genome.fa.s247.2.7.7.80.10.50.1000.3.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  3  of  29  ( 3470 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)
247067--247133	12	5.5	12	74	19	59	53	0	4	41	1.21
248462--248491	2	15.0	2	100	0	60	50	0	0	50	1.00
250388--250444	27	2.1	27	83	0	69	43	1	22	31	1.64
251870--251895	7	3.7	7	100	0	52	23	0	0	76	0.78
253083--253122	21	1.9	21	85	10	55	27	7	0	65	1.20
257103--257140	18	2.0	18	90	10	58	50	2	0	47	1.15
259965--260004	16	2.3	18	83	12	57	55	0	0	45	0.99
260750--260774	9	2.8	9	100	0	50	20	0	0	80	0.72
270477--270558	38	2.1	37	84	13	103	54	0	0	45	0.99
271119--271157	5	8.0	5	88	5	62	79	0	2	17	0.84
271478--271763	34	8.5	34	88	1	414	39	25	8	26	1.83
271478--271759	101	2.8	101	97	0	519	39	25	8	26	1.84
275829--275891	19	3.3	19	90	0	90	34	19	17	28	1.94
276196--276478	34	8.4	34	87	1	401	39	25	8	26	1.83
276194--276478	134	2.1	135	87	0	428	40	25	8	26	1.83
277953--277982	2	15.0	2	92	0	51	50	3	0	46	1.18
278017--278048	15	2.0	17	88	11	50	81	0	9	9	0.88
278035--278112	30	2.6	30	85	2	102	62	1	25	10	1.34
278695--278757	25	2.6	23	74	18	65	57	3	6	33	1.40
283774--283946	83	2.0	82	83	9	213	16	13	15	54	1.71
285710--285828	36	3.3	36	84	0	157	33	18	26	21	1.96
285680--285825	72	2.0	72	82	5	179	32	19	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293088--293112	10	2.5	10	100	0	50	72	0	0	28	0.86
293085--293120	18	2.0	18	88	0	54	72	0	0	27	0.85
293380--293419	2	20.0	2	100	0	80	50	0	0	50	1.00
297228--297254	2	13.5	2	100	0	54	48	0	0	51	1.00
297515--297545	2	15.5	2	100	0	62	51	0	0	48	1.00
299481--299514	2	17.5	2	93	6	61	0	47	0	52	1.00
301458--301495	18	2.0	20	90	10	62	28	0	2	68	1.03
301675--301726	21	2.4	20	81	15	59	38	1	1	57	1.21
302949--302998	23	2.3	23	89	6	77	44	0	0	56	0.99
303245--303303	30	2.0	30	83	6	75	44	8	3	44	1.51
303569--303624	22	2.5	22	80	11	69	51	0	0	48	1.00
306752--306794	20	2.1	21	91	4	70	58	0	0	41	0.98
307241--307368	48	2.7	46	75	13	134	36	8	7	47	1.61
307401--307460	26	2.3	27	85	5	88	51	0	1	46	1.10
307422--307464	22	2.0	21	82	13	52	53	0	2	44	1.13
308771--308799	11	2.5	12	94	5	51	0	13	0	86	0.58
309018--309151	49	2.8	48	82	2	151	37	7	8	47	1.62
309366--309640	102	2.8	100	80	9	294	26	13	8	52	1.68
314152--314242	19	4.7	19	68	20	53	32	3	1	62	1.18
314132--314202	26	2.7	26	77	14	83	35	1	2	60	1.20
314130--314208	25	3.2	24	82	8	88	34	1	2	62	1.17
314094--314197	29	3.5	29	71	21	74	36	1	3	57	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314130--314209	16	4.8	17	70	17	60	33	1	2	62	1.16
314171--314220	12	4.5	11	80	11	50	28	0	2	70	0.99
314129--314227	23	4.1	23	75	15	76	33	2	2	62	1.18
315320--315544	104	2.2	104	92	0	378	36	6	5	51	1.51
315431--315714	155	1.9	151	82	5	365	40	4	2	52	1.38
321142--321184	3	14.3	3	100	0	86	34	0	0	65	0.93
321615--321898	137	2.1	138	79	8	301	40	11	7	40	1.69
322398--322427	15	2.0	15	93	0	51	43	0	0	56	0.99
322388--322455	26	2.6	25	80	11	73	50	1	0	48	1.10
322924--322966	16	2.8	16	82	3	61	67	0	0	32	0.91
323463--323506	15	2.9	15	82	0	61	54	0	0	45	0.99
323441--323502	14	4.2	14	75	12	54	50	0	0	50	1.00
323441--323506	15	4.5	15	77	9	57	53	0	0	46	1.00
323861--323973	30	3.8	31	75	9	96	53	4	3	38	1.38
324968--325010	19	2.3	19	84	8	52	53	0	2	44	1.13
324997--325045	21	2.3	21	79	6	55	36	0	0	63	0.95
325010--325058	24	2.0	25	88	4	73	36	0	0	63	0.95
326555--326593	17	2.3	17	95	0	69	46	5	0	48	1.24
326541--326601	25	2.4	25	83	0	77	42	6	0	50	1.28
327842--327866	2	12.5	2	100	0	50	48	0	0	52	1.00
328423--328484	17	3.4	17	72	24	54	59	0	0	40	0.97
328412--328470	25	2.5	23	79	15	66	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336391--336447	11	4.9	12	79	14	66	31	3	1	63	1.22
336697--336754	22	2.4	24	86	11	75	36	0	3	60	1.14
336796--336849	23	2.3	23	84	12	65	48	1	0	50	1.11
337342--337380	10	3.9	10	82	0	51	56	5	2	35	1.35
337342--337394	20	2.7	20	91	2	81	54	3	3	37	1.36
342234--342879	348	1.9	349	96	0	1213	38	15	16	29	1.90
345147--345282	14	9.6	14	68	19	54	38	0	0	61	0.96
345165--345214	26	1.9	26	84	8	66	48	0	0	52	1.00
345174--345263	31	2.8	31	80	6	92	42	0	0	57	0.98
345172--345268	17	6.0	17	70	18	64	42	0	0	57	0.98
345206--345302	45	2.3	42	82	7	115	36	0	1	62	1.02
346223--346251	2	15.0	2	92	7	51	48	0	0	51	1.00
353270--353336	28	2.5	28	85	9	86	62	0	0	37	0.95
353297--353335	20	1.9	20	89	5	60	66	0	0	33	0.92
354085--354118	16	2.2	15	89	5	50	32	0	0	67	0.91
354759--354783	10	2.5	10	100	0	50	64	0	0	36	0.94
355424--355466	17	2.5	17	92	3	68	48	0	0	51	1.00
355624--355666	11	3.8	11	84	12	52	48	0	0	51	1.00
356097--356144	3	16.0	3	100	0	96	33	0	0	66	0.92
356427--356479	21	2.6	21	78	21	60	43	0	0	56	0.99
358337--358379	7	6.1	7	86	8	61	60	0	0	39	0.97
358338--358386	13	3.6	13	79	17	55	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358339--358381	15	3.1	15	80	12	56	65	0	0	34	0.93
358537--358587	17	2.9	18	80	14	61	49	0	0	50	1.00
359294--359320	1	27.0	1	100	0	54	100	0	0	0	0.00
369365--369420	21	2.5	23	73	21	57	62	0	1	35	1.06
370289--370359	22	3.0	24	74	25	62	53	2	0	43	1.15
371466--371504	2	19.5	2	94	0	69	51	2	0	46	1.14
378820--378855	17	2.1	17	94	0	63	55	0	0	44	0.99
378820--378849	8	3.6	8	91	8	51	56	0	0	43	0.99
378796--378865	33	2.2	33	84	5	90	50	0	1	48	1.09
379070--379098	13	2.2	13	100	0	58	37	34	13	13	1.85
380717--380742	2	13.0	2	100	0	52	50	0	0	50	1.00
381158--381192	2	17.5	2	93	0	61	48	2	0	48	1.16
381944--382044	53	1.9	53	89	0	157	38	14	17	28	1.90
382461--382489	2	14.5	2	100	0	58	48	0	0	51	1.00
383350--383376	2	13.5	2	100	0	54	51	0	0	48	1.00
384381--384414	18	2.0	16	88	11	50	47	0	0	52	1.00
385756--385850	32	3.0	30	77	16	86	37	1	2	58	1.17
385797--385865	33	2.1	31	84	12	86	33	2	1	62	1.19
385803--385872	18	3.9	18	77	17	58	34	2	4	58	1.32
385970--386015	24	2.0	23	82	4	56	32	4	2	60	1.28
386482--386536	18	3.0	18	71	21	51	27	0	1	70	0.97
386526--386568	16	2.7	16	81	0	50	32	0	11	55	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387163--387210	11	4.3	11	78	2	51	83	0	10	6	0.81
393611--393638	13	2.2	13	100	0	56	21	39	7	32	1.80
397404--397441	3	12.7	3	100	0	76	68	0	0	31	0.90
397397--397465	12	5.2	13	81	16	72	68	1	1	28	1.07
402421--402505	16	4.7	20	67	24	53	45	0	0	54	1.00
402407--402502	20	5.3	19	72	24	75	44	0	0	55	0.99
402425--402544	32	3.7	32	74	15	102	41	1	1	55	1.20
409124--409156	2	16.5	2	100	0	66	51	0	0	48	1.00
409261--409298	2	19.0	2	100	0	76	50	0	0	50	1.00
410057--410091	16	2.1	18	89	10	56	37	2	0	60	1.12

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