genome.fa.s328.2.7.7.80.10.50.1000.2.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  2  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)
254814--254850	16	2.2	17	90	4	58	54	2	0	43	1.14
254841--254870	3	10.0	3	100	0	60	66	0	0	33	0.92
256412--256456	23	1.9	24	90	4	74	51	0	0	48	1.00
256420--256452	16	2.0	17	88	5	50	45	0	0	54	0.99
256893--256922	15	1.9	16	93	6	53	53	0	0	46	1.00
256948--256990	18	2.5	17	80	3	50	34	4	0	60	1.17
260766--261672	28	32.3	28	84	5	978	23	18	29	28	1.98
262919--262975	8	6.9	8	77	15	62	0	1	14	84	0.71
262922--262974	11	4.7	12	83	6	67	0	1	13	84	0.69
262920--262975	19	3.0	19	84	2	69	0	1	14	83	0.72
265439--265509	32	2.2	32	94	0	124	45	2	11	40	1.55
265780--265825	21	2.2	21	88	7	67	50	6	8	34	1.59
265922--265994	20	3.7	19	73	8	67	31	17	15	35	1.91
274033--274137	19	5.4	18	76	15	86	47	1	22	27	1.62
274033--274122	38	2.3	38	92	1	144	46	2	25	25	1.64
274799--274823	13	1.9	13	100	0	50	32	16	16	36	1.90
274891--274928	13	2.9	13	88	0	58	34	15	15	34	1.90
275035--275078	21	2.0	21	82	8	52	50	31	6	11	1.65
275824--275934	40	2.9	38	85	7	152	56	0	2	40	1.13
281665--281770	36	2.9	36	91	0	176	54	16	4	23	1.61
281770--282314	271	2.0	271	99	0	1081	41	17	9	31	1.82
286576--286600	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
287542--287591	22	2.3	23	83	13	61	56	0	0	44	0.99
287763--287834	33	2.1	35	85	10	96	51	1	0	47	1.09
288094--288119	2	13.0	2	100	0	52	0	50	0	50	1.00
288119--288148	2	15.0	2	100	0	60	50	0	0	50	1.00
288803--288892	34	2.6	34	96	0	162	24	20	14	41	1.89
289733--289798	34	1.9	34	87	6	98	27	18	10	43	1.82
291171--291219	22	2.2	22	85	7	64	24	22	14	38	1.91
298046--298140	29	3.4	27	73	12	77	37	0	2	60	1.09
306467--306619	78	2.0	78	94	0	270	30	18	9	41	1.82
308536--308570	2	17.5	2	100	0	70	48	0	0	51	1.00
315458--315503	18	2.5	19	79	13	51	43	0	2	54	1.12
319704--319768	19	3.8	18	71	24	68	32	10	16	40	1.84
319706--319776	32	2.2	32	94	0	124	32	11	18	38	1.86
319821--319845	13	1.9	13	100	0	50	32	16	16	36	1.90
319834--319982	52	2.9	51	85	7	201	34	18	17	29	1.94
323456--323556	53	1.9	53	87	4	150	22	14	24	37	1.92
324293--324338	16	2.9	16	86	0	56	13	8	28	50	1.70
325983--326218	80	3.0	77	76	8	217	32	11	28	28	1.91
328565--328619	20	2.8	20	100	0	110	43	10	12	32	1.78
328635--328708	20	3.7	20	75	8	60	36	10	18	33	1.86
328769--328822	20	2.7	20	88	2	81	33	14	11	40	1.82
329463--329601	32	4.3	32	74	3	109	38	15	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331041--331167	43	3.0	43	83	4	123	36	12	11	39	1.80
331084--331180	43	2.3	43	85	0	131	37	15	8	39	1.77
337396--337424	5	6.0	5	92	8	51	20	0	0	79	0.74
337732--337785	10	5.3	10	79	2	54	83	0	14	1	0.73
337728--337785	21	2.8	20	82	14	73	81	0	17	1	0.78
337737--337785	14	3.6	14	78	13	57	81	0	16	2	0.78
341307--341375	33	2.1	33	83	5	86	37	17	11	33	1.86
341425--341451	13	2.1	13	100	0	54	40	14	14	29	1.86
344607--344640	17	2.0	17	94	0	59	5	26	11	55	1.58
346371--346423	13	4.5	13	71	26	55	35	16	13	33	1.88
346371--346439	33	2.1	33	83	5	86	37	17	11	33	1.86
346468--346523	19	2.9	19	89	2	76	33	17	16	32	1.92
346508--346534	13	2.1	13	100	0	54	40	14	14	29	1.86
347058--347120	31	2.0	31	96	0	117	41	14	12	31	1.83
351837--351881	20	2.2	21	84	4	56	17	4	2	75	1.07
353133--353260	13	9.8	13	68	16	59	46	3	3	46	1.37
358621--358651	14	2.2	14	94	0	53	38	35	3	22	1.71
359202--359239	20	1.9	20	88	0	58	36	10	23	28	1.88
359296--359430	51	2.7	49	80	7	148	31	14	11	42	1.81
363010--363069	25	2.6	22	80	17	68	53	0	1	45	1.10
363010--363078	30	2.3	29	80	9	86	53	0	1	44	1.09
365856--365885	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367727--367751	1	25.0	1	100	0	50	0	0	0	100	0.00
370727--370778	15	3.4	15	76	10	52	32	1	0	65	1.04
370729--370789	18	3.6	18	74	19	51	31	3	0	65	1.09
370716--370787	31	2.2	33	82	7	85	31	2	2	62	1.24
372328--372387	24	2.6	23	76	7	68	46	0	0	53	1.00
373056--373088	17	1.9	17	93	0	57	48	0	0	51	1.00
374427--374461	17	2.1	17	88	0	52	60	5	0	34	1.21
374453--374519	31	2.1	32	86	8	93	65	1	0	32	1.02
376317--376341	7	3.6	7	100	0	50	0	28	28	44	1.55
377513--377569	23	2.5	23	97	0	105	61	10	10	17	1.56
378485--378559	20	3.8	20	76	0	69	40	10	13	36	1.79
378482--378559	40	2.0	39	84	2	102	39	11	12	35	1.80
379087--379971	32	29.2	32	90	4	922	18	17	34	30	1.94
381204--381246	5	8.8	5	89	2	61	0	0	11	88	0.52
381194--381248	15	3.4	15	85	10	65	1	1	10	85	0.75
393071--393095	7	3.6	7	100	0	50	0	28	28	44	1.55
394268--394320	23	2.3	23	96	0	97	64	9	9	16	1.49
395239--395313	20	3.8	20	76	0	69	40	10	13	36	1.79
395236--395313	40	2.0	39	84	2	102	39	11	12	35	1.80
395940--395992	24	2.2	24	80	16	65	50	0	0	49	1.00
397517--397559	16	2.8	15	79	6	50	41	2	2	53	1.26
397655--397685	3	10.3	3	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398688--398717	13	2.3	13	94	0	51	20	6	3	70	1.25
402287--402322	2	18.0	2	100	0	72	50	0	0	50	1.00
403644--403688	21	2.1	21	87	0	63	48	0	0	51	1.00
404771--404868	48	2.0	48	96	0	178	38	14	16	30	1.88
405337--405369	2	17.0	2	87	6	50	48	0	0	51	1.00
405644--405674	3	10.3	3	92	0	53	61	0	3	35	1.12
406540--406589	22	2.3	22	78	0	55	34	0	2	64	1.05
406979--407005	2	13.5	2	100	0	54	48	0	0	51	1.00
407565--407598	3	11.3	3	93	0	50	32	0	5	61	1.20
408212--408272	31	2.0	31	84	12	81	49	0	0	50	1.00
408889--409178	142	2.0	142	89	5	444	37	8	12	40	1.74
409214--409242	15	2.0	15	93	6	51	68	0	27	3	1.05
410484--410512	2	14.5	2	100	0	58	48	0	0	51	1.00
411218--411247	2	15.5	2	93	6	53	46	0	0	53	1.00
413098--413152	2	27.5	2	96	0	101	49	0	1	49	1.11
413718--413742	2	12.5	2	100	0	50	52	0	48	0	1.00
414763--414794	2	16.0	2	100	0	64	50	50	0	0	1.00
419614--419668	24	2.3	23	78	9	65	50	0	3	45	1.19
419615--419662	24	2.0	24	87	4	69	50	0	4	45	1.21
419648--419689	17	2.5	17	84	7	59	50	2	4	42	1.36
425070--425122	20	2.7	20	100	0	106	30	15	15	39	1.87
425090--425205	52	2.2	52	93	0	205	28	17	18	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425106--425225	52	2.3	52	88	2	179	30	16	19	33	1.94
425214--425238	13	1.9	13	100	0	50	36	16	16	32	1.90
425281--425378	19	5.8	18	71	28	90	36	17	12	33	1.87
425300--425356	13	3.9	13	76	24	60	33	17	14	35	1.90
425279--425376	32	3.0	32	96	1	178	35	17	12	34	1.87
426365--427862	43	32.0	43	75	15	1207	30	17	26	25	1.98
426260--428154	187	10.0	182	81	10	1583	31	17	25	25	1.97
426638--426705	21	3.2	21	62	25	52	26	14	30	27	1.95
427062--427129	21	3.2	21	62	25	52	26	17	30	25	1.97
427249--427316	21	3.2	21	63	19	50	29	17	27	25	1.97

Tables:   1   2   3   4   5   6