genome.fa.s229.2.7.7.80.10.50.1000.4.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: Scaffold229
Parameters: 2 7 7 80 10 50 1000
Length:  643502

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 535 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)
415479--415520	22	1.9	22	90	9	68	59	0	2	38	1.10
415489--415546	11	5.2	11	75	8	55	62	0	1	36	1.06
416756--416810	25	2.2	25	96	0	101	47	14	12	25	1.80
431140--431197	21	2.8	20	79	7	62	60	1	5	32	1.29
432421--432457	8	4.2	9	87	12	51	70	0	0	29	0.88
432516--432554	18	2.0	20	90	9	64	66	0	0	33	0.92
432702--432733	17	1.9	16	93	6	55	34	3	0	62	1.11
434899--434933	13	2.6	13	86	4	52	31	0	0	68	0.90
434987--435056	32	2.1	33	84	10	88	45	0	0	54	0.99
436672--436789	33	3.5	33	86	2	173	42	26	6	24	1.79
441197--441312	33	3.5	33	85	2	169	42	26	6	24	1.79
443643--443710	36	1.9	34	82	5	82	58	13	22	5	1.56
443952--443997	13	3.7	13	74	11	51	50	15	34	0	1.44
443949--444007	24	2.5	24	85	0	82	47	16	35	0	1.47
453163--453239	15	5.3	15	80	9	79	45	33	20	0	1.52
453163--453236	12	6.4	12	80	9	64	45	33	20	0	1.51
453175--453244	3	23.3	3	79	0	68	41	34	24	0	1.55
453178--453242	6	10.8	6	84	0	76	43	33	23	0	1.54
453178--453244	12	5.6	12	89	0	89	41	34	23	0	1.55
464007--464042	14	2.6	14	86	0	54	61	2	0	36	1.11
465849--465898	25	2.0	26	84	7	68	48	0	0	52	1.00
467124--467151	6	4.7	6	100	0	56	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)
471748--471861	16	7.2	16	78	7	90	14	14	28	42	1.86
471754--471863	47	2.3	48	82	6	143	15	14	27	42	1.86
475430--475459	2	15.0	2	92	0	51	46	0	3	50	1.18
475662--475725	21	3.0	20	71	13	56	50	0	0	50	1.00
475640--475725	43	2.0	43	82	13	106	52	0	0	47	1.00
477326--477364	20	2.0	20	94	0	69	61	2	0	35	1.10
477565--477608	19	2.3	19	96	0	79	43	11	0	45	1.40
477827--477874	14	3.4	14	77	11	53	39	4	0	56	1.19
479689--479735	18	2.6	18	82	0	67	34	0	0	65	0.93
481312--481345	16	2.1	16	100	0	68	20	17	23	38	1.93
482048--482095	25	2.0	24	87	4	69	47	12	0	39	1.41
482656--482685	16	1.9	16	93	6	53	36	0	0	63	0.95
485158--485193	2	18.0	2	94	0	63	47	0	2	50	1.15
486919--486954	2	18.0	2	100	0	72	50	0	0	50	1.00
487867--487909	5	8.2	5	80	10	50	65	0	0	34	0.93
487867--487922	27	2.0	29	83	13	73	62	0	0	37	0.95
487873--487977	40	2.7	39	77	5	97	53	0	0	45	1.06
487907--487965	16	3.6	17	73	15	61	49	0	0	50	1.00
487904--487966	10	6.4	10	71	21	53	49	0	0	50	1.00
487894--487967	22	3.7	21	76	18	70	50	0	0	50	1.00
487975--488132	78	2.0	78	100	0	316	47	7	6	38	1.57
488496--488543	25	2.0	25	87	4	71	50	10	0	39	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494772--494817	8	5.5	8	80	10	56	82	2	2	13	0.85
495682--495709	14	2.0	14	100	0	56	35	0	0	64	0.94
496836--496869	17	2.1	17	88	5	52	50	0	2	47	1.16
496942--497072	69	1.9	69	90	3	210	31	17	19	31	1.95
497435--497508	36	2.1	36	100	0	148	51	8	5	35	1.55
497807--497855	24	2.0	23	81	14	55	46	0	0	53	1.00
503533--503557	2	12.5	2	100	0	50	0	0	48	52	1.00
504520--504568	19	2.6	19	86	0	71	46	10	8	34	1.67
504533--504575	19	2.3	19	87	0	59	48	9	9	32	1.67
504733--504759	2	13.5	2	100	0	54	51	0	48	0	1.00
505791--505835	21	2.0	23	87	8	67	46	0	2	51	1.13
505797--505841	23	2.0	21	83	8	54	48	0	0	51	1.00
506617--506657	22	1.9	21	90	5	64	17	4	17	60	1.52
507014--507061	19	2.6	18	80	9	51	43	0	2	54	1.12
508277--508319	20	2.1	20	91	4	68	46	4	2	46	1.36
509793--509865	25	3.2	25	64	28	70	58	10	5	24	1.53
509775--509865	44	2.1	44	100	0	182	58	9	6	25	1.54
510155--510200	24	1.9	24	86	0	65	39	0	2	58	1.10
510580--510609	2	15.0	2	100	0	60	50	0	0	50	1.00
511067--511122	24	2.3	25	81	6	69	48	0	1	50	1.11
511564--511603	19	2.2	18	86	4	53	42	0	2	55	1.13
511584--511637	22	2.4	22	81	9	56	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514438--514500	28	2.3	27	84	10	76	47	7	1	42	1.42
515518--515550	2	16.5	2	100	0	66	51	0	0	48	1.00
515761--515810	2	26.0	2	88	8	77	48	0	0	52	1.00
516066--516101	2	18.0	2	100	0	72	50	0	0	50	1.00
521404--521468	18	3.7	17	78	17	62	61	1	0	36	1.05
521422--521504	7	10.2	8	70	22	50	61	2	0	36	1.09
521404--521474	19	3.7	19	75	19	58	61	1	0	36	1.05
521340--521466	25	4.8	25	71	18	80	57	4	0	37	1.25
521422--521483	18	3.5	18	82	8	74	61	1	0	37	1.06
522284--522317	14	2.4	14	90	0	50	55	0	2	41	1.15
522356--522384	2	14.5	2	100	0	58	48	0	0	51	1.00
526295--526336	14	2.9	15	82	6	52	52	2	4	40	1.35
526710--526750	21	2.0	20	85	4	55	21	0	4	73	1.02
527810--527901	33	2.8	32	81	5	94	47	2	0	50	1.13
528805--528831	2	13.5	2	100	0	54	48	0	0	51	1.00
528901--528929	13	2.1	14	93	6	51	58	0	0	41	0.98
529026--529064	20	1.9	21	84	5	53	56	0	2	41	1.13
529068--529121	17	3.2	16	78	19	65	48	0	0	51	1.00
530685--530765	21	4.0	20	74	17	69	43	0	0	56	0.99
531267--531305	5	7.4	5	83	11	51	35	0	0	64	0.94
531172--531308	17	8.4	17	64	20	60	39	3	0	56	1.22
531267--531323	29	2.0	28	87	12	82	33	1	0	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531431--531462	17	1.9	16	93	6	55	43	0	3	53	1.16
531429--531486	13	4.2	13	76	18	55	41	0	1	56	1.09
533930--533980	26	1.9	27	88	4	77	43	1	0	54	1.11
533963--533997	13	2.6	13	95	4	61	54	0	0	45	0.99
537079--537143	19	2.9	22	73	21	55	47	0	1	50	1.10
537097--537140	19	2.2	20	80	11	56	50	0	2	47	1.13
537422--537460	2	20.5	2	89	10	64	48	0	0	51	1.00
537422--537470	23	2.1	23	84	0	62	44	2	4	48	1.33
538467--538510	17	2.7	16	79	6	61	31	4	0	63	1.14
540675--540741	5	13.2	5	75	16	50	40	1	2	55	1.24
540672--540766	37	2.6	37	81	8	106	42	1	2	54	1.19
541023--541062	16	2.6	15	76	7	53	47	2	2	47	1.29
541467--541505	20	1.9	21	84	5	53	48	2	0	48	1.15
541545--541591	16	3.0	16	75	3	51	46	0	0	53	1.00
541925--541965	2	20.5	2	100	0	82	0	51	0	48	1.00
544963--545018	27	2.2	27	84	9	73	51	5	0	42	1.24
545120--545248	65	2.0	65	89	0	195	21	24	14	39	1.91
549331--549392	8	7.8	8	72	0	52	37	0	11	51	1.38
549327--549389	6	10.5	6	91	0	90	34	0	12	52	1.40
550494--550555	35	1.9	34	84	15	87	58	1	0	40	1.08
550737--550768	2	16.0	2	100	0	64	50	0	0	50	1.00
557054--557137	40	2.1	41	97	2	161	46	25	11	16	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560422--560541	40	3.0	40	80	10	129	42	0	2	55	1.13
560472--560532	20	3.0	20	74	11	63	37	0	3	59	1.14
560481--560543	20	3.2	20	74	17	67	38	0	1	60	1.07
560526--560605	25	3.1	24	75	10	70	45	0	0	55	0.99
561043--561097	25	2.2	25	86	3	74	54	1	3	40	1.28
561043--561105	26	2.4	26	86	5	83	52	1	3	42	1.27
561097--561144	24	2.0	25	83	4	62	35	0	0	64	0.94
573710--573736	14	1.9	14	100	0	54	29	0	0	70	0.88
574146--574195	18	2.9	17	80	16	50	46	0	2	52	1.12
574144--574189	23	2.0	23	82	0	56	47	0	2	50	1.13

Tables:   1   2   3   4   5