genome.fa.s79.2.7.7.80.10.50.1000.4.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  4  of  26  ( 3105 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)
454237--454313	38	2.0	38	85	5	102	55	3	0	40	1.18
454711--454740	14	2.2	14	94	5	53	60	0	0	40	0.97
458269--458640	49	7.7	48	88	5	529	4	30	10	54	1.55
458274--458640	194	1.9	192	88	6	562	4	30	10	54	1.55
459211--459239	12	2.3	13	94	5	51	27	0	3	68	1.05
459692--460108	214	2.0	213	98	0	807	50	8	5	36	1.55
460097--460131	2	17.5	2	100	0	70	51	0	0	48	1.00
460417--460444	2	14.0	2	100	0	56	50	0	50	0	1.00
467709--467753	16	2.8	16	80	12	65	42	8	11	37	1.72
467749--467797	16	3.0	17	76	11	57	42	8	16	32	1.77
468046--468082	16	2.2	17	90	4	58	59	0	0	40	0.97
469149--469173	8	3.1	8	100	0	50	36	12	52	0	1.39
473366--473394	2	14.5	2	100	0	58	48	0	0	51	1.00
478651--478685	16	2.2	16	94	0	61	71	2	0	25	1.00
480581--480609	2	14.5	2	100	0	58	48	0	0	51	1.00
482188--482251	33	1.9	33	84	12	87	57	1	1	39	1.17
482271--482308	18	2.1	18	90	0	58	63	0	0	36	0.95
482660--482748	22	4.0	22	74	20	80	47	1	1	50	1.15
483016--483060	21	2.2	20	84	4	54	62	2	0	35	1.08
483036--483060	10	2.5	10	100	0	50	68	0	0	32	0.90
483499--483533	17	2.0	17	88	5	52	48	0	0	51	1.00
483497--483538	19	2.2	20	87	12	61	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483933--484024	42	2.3	38	76	20	98	57	4	5	32	1.41
485124--485159	17	2.0	19	89	10	58	50	0	8	41	1.33
485206--485302	29	3.3	29	78	7	99	46	8	0	45	1.33
485324--485415	28	3.4	27	71	12	73	55	3	2	39	1.28
490336--490373	19	2.0	19	100	0	76	36	15	10	36	1.82
493790--493823	17	2.0	17	94	0	59	17	14	17	50	1.79
498735--498776	2	21.0	2	100	0	84	50	0	0	50	1.00
502975--503004	3	10.0	3	100	0	60	33	0	0	66	0.92
503197--503232	2	18.0	2	100	0	72	50	0	0	50	1.00
506851--506881	11	2.8	11	95	0	53	70	3	0	25	1.02
507899--507948	7	6.9	7	82	15	57	0	14	34	52	1.42
507898--507948	22	2.3	22	80	16	61	0	13	35	50	1.42
507898--507948	15	3.5	15	82	12	61	0	13	35	50	1.42
508071--508105	2	17.5	2	93	0	61	54	0	45	0	0.99
508051--508101	12	4.0	12	80	12	57	56	0	41	1	1.10
508611--508668	28	2.1	27	81	12	66	53	1	0	44	1.10
509489--509518	2	15.0	2	100	0	60	50	0	0	50	1.00
513590--513669	34	2.3	34	76	6	81	55	0	2	42	1.13
513664--513733	31	2.3	32	85	9	101	54	2	1	41	1.24
514636--514661	2	13.0	2	100	0	52	50	0	0	50	1.00
514878--514907	2	15.0	2	100	0	60	50	0	0	50	1.00
515302--515345	21	2.1	21	91	8	72	59	0	2	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515848--515937	29	3.0	29	74	17	92	56	1	2	40	1.19
515846--515938	31	3.1	29	74	17	98	55	1	2	40	1.19
515846--515948	29	3.4	29	71	20	86	56	0	2	39	1.21
522092--522122	3	10.3	3	100	0	62	35	0	0	64	0.94
522236--522306	32	2.3	31	87	2	97	61	2	2	32	1.24
522743--522781	19	2.1	19	85	9	53	28	2	0	69	1.02
523567--523608	20	2.0	21	86	4	59	52	0	0	47	1.00
523561--523616	28	2.1	26	83	6	67	48	0	0	51	1.00
525649--525673	2	12.5	2	100	0	50	48	0	0	52	1.00
527414--527517	52	2.0	52	100	0	208	32	9	26	30	1.89
527904--527960	20	2.8	20	81	5	60	45	10	14	29	1.78
528025--528078	20	2.7	20	88	2	72	35	16	9	38	1.81
528646--528672	14	1.9	14	100	0	54	51	3	0	44	1.19
531616--531782	51	3.3	50	78	5	183	28	20	13	37	1.91
531769--531842	28	2.6	28	76	0	85	24	31	20	24	1.98
531937--532050	51	2.2	51	90	3	176	32	25	9	32	1.88
531720--531999	110	2.6	105	75	8	276	28	24	13	33	1.93
531990--532207	79	2.7	79	78	4	224	29	23	11	35	1.89
537034--537070	14	2.6	15	87	8	51	59	0	10	29	1.31
538695--538728	13	2.5	14	85	9	52	17	26	41	14	1.88
543841--543936	21	4.7	19	71	20	61	35	5	7	52	1.52
543842--543936	41	2.3	41	79	16	108	35	5	7	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543873--543933	21	3.0	20	79	13	70	36	6	9	47	1.63
543910--543951	19	2.4	19	84	11	54	42	4	9	42	1.58
545643--545669	4	6.8	4	100	0	54	77	0	0	22	0.76
546171--546230	19	3.1	20	79	13	63	41	1	1	55	1.20
546415--546449	2	17.5	2	93	0	61	51	2	0	45	1.16
554304--554361	27	2.2	27	82	11	68	55	6	0	37	1.27
556564--556754	74	2.6	74	79	3	197	54	12	1	31	1.47
557155--557204	18	2.6	19	78	12	57	48	2	0	50	1.12
557516--557555	2	20.0	2	94	0	71	0	52	0	47	1.00
559120--559183	2	32.0	2	91	0	92	43	1	3	51	1.26
559766--559828	31	2.1	30	82	8	74	47	0	3	49	1.17
559782--559852	29	2.4	30	86	9	92	46	0	1	52	1.09
560564--560601	13	2.7	15	80	16	53	65	0	0	34	0.93
560593--560639	17	2.7	17	78	15	51	63	0	2	34	1.06
561023--561067	23	2.0	23	90	0	72	44	2	6	46	1.42
561024--561073	23	2.2	23	85	0	64	48	2	8	42	1.44
562253--562294	22	1.9	22	100	0	84	28	4	11	54	1.57
563457--563511	28	2.0	28	82	13	69	52	1	0	45	1.11
563525--563567	16	2.5	17	81	14	52	58	0	4	37	1.19
563799--563863	28	2.3	29	82	12	73	63	0	1	35	1.04
564106--564130	9	2.8	9	100	0	50	32	0	0	68	0.90
564106--564152	21	2.3	20	85	7	67	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565936--565968	2	16.5	2	93	0	57	48	3	0	48	1.17
566203--566252	25	2.0	25	100	0	100	16	16	24	44	1.86
567004--567138	69	1.9	70	92	3	227	32	26	11	29	1.91
570143--570168	3	8.7	3	100	0	52	69	0	0	30	0.89
577508--577576	6	10.7	7	75	17	53	43	0	0	56	0.99
577749--577796	6	7.8	6	86	4	51	20	4	0	75	0.97
577749--577796	25	1.9	25	83	8	62	20	4	0	75	0.97
577834--577881	24	2.0	24	100	0	96	20	12	29	37	1.90
578683--578790	54	2.0	54	92	3	182	27	9	13	49	1.73
585593--585628	2	18.0	2	100	0	72	50	50	0	0	1.00
592764--592799	5	7.4	5	93	6	65	58	41	0	0	0.98
592766--592795	9	3.2	9	90	9	51	60	40	0	0	0.97
593095--593152	23	2.6	21	79	12	71	43	0	0	56	0.99
597689--597740	2	26.0	2	96	0	95	0	48	0	51	1.00
599350--599390	2	20.5	2	100	0	82	48	0	0	51	1.00
607923--607961	2	20.0	2	84	5	53	51	0	0	48	1.00
608392--608424	13	2.6	13	90	4	50	24	0	0	75	0.80
608957--608983	9	3.0	9	100	0	54	55	0	0	44	0.99
609097--609150	20	2.8	20	69	20	53	55	1	0	42	1.10
609218--609259	22	2.0	21	85	4	57	64	0	2	33	1.07
609496--609549	22	2.5	20	74	11	54	44	5	3	46	1.44
609590--609687	16	6.2	16	73	9	76	39	3	5	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609646--609693	15	3.2	15	82	5	53	39	0	2	58	1.10
621342--621392	21	2.3	22	80	13	59	52	0	0	47	1.00
621825--621882	18	3.3	18	76	13	59	31	1	0	67	1.01
621824--621867	21	2.0	23	86	8	65	29	2	0	68	1.02
621795--621900	16	6.2	17	68	22	55	33	1	1	63	1.16
622378--622581	66	3.0	67	80	2	221	38	20	14	26	1.91
627330--627372	14	3.1	14	93	0	68	79	0	20	0	0.74
627919--628019	48	2.1	50	81	7	118	31	13	12	41	1.83
628516--628562	23	2.0	24	91	4	78	29	19	4	46	1.68
628797--628828	3	10.7	3	100	0	64	68	31	0	0	0.90

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