genome.fa.s47.2.7.7.80.10.50.1000.3.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1735 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)
236212--236262	25	2.0	25	85	7	68	47	3	0	49	1.20
236525--236605	27	2.8	30	74	11	87	40	0	0	59	0.98
236544--236593	14	3.6	14	76	15	59	46	0	0	54	1.00
238038--238072	2	17.5	2	87	0	52	51	2	2	42	1.31
240663--240732	2	35.5	2	88	2	97	45	5	0	48	1.26
241013--241041	2	14.5	2	100	0	58	51	0	0	48	1.00
249672--249711	2	20.0	2	86	0	53	52	2	2	42	1.28
249884--249926	16	3.0	14	81	15	52	69	0	0	30	0.88
249892--249924	16	2.1	16	94	0	57	66	0	0	33	0.92
250696--250747	22	2.4	22	81	12	54	48	1	1	48	1.24
251280--251327	23	2.1	22	84	3	60	41	6	4	47	1.48
251336--251423	43	2.0	46	86	10	130	38	0	0	61	0.96
251342--251433	37	2.5	37	82	5	105	41	0	0	58	0.98
253846--253925	32	2.4	33	83	8	99	46	0	1	52	1.08
254604--254631	14	2.0	14	100	0	56	42	0	0	57	0.99
254945--254992	2	26.0	2	80	16	59	47	0	0	52	1.00
255107--255195	27	3.1	28	75	17	85	49	1	2	47	1.21
255509--255545	17	2.2	17	90	0	56	56	2	0	40	1.13
255934--255976	21	2.0	22	81	4	52	51	0	0	48	1.00
256114--256156	11	3.8	11	78	6	50	58	0	0	41	0.98
256245--256286	21	2.0	22	90	4	68	45	0	2	52	1.13
256223--256315	27	3.4	27	71	12	75	44	0	1	54	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
256348--256391	21	2.1	21	88	12	65	56	0	0	43	0.99
256347--256421	25	3.2	24	78	10	68	62	0	0	37	0.95
256369--256420	25	2.1	25	85	7	70	67	0	0	32	0.91
257701--257763	32	2.0	31	87	3	90	41	0	1	57	1.08
257758--257820	27	2.3	27	81	5	74	36	1	1	60	1.16
258321--258373	26	2.0	26	88	0	79	37	1	0	60	1.08
258828--258889	2	33.0	2	84	12	87	48	0	0	51	1.00
259008--259065	27	2.1	27	87	0	80	48	3	3	44	1.36
259176--259231	7	7.9	7	73	11	51	42	1	3	51	1.29
259174--259229	28	2.1	26	83	6	67	42	1	3	51	1.29
259332--259447	61	1.9	61	85	3	162	46	15	6	31	1.70
259722--259764	21	2.2	19	91	8	68	39	0	0	60	0.97
260001--260044	23	2.0	22	83	12	56	54	0	0	45	0.99
260030--260100	11	6.3	11	75	10	54	54	0	1	43	1.08
260090--260118	14	2.1	14	100	0	58	58	6	0	34	1.25
260335--260402	25	2.7	26	84	8	79	58	0	1	39	1.07
260368--260401	16	2.2	16	89	5	52	73	0	0	26	0.83
264006--264039	17	2.1	16	88	5	50	70	0	0	29	0.87
265006--265047	2	21.0	2	100	0	84	50	0	0	50	1.00
265239--265289	18	2.8	19	79	8	61	29	7	1	60	1.36
266159--266191	2	16.5	2	100	0	66	51	0	0	48	1.00
267344--267380	18	2.1	18	94	0	65	21	2	0	75	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267416--267458	21	2.2	19	83	8	50	20	4	0	74	1.00
267698--267898	96	2.1	98	82	4	237	40	15	6	37	1.74
269226--269286	24	2.6	24	71	2	61	45	0	0	54	1.00
273531--273576	14	3.4	14	87	3	67	36	0	0	63	0.95
273703--273793	22	4.0	22	68	16	67	62	0	0	37	0.95
274125--274184	23	2.5	25	82	15	81	36	0	3	60	1.14
274092--274190	24	4.0	24	77	16	96	35	0	5	59	1.19
274138--274360	74	3.1	73	75	8	224	39	0	4	56	1.25
274631--274673	19	2.4	19	84	7	63	30	0	4	65	1.13
274568--274943	156	2.5	156	83	5	466	40	2	6	50	1.42
275636--275673	2	19.0	2	100	0	76	50	0	0	50	1.00
279134--279170	19	1.9	19	88	0	56	56	13	2	27	1.50
279343--279374	2	16.5	2	93	6	57	50	0	0	50	1.00
280464--280502	13	2.9	13	84	3	51	48	0	2	48	1.15
285830--286070	34	7.4	32	74	14	118	21	29	11	38	1.88
285896--285953	27	2.2	27	90	9	93	20	25	13	39	1.90
285923--287027	68	16.8	67	72	15	486	21	30	11	37	1.88
285936--287079	102	11.6	101	74	14	574	21	30	11	37	1.88
285829--286801	275	3.7	263	75	12	741	21	30	11	36	1.89
285936--287077	34	34.6	34	70	18	364	21	30	11	37	1.88
286403--286543	27	5.0	27	73	14	97	25	34	12	27	1.92
286583--286635	27	2.0	27	92	0	88	24	33	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286475--286796	94	3.3	95	78	10	291	22	31	11	34	1.90
286849--286906	27	2.1	27	90	0	89	20	29	13	36	1.91
286919--286974	27	2.1	27	86	0	76	23	32	10	33	1.89
287084--287136	27	2.0	26	85	3	70	22	30	15	32	1.94
287150--287276	32	4.0	32	79	9	136	29	29	18	22	1.97
287328--287749	52	7.9	52	75	10	219	25	22	14	37	1.92
287328--287749	104	4.0	102	74	10	337	25	22	14	37	1.92
287340--287757	217	1.9	217	85	2	572	24	23	14	38	1.92
287708--287824	61	1.9	61	87	0	171	22	26	12	38	1.90
287357--287803	217	2.1	217	82	3	533	24	24	13	37	1.92
291174--291198	13	1.9	13	100	0	50	48	8	0	44	1.32
296304--296849	79	7.0	79	79	7	542	33	12	24	28	1.92
296304--296857	237	2.4	230	87	3	768	34	12	24	28	1.91
299191--299255	34	1.9	33	90	3	103	44	10	16	27	1.81
300105--300880	61	13.2	60	84	7	842	23	21	29	25	1.99
300102--300857	182	4.3	180	84	7	903	23	21	29	25	1.99
301862--301924	8	8.0	8	77	12	60	0	1	14	84	0.71
301867--301912	5	9.6	5	81	9	60	0	0	13	86	0.56
301861--301907	15	3.3	15	85	8	62	0	2	10	87	0.63
301850--301913	25	2.6	25	82	7	69	0	4	9	85	0.72
301848--301913	28	2.3	28	84	7	80	0	4	9	86	0.70
301848--301924	19	4.0	18	80	10	73	0	3	11	84	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301891--301920	13	2.3	13	94	0	51	0	0	16	83	0.65
301848--301914	1	67.0	1	72	0	53	0	4	8	86	0.69
314195--314765	79	7.2	78	83	5	650	33	14	25	27	1.94
314168--314765	237	2.5	235	90	4	914	33	13	24	27	1.93
317136--317161	13	2.0	13	100	0	52	38	15	15	30	1.88
317115--317181	34	2.0	33	88	2	98	46	13	14	25	1.82
317213--317266	21	2.7	20	77	8	65	38	14	12	33	1.85
317321--317398	21	3.7	21	96	0	147	38	20	10	30	1.86
318741--318810	33	2.1	33	86	7	97	37	20	11	31	1.88
318840--318893	19	2.8	20	91	2	83	37	16	12	33	1.87
318879--318905	13	2.1	13	100	0	54	40	14	14	29	1.86
320223--320358	51	2.6	51	80	5	148	33	12	25	28	1.92
320341--320407	27	2.4	27	82	7	73	23	17	35	22	1.95
320400--320522	51	2.3	53	86	6	162	30	11	25	32	1.91
322876--322901	13	2.0	13	100	0	52	38	15	15	30	1.88
322855--322921	33	2.0	33	88	0	98	43	16	14	25	1.86
323012--323090	21	3.8	20	86	5	95	32	16	15	35	1.90
323871--323917	23	2.2	20	76	20	58	31	12	8	46	1.72
324736--324778	21	2.0	21	82	8	52	55	4	2	37	1.33
330187--330239	23	2.3	23	81	9	56	41	1	0	56	1.10
330228--330271	21	2.1	21	88	12	65	70	0	2	27	0.99
332200--332248	19	2.5	19	86	3	71	67	4	0	28	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334147--334184	20	2.0	19	90	10	60	50	5	0	44	1.24
337883--337910	2	14.0	2	100	0	56	50	0	0	50	1.00
338458--338509	2	26.0	2	96	0	95	48	1	0	50	1.12
338713--338762	23	2.1	24	85	7	66	66	0	6	28	1.15
338849--338877	14	2.0	15	93	6	51	44	0	0	55	0.99
342071--342293	78	2.8	81	78	4	245	22	10	24	42	1.84
345739--345789	22	2.4	21	90	3	75	54	0	0	45	0.99
345739--345789	21	2.4	22	86	3	68	54	0	0	45	0.99
346491--346548	22	2.5	23	78	10	66	55	0	3	41	1.17
346762--346798	2	18.5	2	100	0	74	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15