522248	16	3.4	16	72	17	55	37	0	3	59	1.14
522193--522264	36	2.0	35	81	7	83	45	0	2	51	1.15
522537--522564	3	9.3	3	100	0	56	0	32	0	67	0.91
525371--525416	16	3.1	16	77	22	55	43	0	0	56	0.99
525908--525954	23	2.0	23	95	0	85	34	23	14	27	1.94
531069--531110	22	1.9	22	90	9	68	38	0	0	61	0.96
531528--531620	18	4.9	18	70	22	57	45	0	1	53	1.07
536658--536732	10	7.5	10	73	23	61	32	1	0	66	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536676--536723	5	9.4	5	78	13	53	31	0	0	68	0.90
536674--536723	17	2.8	18	83	16	68	30	0	0	70	0.88
536681--536708	12	2.3	12	100	0	56	32	0	0	67	0.91
536664--536725	19	3.2	20	80	19	78	29	0	0	70	0.87
537208--537280	25	2.9	26	72	13	73	53	0	0	46	1.00
537612--537645	16	2.2	16	89	5	52	41	2	2	52	1.31
548197--548352	50	3.1	50	79	1	170	33	16	14	34	1.90
548418--548484	34	2.0	33	82	8	82	50	0	1	47	1.10
548468--548502	16	2.2	16	90	10	54	48	0	0	51	1.00
548851--548897	23	2.0	23	83	8	58	48	8	2	40	1.45
559212--559261	20	2.5	20	93	0	82	10	38	10	42	1.72
560652--560699	20	2.4	21	80	16	57	45	0	2	52	1.12
560971--561114	11	13.5	11	68	24	55	37	0	0	61	1.06
560995--561058	20	3.7	20	66	33	65	43	0	0	56	0.99
561000--561061	31	2.0	32	93	3	108	40	0	0	59	0.97
561002--561051	14	3.4	14	74	15	55	44	0	0	56	0.99
561015--561092	39	2.0	39	82	5	95	35	0	1	62	1.03
561031--561117	20	4.3	20	78	11	88	34	0	1	64	1.01
561041--561105	10	6.7	9	75	16	58	30	0	1	67	1.00
561052--561116	31	2.0	33	88	5	98	30	0	1	67	1.00
561055--561117	11	5.9	11	83	10	78	31	0	1	66	1.01
562979--563097	60	2.0	61	93	1	204	42	15	20	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565807--565861	28	1.9	28	82	10	67	54	0	0	45	0.99
565830--565875	23	2.0	22	84	12	58	60	0	0	39	0.97
567029--567079	20	2.6	19	84	9	66	43	0	0	56	0.99
568677--568738	30	2.0	32	84	9	85	45	1	1	51	1.20
568772--568843	25	2.8	26	76	15	69	52	1	1	44	1.18
569924--569979	16	3.4	16	69	11	51	28	5	10	55	1.56
569989--570183	104	1.9	103	81	3	239	45	10	4	38	1.60
572569--572626	21	2.7	21	81	2	62	60	0	0	39	0.97
574857--574939	2	41.5	2	100	0	166	0	49	0	50	1.00
574939--574980	2	21.0	2	100	0	84	50	0	0	50	1.00
576173--576200	13	2.2	13	100	0	56	78	0	7	14	0.95
577530--577592	28	2.2	29	82	5	74	42	0	0	57	0.99
577561--577599	20	2.0	20	85	10	53	46	0	0	53	1.00
581698--581736	9	3.9	10	83	10	53	35	2	0	61	1.10
581698--581741	19	2.3	19	80	7	54	40	2	0	56	1.11
582252--582301	27	1.9	25	84	8	64	52	0	0	48	1.00
582962--583008	24	2.0	24	84	8	62	46	0	0	53	1.00
582971--583024	21	2.4	24	79	20	71	48	0	0	51	1.00
582961--583026	22	3.0	22	75	18	66	48	0	0	51	1.00
584276--584335	29	2.2	27	82	8	68	45	1	1	51	1.21
584630--584677	23	2.1	23	88	0	69	43	0	0	56	0.99
584870--584923	26	2.1	27	82	6	67	51	1	1	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585126--585163	17	2.2	18	85	4	51	73	0	0	26	0.83
586595--586630	17	2.1	18	89	5	56	55	0	5	38	1.23
587833--587885	18	2.8	18	78	15	63	49	0	0	50	1.00
587829--587888	20	3.0	21	85	11	81	48	0	0	51	1.00
591271--591316	19	2.3	21	74	11	51	50	0	4	45	1.21
591763--591800	16	2.3	17	86	4	51	31	0	0	68	0.90
591766--591816	26	1.9	27	88	4	77	33	0	0	66	0.92
591775--591833	18	3.1	19	83	14	68	33	1	0	64	1.04
591792--591841	18	2.7	19	87	6	59	38	4	0	58	1.17
592305--592483	8	20.6	9	63	27	50	40	1	0	58	1.06
592406--592440	14	2.4	14	90	4	52	51	0	0	48	1.00
592441--592502	5	12.8	5	80	16	69	37	0	0	62	0.95
592443--592511	30	2.3	31	85	7	97	37	0	0	62	0.96
592319--592511	64	3.1	64	68	16	143	40	0	0	59	1.02
592438--592505	15	4.3	16	78	14	79	35	0	0	64	0.94
592748--592803	18	3.1	18	75	10	60	42	0	0	57	0.99
593886--593939	17	3.4	17	69	23	53	61	12	0	25	1.32
593892--593952	31	2.0	31	100	0	122	62	11	0	26	1.29
593899--593951	17	3.3	17	69	15	58	64	9	0	26	1.24
594266--594329	23	2.8	23	74	9	76	60	0	0	39	0.97
596226--596268	21	2.0	21	86	4	59	39	0	0	60	0.97
596632--596693	33	1.9	32	83	9	81	35	1	1	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600613--600778	11	15.2	11	65	20	64	39	0	0	60	1.01
600660--600698	16	2.5	16	87	4	53	48	0	0	51	1.00
600737--600790	19	2.7	21	81	16	62	29	0	1	68	1.00
600671--600790	20	6.2	19	71	18	79	38	0	0	60	1.02
600718--600790	6	12.8	6	68	21	50	34	0	1	64	1.02
601410--601443	3	11.3	3	100	0	68	0	32	35	32	1.58
606212--606283	17	3.7	19	70	20	60	48	0	0	51	1.00
606737--606777	19	2.2	19	86	4	57	46	0	2	51	1.14
607042--607121	41	1.9	43	82	14	105	55	0	2	42	1.13
608141--608178	18	2.1	19	90	5	60	47	0	0	52	1.00
609091--609165	9	9.4	8	74	25	70	37	1	1	60	1.14
609084--609156	25	2.9	25	80	11	87	36	1	2	58	1.21
609088--609170	16	5.2	16	78	16	84	39	1	1	57	1.14
609157--609197	15	2.7	15	80	3	55	48	2	2	46	1.28
609324--609366	16	2.6	16	85	3	50	41	0	4	53	1.21
609801--609837	15	2.4	16	82	13	51	56	0	0	43	0.99
609808--609837	14	2.1	15	93	6	53	56	0	0	43	0.99
610768--610809	20	2.2	19	91	4	66	28	2	0	69	1.01
611116--611156	18	2.3	18	87	8	57	39	0	0	60	0.96
611377--611418	21	2.0	21	85	4	57	54	0	4	40	1.21
611564--611641	24	3.1	25	72	20	72	43	2	0	53	1.14
611583--611657	32	2.3	31	81	11	78	44	2	0	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611655--611680	2	13.0	2	100	0	52	50	0	0	50	1.00
612071--612101	2	15.5	2	100	0	62	0	48	0	51	1.00
623047--623161	56	2.1	56	94	0	203	49	18	11	20	1.78
623824--623878	25	2.2	25	78	12	60	58	0	0	41	0.98
626496--626537	15	2.8	16	82	10	52	47	2	2	47	1.28
626557--626609	17	3.2	16	82	12	63	41	0	3	54	1.18
626802--626851	23	2.3	21	82	6	55	52	4	0	44	1.20
626821--626867	21	2.1	23	88	7	71	57	0	0	42	0.98
626820--626879	27	2.3	26	85	5	84	53	3	0	43	1.17
627679--627720	19	2.2	20	83	12	52	52	2	2	42	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11