genome.fa.s64.2.7.7.80.10.50.1000.2.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  2  of  45  ( 5312 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)
179638--179692	28	1.9	29	85	10	78	60	0	0	40	0.97
179654--179700	13	3.5	13	80	11	51	63	0	0	36	0.94
179677--179714	18	2.1	18	85	9	51	68	5	0	26	1.11
181141--181171	5	6.4	5	92	7	55	80	0	19	0	0.71
181141--181181	15	2.9	14	89	10	57	82	0	14	2	0.76
181141--181179	10	4.0	9	93	6	51	82	0	15	2	0.79
181343--181385	22	1.9	23	81	13	54	72	6	20	0	1.08
183618--183648	15	2.1	15	100	0	62	12	19	9	58	1.62
190503--190540	2	19.0	2	100	0	76	0	50	0	50	1.00
192555--192608	22	2.4	22	75	9	56	57	0	0	42	0.98
195332--195366	15	2.3	15	90	0	52	0	45	14	40	1.45
196613--196648	2	18.0	2	100	0	72	50	0	0	50	1.00
197320--197359	19	2.1	19	86	9	55	75	5	2	17	1.10
199129--199176	23	2.2	23	85	7	64	35	0	0	64	0.94
200635--200694	30	2.0	30	93	0	102	40	23	25	11	1.88
200717--200785	30	2.3	30	80	5	77	37	23	26	13	1.91
200779--200858	36	2.2	36	84	4	99	32	20	32	15	1.93
200776--200970	104	1.9	105	85	1	275	35	24	26	13	1.92
201900--201948	2	24.5	2	100	0	98	51	0	48	0	1.00
210703--210738	6	6.0	6	100	0	72	0	16	0	83	0.65
210849--210877	2	14.5	2	100	0	58	51	0	0	48	1.00
211287--211317	13	2.4	13	100	0	62	6	22	19	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
211806--211835	2	15.0	2	100	0	60	50	0	0	50	1.00
215174--215247	21	3.5	20	79	3	76	20	35	12	32	1.89
219609--219670	12	4.9	12	76	9	61	43	4	1	50	1.33
220768--220848	23	3.5	21	75	18	72	0	19	1	79	0.81
220770--220836	28	2.4	28	82	12	75	0	17	1	80	0.79
220767--220836	17	4.2	16	74	17	63	0	18	1	80	0.80
220767--220848	10	8.6	10	72	17	59	0	20	1	78	0.83
221033--221092	17	3.4	19	77	13	65	70	1	1	26	1.07
220979--221162	101	1.8	99	81	9	230	58	1	1	38	1.18
226242--226282	2	20.5	2	89	0	64	43	0	4	51	1.23
239324--239358	2	17.5	2	100	0	70	0	48	0	51	1.00
243163--243196	17	2.0	17	88	11	52	35	8	2	52	1.47
246271--246314	10	4.4	10	86	11	63	43	0	9	47	1.35
249775--249811	2	18.5	2	100	0	74	51	0	0	48	1.00
255294--255329	2	18.0	2	100	0	72	50	0	0	50	1.00
263397--263463	28	2.4	29	85	14	104	64	1	0	34	1.03
269899--269939	3	13.7	3	94	0	73	65	0	34	0	0.93
271122--271158	2	18.5	2	89	10	58	2	0	48	48	1.15
278836--278865	2	15.0	2	100	0	60	50	0	0	50	1.00
281330--281360	2	15.5	2	100	0	62	0	48	0	51	1.00
283002--283027	12	2.2	12	100	0	52	57	0	42	0	0.98
283524--283559	17	2.1	17	89	0	54	83	2	13	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290883--290915	5	6.6	5	96	0	57	36	0	60	3	1.12
292909--292943	3	11.7	3	100	0	70	68	0	0	31	0.90
294495--294544	27	1.9	27	88	8	77	56	2	0	42	1.11
296701--296728	2	14.0	2	100	0	56	0	50	0	50	1.00
296734--296764	2	15.5	2	100	0	62	51	0	0	48	1.00
309520--309546	3	9.0	3	100	0	54	0	33	0	66	0.92
312055--312089	2	18.0	2	94	5	63	48	0	0	51	1.00
317502--317550	2	24.5	2	100	0	98	0	51	0	48	1.00
317956--317998	16	2.7	16	82	10	52	62	4	0	32	1.15
319481--319514	12	2.8	12	90	0	50	55	35	0	8	1.31
319554--319611	6	9.0	6	85	14	80	18	31	0	50	1.48
319554--319605	20	2.6	20	100	0	104	19	30	0	50	1.48
319961--319993	2	16.5	2	100	0	66	51	0	0	48	1.00
327923--327959	18	2.1	18	89	0	56	72	0	0	27	0.84
328195--328262	6	11.5	6	78	12	70	51	2	13	32	1.56
328329--328371	22	2.0	21	81	4	50	44	4	2	48	1.36
333905--333941	2	18.5	2	100	0	74	51	0	0	48	1.00
340926--340959	4	8.5	4	87	12	52	76	0	23	0	0.79
347609--347809	52	3.9	52	90	1	305	30	16	17	34	1.93
347798--347822	13	1.9	13	100	0	50	36	16	16	32	1.90
347863--347929	33	2.0	33	88	0	98	40	14	11	32	1.83
347885--347909	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351746--351779	3	11.3	3	100	0	68	67	0	0	32	0.91
352059--352084	2	13.0	2	100	0	52	50	0	50	0	1.00
355474--355529	2	28.0	2	100	0	112	50	0	0	50	1.00
360713--360754	21	2.0	21	90	4	59	35	4	33	26	1.77
364104--364145	21	2.0	21	100	0	84	57	9	14	19	1.64
366233--366266	9	3.7	9	84	7	50	14	35	0	50	1.44
366241--366274	10	3.5	10	84	8	52	14	35	0	50	1.44
366233--366274	19	2.2	19	100	0	84	14	35	0	50	1.43
378549--378592	24	1.9	24	86	9	65	45	6	0	47	1.29
380300--380330	2	15.5	2	100	0	62	48	0	0	51	1.00
382445--382487	2	22.0	2	95	4	79	51	0	48	0	1.00
384987--385472	166	2.9	166	91	1	789	33	16	15	34	1.90
396464--396521	2	29.0	2	100	0	116	50	0	0	50	1.00
398643--398674	2	16.0	2	100	0	64	50	0	0	50	1.00
408780--408819	3	13.3	3	94	0	71	32	2	0	65	1.06
409317--409342	3	8.7	3	100	0	52	34	30	0	34	1.58
414862--414905	22	2.0	21	83	12	54	20	4	15	59	1.54
415025--415049	13	1.9	13	100	0	50	60	0	0	40	0.97
415726--415750	2	12.5	2	100	0	50	52	0	0	48	1.00
416122--416238	54	2.2	54	83	9	141	45	2	2	49	1.29
417582--417612	2	15.5	2	93	0	53	48	0	3	48	1.17
418767--418804	20	1.9	19	85	15	51	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418765--418846	35	2.3	35	79	10	85	52	2	0	45	1.14
420415--420456	3	14.0	3	94	0	75	33	2	33	30	1.71
420581--420629	19	2.5	20	83	6	55	46	0	0	53	1.00
420569--420631	26	2.4	26	76	7	65	44	0	1	53	1.10
421210--421257	13	3.5	13	76	15	51	50	0	2	47	1.12
421197--421259	29	2.2	29	88	0	90	46	0	1	52	1.10
421689--421721	7	4.7	7	96	0	57	24	72	3	0	0.98
422728--422787	22	2.7	22	75	14	61	55	3	0	41	1.16
429220--429405	57	3.2	57	68	14	151	17	6	55	20	1.64
429365--429417	18	2.9	17	72	10	52	16	5	58	18	1.58
429175--430069	237	3.8	237	92	1	1454	16	7	54	21	1.67
429175--430069	117	7.6	117	92	1	1385	16	7	54	21	1.67
430100--430155	24	2.3	24	84	0	76	17	0	58	23	1.38
433374--433421	2	24.0	2	86	0	69	47	4	2	45	1.33
433374--433429	18	3.1	18	89	0	67	44	5	5	44	1.49
434302--434343	17	2.4	18	80	8	50	57	7	2	33	1.39
438837--438879	21	2.0	22	86	4	61	27	6	25	39	1.81
439149--439182	2	17.0	2	93	0	59	52	0	47	0	1.00
440134--440166	16	2.1	16	94	0	57	0	9	6	84	0.76
442987--443011	3	8.3	3	100	0	50	32	0	32	36	1.58
445228--445258	7	4.4	7	100	0	62	16	29	29	25	1.96
446895--446928	3	11.3	3	87	0	50	58	2	2	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446895--446932	9	4.2	9	93	0	58	57	2	5	34	1.35
447476--447543	15	3.9	18	70	16	54	50	2	4	42	1.37
448681--448728	18	2.6	18	80	12	62	64	0	0	35	0.94
448782--448828	18	2.5	20	86	10	71	31	6	0	61	1.21
449513--449546	14	2.6	14	90	9	54	41	2	2	52	1.31
451610--451637	14	2.0	14	100	0	56	14	21	0	64	1.29
452621--452646	4	6.5	4	100	0	52	76	0	0	23	0.78
453833--453875	19	2.4	18	82	14	54	53	0	13	32	1.41
454359--454410	28	1.9	26	84	7	68	57	0	0	42	0.98
455231--455256	3	8.7	3	100	0	52	69	0	0	30	0.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45