genome.fa.s219.2.7.7.80.10.50.1000.3.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: Scaffold219
Parameters: 2 7 7 80 10 50 1000
Length:  770726

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 559 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)
316189--316227	21	2.0	21	85	10	55	23	20	10	46	1.81
320522--320603	18	4.6	18	69	24	66	71	0	26	1	0.93
320528--320608	8	9.0	9	73	26	57	69	0	29	1	0.97
320545--320604	22	2.8	22	82	2	77	70	0	28	1	0.97
322809--322846	20	1.9	20	94	0	67	34	10	10	44	1.73
326829--326859	16	1.9	16	100	0	62	51	0	12	35	1.40
329505--329536	15	2.2	14	94	5	55	28	18	0	53	1.45
331141--331185	23	2.0	24	82	8	58	40	22	8	28	1.84
331695--331721	13	2.1	13	100	0	54	48	14	7	29	1.71
332049--332073	7	3.6	7	100	0	50	44	12	0	44	1.41
332274--332314	21	2.0	21	85	9	57	39	12	9	39	1.76
332354--332424	20	3.6	19	77	7	70	39	16	14	29	1.88
332394--332530	53	2.6	53	94	1	238	37	17	17	27	1.92
332554--332648	10	9.1	10	69	8	55	27	25	8	38	1.84
332562--332662	32	3.2	32	97	0	193	29	24	8	36	1.86
340282--340307	13	2.0	13	100	0	52	38	15	15	30	1.88
340331--340408	20	3.8	20	83	6	102	39	10	10	39	1.73
354280--354333	4	12.0	5	79	20	50	83	16	0	0	0.65
354267--354343	12	6.3	12	80	7	66	83	12	1	2	0.82
354285--354343	9	6.6	9	80	11	68	83	15	1	0	0.74
354285--354333	17	2.9	17	96	0	89	83	16	0	0	0.64
355253--355327	28	2.7	27	79	6	78	45	20	14	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355830--355888	27	2.2	27	90	0	91	22	32	13	32	1.92
355888--355974	29	3.0	29	80	9	97	22	33	16	27	1.95
355955--356067	27	3.9	27	73	15	100	24	30	12	31	1.92
355833--356085	61	4.2	60	73	11	203	23	32	13	30	1.93
356072--356193	63	1.9	63	83	6	158	33	29	16	20	1.94
356070--356193	32	4.0	30	81	7	140	33	30	16	20	1.94
356266--356772	52	9.6	52	78	6	205	24	24	14	36	1.93
356265--356655	52	7.3	55	75	12	230	24	24	14	36	1.93
356265--356655	165	2.4	156	84	4	469	24	24	14	36	1.93
356427--356764	104	3.3	103	82	5	367	23	24	16	35	1.95
356407--356768	156	2.3	153	81	4	395	23	24	15	36	1.94
356718--356848	61	2.1	61	87	2	183	26	25	9	38	1.87
365052--365107	20	2.7	21	77	5	69	82	7	3	7	0.95
366422--366499	24	3.1	24	75	12	68	30	20	19	29	1.97
366809--366880	28	2.6	28	77	0	81	31	20	19	27	1.97
367962--367987	4	6.5	4	100	0	52	76	0	0	23	0.78
371334--371371	2	19.0	2	100	0	76	50	0	0	50	1.00
376870--376992	10	12.5	10	67	16	60	61	0	1	35	1.11
376868--376948	23	3.5	23	71	15	69	62	0	2	34	1.08
376871--376992	39	3.1	37	76	14	111	62	0	1	35	1.11
376884--377020	18	7.3	18	67	17	75	60	0	0	37	1.07
376919--377017	23	4.5	24	67	24	74	57	1	0	41	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376980--377020	20	2.0	21	85	4	57	56	0	0	43	0.99
376932--377024	14	6.5	15	68	26	53	58	1	0	40	1.05
377714--377761	26	2.0	25	88	12	73	54	0	0	45	0.99
377714--377773	23	2.5	25	80	15	74	51	0	0	48	1.00
379182--379230	18	2.7	19	75	15	50	63	2	0	34	1.06
379239--379299	25	2.4	25	81	10	70	44	3	0	52	1.17
380514--380607	13	7.2	13	69	17	70	42	0	0	57	0.98
380511--380598	23	4.0	23	77	16	87	40	0	0	59	0.98
380515--380615	42	2.4	43	82	12	129	42	0	0	57	0.98
385759--385788	2	15.0	2	100	0	60	0	0	50	50	1.00
387191--387241	21	2.4	22	75	18	54	66	3	23	5	1.30
387348--387384	2	19.0	2	94	5	67	51	0	0	48	1.00
388755--388800	6	7.2	6	81	13	56	34	0	2	63	1.07
388755--388800	13	3.6	12	85	11	56	34	0	2	63	1.07
388755--388800	19	2.3	20	88	3	67	34	0	2	63	1.07
389124--389161	15	2.5	16	87	12	62	28	0	0	71	0.87
389128--389163	16	2.3	15	85	4	54	27	0	0	72	0.85
390448--390493	14	3.3	14	90	6	67	45	0	0	54	0.99
394968--395033	21	3.2	20	79	10	71	37	21	6	34	1.78
398734--398864	58	2.3	58	81	6	142	25	13	14	45	1.82
398982--399073	29	3.2	30	70	21	70	26	10	18	44	1.82
401907--401964	27	2.3	26	80	17	68	55	1	1	41	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413839--413909	27	2.6	27	88	6	99	46	23	7	22	1.76
415343--415388	21	2.1	22	84	4	58	19	30	19	30	1.97
417837--417881	20	2.2	20	84	0	54	37	4	46	11	1.60
417962--418027	27	2.4	28	87	2	89	48	12	6	33	1.65
418905--418964	14	4.1	14	81	10	75	63	0	0	36	0.95
418909--418964	16	3.7	16	86	9	73	66	0	0	33	0.92
419059--419126	19	3.6	19	73	9	59	57	0	0	42	0.98
419117--419158	17	2.5	17	84	0	57	45	4	0	50	1.23
420249--420285	15	2.5	15	91	4	58	37	0	0	62	0.96
422168--422203	14	2.6	14	100	0	72	44	19	8	27	1.79
422228--422283	19	2.8	19	78	7	67	33	14	10	41	1.80
422907--422952	16	2.9	16	83	0	65	69	0	0	30	0.89
423035--423073	21	1.9	21	89	5	62	46	20	10	23	1.81
425401--425473	24	3.1	22	75	14	58	38	0	2	58	1.12
425756--425786	2	15.5	2	100	0	62	51	0	0	48	1.00
425861--425909	23	2.1	23	85	14	66	24	0	4	71	1.03
428617--428656	21	1.9	21	85	10	55	57	0	0	42	0.98
428839--428895	26	2.2	26	77	0	60	35	5	8	50	1.56
428887--428929	15	2.9	15	86	3	61	55	0	0	44	0.99
430581--430731	76	2.0	76	98	1	295	39	7	10	42	1.69
430999--431023	13	1.9	13	100	0	50	24	0	0	76	0.80
431117--431150	9	3.7	9	88	4	50	23	23	0	52	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435806--435886	9	8.9	9	73	18	53	35	1	2	60	1.18
437176--437215	16	2.5	16	88	8	55	47	12	12	27	1.77
437308--437338	16	1.9	16	93	0	53	61	16	3	19	1.48
437794--437818	13	1.9	13	100	0	50	92	0	8	0	0.40
437866--437911	10	4.7	10	76	12	51	47	0	2	50	1.13
437860--437911	19	2.7	20	80	14	63	50	0	1	48	1.12
438712--438749	18	2.1	19	90	5	60	60	0	0	39	0.97
441637--441698	11	5.9	10	75	9	52	29	0	3	67	1.06
441985--442030	19	2.3	20	81	3	58	17	2	2	78	0.96
442953--442982	2	15.0	2	92	0	51	0	46	0	53	1.00
449257--449310	20	2.7	20	80	5	65	35	18	12	33	1.89
449339--449393	19	2.8	20	83	5	76	38	18	14	29	1.90
458064--458117	20	2.7	20	82	5	65	38	16	11	33	1.84
458556--458619	19	3.7	19	76	23	86	32	12	18	35	1.89
458576--458600	13	1.9	13	100	0	50	36	16	16	32	1.90
458557--458627	32	2.2	32	100	0	142	32	12	19	35	1.90
463315--463370	21	2.5	22	82	11	78	30	25	0	44	1.54
464839--464911	20	3.6	20	81	3	101	35	13	19	31	1.91
464857--464932	21	3.7	21	80	3	100	42	11	17	28	1.84
464839--464932	41	2.3	41	98	0	179	39	12	18	29	1.88
464971--464996	13	2.0	13	100	0	52	38	15	15	30	1.88
467897--467927	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469937--470014	20	3.6	21	73	15	70	25	12	16	44	1.83
470001--470039	13	3.0	13	96	0	69	30	17	15	35	1.91
471442--471672	114	2.0	114	100	0	462	29	26	19	24	1.99
472632--472704	20	3.6	20	81	3	101	35	13	19	31	1.91
472650--472725	21	3.7	21	80	3	100	42	11	17	28	1.84
472632--472725	41	2.3	41	98	0	179	39	12	18	29	1.88
472764--472789	13	2.0	13	100	0	52	38	15	15	30	1.88
474696--474763	19	3.9	19	78	21	85	35	11	14	38	1.83
474717--474741	13	1.9	13	100	0	50	36	16	16	32	1.90
474698--474760	32	2.0	32	96	0	117	34	12	15	36	1.86

Tables:   1   2   3   4   5