genome.fa.s328.2.7.7.80.10.50.1000.3.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: Scaffold328
Parameters: 2 7 7 80 10 50 1000
Length:  936272

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 607 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)
426203--428146	611	3.1	608	87	6	2464	31	17	25	25	1.97
427773--428154	49	7.7	54	80	10	244	33	17	23	25	1.96
427680--428154	199	2.5	197	84	6	607	32	17	24	25	1.97
427921--428154	49	5.1	43	81	12	270	32	18	23	25	1.97
428159--428413	32	7.9	32	88	3	361	19	18	32	29	1.96
428414--428886	34	14.7	33	76	14	395	33	13	32	20	1.91
428417--428887	67	7.3	67	79	13	408	33	13	32	20	1.91
428508--428886	160	2.4	162	84	7	465	34	13	31	20	1.91
428768--428852	29	3.0	28	84	8	118	27	15	36	21	1.93
428825--428894	34	2.0	36	88	5	108	37	12	31	18	1.89
430191--430261	33	2.2	32	87	7	99	1	0	15	83	0.73
435007--435076	27	2.6	27	100	0	140	12	20	44	22	1.85
437635--437703	32	2.1	33	91	2	113	36	11	15	36	1.84
437721--437786	35	1.9	35	93	3	116	34	16	10	37	1.83
437744--437768	13	1.9	13	100	0	50	32	16	12	40	1.84
437755--437905	52	2.9	52	88	2	203	35	17	17	30	1.93
441781--441928	76	1.9	76	93	0	251	35	20	12	31	1.90
445769--445810	12	3.5	12	86	0	57	88	0	4	7	0.64
445763--445814	17	3.1	17	86	2	70	86	0	3	9	0.69
445763--445814	21	2.4	21	90	3	77	86	0	3	9	0.69
446535--446586	21	2.3	24	81	12	58	36	1	1	59	1.19
447061--447094	13	2.6	13	80	0	50	61	2	0	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447033--447094	25	2.4	26	81	13	74	54	1	0	43	1.09
448147--448193	20	2.3	20	75	7	51	57	0	4	38	1.18
448579--448630	16	3.4	14	71	19	50	40	0	7	51	1.30
453763--453826	23	2.7	23	79	11	67	67	0	0	32	0.91
454117--454146	2	15.0	2	100	0	60	50	0	0	50	1.00
454463--454506	22	2.0	22	82	8	54	45	2	0	52	1.13
454628--454672	2	23.0	2	90	4	74	51	0	0	48	1.00
454810--454851	16	2.6	16	84	0	57	16	7	14	61	1.53
455811--455872	33	1.9	32	86	3	88	27	12	17	41	1.86
457550--457583	15	2.3	15	94	0	59	47	0	23	29	1.52
464025--464064	21	1.9	21	89	0	62	40	2	27	30	1.70
468372--468429	18	3.2	20	81	18	65	0	25	1	72	0.94
468568--468603	16	2.2	17	95	5	65	63	0	0	36	0.94
468568--468600	17	2.1	16	88	11	50	66	0	0	33	0.92
473475--473623	69	2.2	68	87	1	217	37	10	19	32	1.86
473574--473849	97	2.9	96	84	2	374	34	11	23	31	1.90
474856--474883	14	2.0	14	100	0	56	64	7	21	7	1.43
480070--480539	167	2.8	166	82	5	468	55	7	7	29	1.54
480130--480539	167	2.4	167	84	3	493	55	8	6	30	1.54
481593--481906	85	3.7	85	82	4	373	45	13	21	19	1.84
481611--481734	42	3.0	41	69	9	115	44	14	21	19	1.86
481593--481906	170	1.8	171	85	2	443	45	13	21	19	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481973--482177	47	4.4	47	79	1	180	41	13	22	21	1.88
481965--482174	94	2.2	93	80	0	231	42	13	22	21	1.88
482147--482343	35	5.8	35	76	10	165	42	10	23	23	1.84
482257--482315	29	2.0	29	93	6	102	44	10	23	22	1.83
489058--489097	11	3.6	11	89	0	62	0	20	0	80	0.72
490758--490795	18	2.1	19	95	5	69	68	5	5	21	1.29
494962--495005	21	2.1	21	83	4	54	43	13	13	29	1.83
497480--497782	79	3.8	78	76	5	194	31	26	10	31	1.90
497718--497837	52	2.3	52	86	2	170	30	27	9	33	1.88
497768--498074	80	3.8	80	78	10	322	31	26	9	32	1.88
497771--498058	160	1.8	159	82	6	377	31	26	7	33	1.85
497573--497986	213	1.9	212	82	4	503	32	26	9	32	1.88
497478--498076	292	2.1	290	81	7	685	31	26	9	32	1.89
498849--498898	6	8.2	6	85	10	57	46	2	2	50	1.24
499034--499076	3	14.3	3	100	0	86	65	0	0	34	0.93
499813--499858	23	2.0	23	91	8	76	52	0	0	47	1.00
500207--500241	12	2.8	12	86	4	52	57	0	8	34	1.29
500274--500312	16	2.4	17	83	8	55	61	0	0	38	0.96
504962--504993	2	16.0	2	100	0	64	50	0	0	50	1.00
506792--506840	16	3.2	16	78	16	50	59	8	6	26	1.50
507063--507139	10	7.7	10	72	12	52	55	1	2	40	1.22
507103--507176	15	4.4	19	68	26	67	64	0	1	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507111--507179	24	2.8	25	82	6	88	68	0	1	30	0.99
507113--507186	30	2.4	30	82	12	89	70	0	1	28	0.96
512508--512576	22	3.4	21	75	22	76	57	2	1	37	1.22
512508--512591	38	2.2	38	93	0	141	58	3	1	36	1.23
512519--512591	16	4.2	16	76	19	74	60	2	0	36	1.11
512534--512576	22	2.0	22	95	0	77	62	2	0	34	1.08
512508--512608	38	2.7	38	87	3	123	58	3	0	36	1.23
512561--512620	30	2.0	29	81	12	68	58	6	1	33	1.34
513345--513380	17	2.1	17	90	10	56	47	8	11	33	1.69
518174--518298	64	1.9	65	86	1	180	44	14	20	20	1.86
518272--518339	31	2.2	31	91	0	109	36	11	27	23	1.90
518151--518309	65	2.5	65	80	1	194	45	14	20	19	1.85
518430--518560	63	2.1	63	80	8	142	45	12	19	22	1.84
519867--520099	60	3.9	60	86	0	279	48	19	14	18	1.82
519901--519993	30	3.1	30	70	6	98	46	19	16	18	1.85
519867--520099	120	1.9	119	86	0	331	48	19	14	18	1.82
520413--520463	20	2.5	21	90	3	77	43	11	15	29	1.82
520428--520483	20	2.7	21	83	5	69	41	14	16	28	1.87
528418--528460	2	21.5	2	100	0	86	51	0	0	48	1.00
529986--530024	20	1.9	20	89	5	60	38	23	15	23	1.92
532064--532105	15	2.7	15	78	14	50	47	0	0	52	1.00
532529--532554	5	5.2	5	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535949--535993	23	1.9	24	86	4	65	42	0	4	53	1.21
536793--536827	17	2.1	17	88	0	52	45	11	14	28	1.79
537543--537584	19	2.3	19	87	4	59	52	2	0	45	1.13
537541--537598	25	2.4	24	82	8	64	53	3	0	43	1.17
537610--537661	27	1.9	27	84	0	68	34	3	0	61	1.14
537641--537722	33	2.5	33	82	6	94	42	2	1	53	1.21
537680--537729	24	2.1	24	84	0	64	48	0	2	50	1.12
543056--543087	14	2.3	14	94	0	55	46	3	0	50	1.17
552292--552323	16	2.0	16	93	0	55	53	6	34	6	1.51
552944--552975	13	2.5	13	94	0	55	31	15	12	40	1.85
553025--553091	33	2.0	33	85	5	91	34	10	19	35	1.86
553657--553730	20	3.7	20	81	3	103	35	13	20	31	1.91
553675--553750	21	3.7	21	82	3	109	40	11	18	28	1.86
553657--553750	41	2.3	41	100	0	188	38	12	19	29	1.89
553789--553814	13	2.0	13	100	0	52	38	15	15	30	1.88
557879--557909	15	2.1	15	93	0	53	48	16	22	12	1.80
559988--560026	13	3.0	13	96	0	69	30	17	15	35	1.91
562478--562551	20	3.7	20	81	3	103	35	13	20	31	1.91
562496--562571	21	3.7	21	82	3	109	40	11	18	28	1.86
562478--562571	41	2.3	41	100	0	188	38	12	19	29	1.89
562610--562635	13	2.0	13	100	0	52	38	15	15	30	1.88
564433--564505	33	2.2	32	79	15	78	50	1	8	39	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564569--564617	26	1.9	26	84	12	66	59	2	0	38	1.09
565067--565097	12	2.6	12	94	0	53	64	0	0	35	0.94
565173--565211	10	3.9	10	79	0	51	12	25	2	58	1.47
565174--565211	20	1.9	20	88	0	58	13	26	2	57	1.49
565738--565780	11	3.8	11	77	17	52	69	2	0	27	1.00
565739--565777	12	3.3	12	78	7	53	71	2	0	25	0.98
566436--566485	17	2.9	17	82	5	57	2	34	0	64	1.05
566636--566691	26	2.3	23	84	12	67	53	1	1	42	1.21
567361--567408	22	2.0	25	88	11	75	70	4	2	22	1.15
567364--567419	22	2.5	22	82	11	60	69	8	1	19	1.24

Tables:   1   2   3   4   5   6