genome.fa.s111.2.7.7.80.10.50.1000.3.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: Scaffold111
Parameters: 2 7 7 80 10 50 1000
Length:  1194829

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 716 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)
340120--340173	20	2.7	20	85	5	74	33	14	14	37	1.88
342750--342786	13	2.8	13	95	0	65	37	16	13	32	1.87
344149--344174	13	2.0	13	100	0	52	30	15	15	38	1.88
344159--344211	20	2.7	20	75	0	61	33	13	15	37	1.86
344026--344331	137	2.2	137	94	2	544	34	14	17	32	1.91
344286--344310	13	1.9	13	100	0	50	32	16	16	36	1.90
344266--344333	33	2.1	33	89	8	104	36	16	14	32	1.89
350423--350461	13	3.0	13	96	0	69	30	17	15	35	1.91
352861--353075	65	3.2	65	64	22	163	33	15	18	32	1.92
352824--353094	137	2.0	137	96	0	497	35	15	17	32	1.91
353064--353114	20	2.6	20	87	9	70	41	17	13	27	1.87
355914--355977	33	1.9	33	84	6	85	29	14	14	42	1.84
362669--362693	13	1.9	13	100	0	50	32	16	16	36	1.90
365676--365735	30	2.0	29	87	3	84	61	5	0	33	1.17
366260--366357	49	2.0	49	100	0	196	34	4	2	59	1.28
366677--366717	18	2.3	18	84	16	50	41	2	0	56	1.13
372893--373744	155	5.5	155	76	7	626	37	20	18	23	1.94
375248--375295	24	2.1	24	84	7	64	10	14	8	66	1.43
375456--375501	22	2.1	22	84	8	58	15	15	17	52	1.76
375986--376029	16	2.8	16	96	0	79	18	6	29	45	1.75
378381--378411	14	2.2	14	94	0	53	29	16	12	41	1.85
378701--378818	32	3.7	31	78	7	130	33	33	18	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378895--379178	104	2.7	104	85	4	378	22	22	16	39	1.92
378827--379178	52	6.8	52	74	8	281	23	23	16	36	1.94
379131--379298	61	2.8	60	78	7	151	23	25	15	35	1.94
379219--379346	61	2.1	61	79	5	134	21	25	15	37	1.93
386629--386658	13	2.3	13	100	0	60	46	10	23	20	1.80
388809--388833	13	1.9	13	100	0	50	36	16	16	32	1.90
388789--388855	33	2.0	33	88	0	98	34	11	13	40	1.81
388877--388954	21	3.7	21	100	0	156	33	21	10	34	1.87
388941--388965	13	1.9	13	100	0	50	32	16	16	36	1.90
388974--389098	52	2.4	52	97	0	232	36	17	17	28	1.93
394612--394636	13	1.9	13	100	0	50	36	16	16	32	1.90
394594--394656	33	1.9	32	87	12	92	34	14	17	33	1.90
400893--400987	31	3.0	31	83	8	138	29	31	18	20	1.96
400886--400985	32	3.2	31	83	9	139	27	31	19	23	1.98
402683--403191	155	3.3	154	81	4	544	38	19	17	24	1.93
405525--406126	167	3.6	163	81	5	706	51	8	12	26	1.68
407507--407852	84	4.1	84	83	0	370	33	15	31	20	1.93
407279--407598	169	1.9	167	79	8	362	40	14	26	18	1.89
407505--407852	168	2.1	167	84	2	457	33	14	31	20	1.93
407973--408164	84	2.3	84	79	2	188	32	16	27	23	1.96
408064--412296	43	100.2	42	68	11	641	32	18	27	21	1.97
408231--408473	127	1.9	128	79	5	278	29	17	28	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408343--408720	171	2.2	169	80	1	425	32	18	27	21	1.97
407972--411943	85	47.0	85	71	8	911	32	18	27	20	1.97
408058--409232	84	14.0	83	72	8	461	32	18	27	21	1.97
409536--410000	256	1.8	254	80	5	553	31	18	29	20	1.96
409538--410012	127	3.7	127	74	9	394	31	18	28	20	1.97
410001--410451	171	2.7	171	80	2	471	32	18	27	21	1.97
411267--411730	256	1.8	254	80	5	551	31	19	28	20	1.97
411267--412320	85	12.4	85	71	7	376	31	17	28	22	1.97
411516--412214	170	4.1	170	73	6	435	31	17	27	23	1.97
413268--413296	11	2.7	11	94	5	51	51	0	13	34	1.42
414972--415066	20	4.8	20	87	5	138	38	12	15	32	1.85
415996--416516	28	18.5	28	84	3	609	20	16	32	30	1.95
417765--417849	1	85.0	1	71	0	53	2	1	11	84	0.77
417775--417838	11	5.9	11	82	12	71	0	1	14	84	0.70
417765--417849	12	7.5	11	82	10	91	2	1	11	84	0.77
428002--428055	21	2.4	23	78	9	58	72	9	11	7	1.29
427991--428062	22	3.2	21	71	13	56	70	8	12	8	1.32
429322--429885	110	5.1	109	81	5	539	24	32	14	29	1.94
429355--429849	137	3.6	137	82	2	559	24	32	13	29	1.94
429781--430615	28	28.4	28	76	11	628	29	30	17	22	1.97
429404--430612	28	42.0	28	77	10	608	27	31	15	24	1.96
429781--430615	29	28.4	30	76	12	511	29	30	17	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429891--430597	232	3.0	226	79	11	606	30	30	16	22	1.96
429856--430615	147	5.1	146	78	11	576	30	30	17	22	1.96
429851--430653	57	13.5	61	74	14	469	30	30	17	22	1.96
430688--430933	48	5.2	48	87	1	318	21	29	15	33	1.95
431656--431709	20	2.7	20	94	0	90	31	16	9	42	1.80
431726--431763	20	1.9	20	100	0	76	31	18	10	39	1.85
431672--431794	54	2.3	52	93	4	203	28	17	11	42	1.84
431747--431823	31	2.5	31	97	0	145	22	16	12	48	1.80
432258--432311	21	2.6	21	96	0	99	24	33	0	42	1.55
434077--434309	95	2.5	95	91	0	376	26	30	14	28	1.95
436216--436253	9	4.2	9	100	0	76	13	13	21	52	1.73
438375--438451	31	2.5	31	85	4	102	45	11	16	25	1.82
439228--439391	89	1.9	87	83	5	213	46	12	17	22	1.82
439223--439445	89	2.5	88	75	9	204	45	13	18	22	1.84
440742--440805	18	3.6	18	73	14	53	6	15	4	73	1.20
440791--440840	6	8.8	6	86	6	52	0	10	4	86	0.71
444327--444625	155	1.9	155	81	2	359	39	21	17	21	1.93
444482--444826	154	2.2	153	79	5	363	39	22	15	22	1.92
447334--447376	20	2.2	20	83	8	52	65	2	16	16	1.38
447345--447376	10	3.2	10	100	0	64	62	0	18	18	1.33
447169--447763	170	3.5	168	81	7	650	51	7	13	27	1.68
451427--451463	16	2.3	16	90	0	56	32	5	13	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452429--452463	15	2.3	15	90	0	52	85	2	8	2	0.79
453017--453232	112	1.9	111	81	6	258	32	18	14	34	1.91
454144--454710	90	6.3	90	84	3	714	28	28	15	28	1.96
454144--454709	180	3.1	180	91	0	934	28	27	15	28	1.96
455014--455094	36	2.3	36	84	2	101	16	20	14	48	1.81
455056--455165	48	2.3	48	87	1	159	17	22	19	40	1.91
455179--455291	44	2.6	44	76	5	113	21	23	16	38	1.93
455369--455537	43	4.0	43	78	2	135	18	28	17	34	1.94
455472--455676	84	2.4	84	80	6	200	16	27	18	37	1.92
455420--456090	42	16.0	42	69	6	171	17	29	17	35	1.93
456231--456328	42	2.3	42	84	5	117	24	29	13	32	1.93
456543--456964	84	5.0	85	71	5	320	17	23	13	45	1.84
456543--457039	168	3.0	166	81	4	561	18	22	13	45	1.85
456573--457086	84	6.1	84	70	6	292	18	21	13	45	1.84
458776--458804	11	2.6	11	100	0	58	58	17	0	24	1.38
460802--460880	21	3.8	21	74	5	61	35	5	7	51	1.52
460964--461003	21	1.9	21	89	0	62	35	0	10	55	1.34
461846--461871	13	2.0	13	100	0	52	30	15	15	38	1.88
461910--461985	21	3.7	21	80	3	100	28	17	11	42	1.84
461931--462003	20	3.6	20	81	3	101	31	19	13	35	1.91
461910--462003	41	2.3	41	98	0	179	29	18	12	39	1.88
464442--464480	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464466--464544	20	3.7	20	75	18	70	45	15	13	25	1.83
466561--466591	15	2.1	15	93	0	53	12	22	16	48	1.80
470654--470679	13	2.0	13	100	0	52	30	15	15	38	1.88
470718--470793	21	3.7	21	80	3	100	28	17	11	42	1.84
470739--470811	20	3.6	20	81	3	101	31	19	13	35	1.91
470718--470811	41	2.3	41	98	0	179	29	18	12	39	1.88
471778--471822	21	2.2	20	92	4	72	35	0	6	57	1.25
471813--471862	23	2.2	22	79	10	55	36	8	10	46	1.67
471820--471865	23	2.0	23	91	0	74	34	8	8	47	1.65
472052--472122	21	3.4	21	84	1	81	32	8	9	49	1.66

Tables:   1   2   3   4   5   6