genome.fa.s199.2.7.7.80.10.50.1000.4.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: Scaffold199
Parameters: 2 7 7 80 10 50 1000
Length:  611138

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 574 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)
409377--409424	19	2.5	19	79	0	51	43	18	2	35	1.62
409798--409822	7	3.6	7	100	0	50	44	0	0	56	0.99
409773--409820	23	2.0	24	84	11	64	52	0	0	47	1.00
410369--410412	19	2.3	19	80	7	54	75	6	0	18	1.02
411398--411435	20	1.9	20	89	10	60	31	10	15	42	1.81
411392--411441	20	2.5	20	80	6	57	36	8	16	40	1.77
411857--411897	20	2.1	20	86	13	59	34	0	0	65	0.93
412241--412283	9	4.7	9	83	13	52	37	0	2	60	1.10
412239--412284	19	2.4	19	82	10	58	36	0	2	60	1.09
421261--421329	21	3.2	21	85	2	93	43	11	0	44	1.40
423525--423556	3	10.7	3	100	0	64	68	0	0	31	0.90
424753--424821	34	2.0	34	100	0	138	28	14	24	31	1.95
426936--426994	30	2.0	30	86	6	84	42	0	0	57	0.98
429453--429514	9	6.5	10	74	20	53	38	0	1	59	1.07
429484--429574	32	2.9	32	75	12	100	43	2	1	52	1.20
430030--430092	20	2.8	22	79	11	58	49	0	0	50	1.00
430029--430074	15	3.1	15	75	15	51	41	0	0	58	0.98
430205--430244	19	2.0	20	85	4	55	47	2	2	47	1.29
431700--431737	2	19.0	2	100	0	76	50	0	0	50	1.00
435903--435968	17	3.8	17	77	20	64	50	1	0	48	1.10
435903--435962	18	3.4	18	76	21	63	50	1	0	48	1.11
435913--435985	29	2.5	28	80	4	83	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)
435896--435973	35	2.2	35	77	8	88	53	2	0	43	1.14
435913--435997	29	2.9	27	72	10	71	51	2	0	45	1.13
435947--435998	23	2.3	23	80	6	61	51	3	0	44	1.19
436009--436055	8	5.8	8	78	14	51	63	0	0	36	0.94
436002--436051	17	2.9	17	80	19	59	62	0	0	38	0.96
437032--437106	21	3.5	21	78	10	73	44	1	0	54	1.08
437057--437126	16	4.5	15	73	18	54	40	0	0	60	0.97
437076--437126	11	4.7	11	82	17	63	37	0	0	62	0.95
437048--437118	37	1.9	37	83	13	94	42	0	0	57	0.98
437375--437408	16	2.1	16	88	0	50	38	0	0	61	0.96
439612--439668	20	2.7	21	78	10	62	54	0	0	45	0.99
439815--439861	15	3.2	15	79	14	53	68	0	0	31	0.90
439815--439870	28	2.0	29	85	3	78	69	0	1	28	0.98
439815--439872	29	2.0	29	83	6	73	68	0	1	29	0.99
440483--440521	16	2.5	16	79	4	53	46	2	5	46	1.38
441765--441801	2	18.5	2	100	0	74	48	0	0	51	1.00
443858--443914	18	3.1	19	75	7	55	64	1	0	33	1.04
444436--444482	3	15.7	3	100	0	94	65	0	0	34	0.93
444638--444682	24	2.0	22	82	8	54	44	2	0	53	1.13
446522--446617	37	2.6	37	85	3	113	34	25	16	23	1.95
451161--451245	37	2.3	37	83	4	100	40	29	10	20	1.86
451950--451981	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454880--454950	30	2.5	28	72	17	65	40	2	0	56	1.14
454919--454966	23	2.0	25	88	12	73	39	2	0	58	1.10
454929--454973	23	2.0	23	86	8	65	40	2	0	57	1.11
455883--455931	21	2.2	23	82	13	59	46	0	2	51	1.12
456608--456639	3	11.3	3	87	12	50	34	0	0	65	0.93
458657--458696	21	1.9	21	90	10	64	37	0	2	60	1.11
459285--459314	3	10.0	3	100	0	60	33	66	0	0	0.92
459600--459629	12	2.5	12	88	0	51	56	0	3	40	1.16
459688--459748	20	3.2	18	76	17	61	54	1	0	44	1.10
459675--459748	26	3.0	25	72	16	66	51	1	0	47	1.09
459688--459748	12	4.8	12	75	16	52	54	1	0	44	1.10
461361--461409	15	3.2	14	82	11	53	32	0	4	63	1.13
465427--465489	23	3.2	18	78	22	72	60	0	0	39	0.97
465420--465464	18	2.6	17	77	19	56	55	0	2	42	1.12
465670--465725	18	3.1	18	78	14	62	71	0	0	28	0.86
466145--466194	21	2.4	21	83	6	57	36	4	10	50	1.55
467852--467889	17	2.2	17	86	9	51	76	2	0	21	0.91
468844--468880	2	18.5	2	100	0	74	48	0	0	51	1.00
468983--469015	5	6.8	5	89	6	50	36	0	0	63	0.95
469256--469302	24	2.0	24	82	0	58	70	0	2	27	0.99
470639--470694	22	2.6	23	83	10	66	33	0	1	64	1.04
470643--470698	14	4.0	14	74	6	51	32	0	1	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470691--470721	16	1.9	16	93	0	53	22	0	19	58	1.40
471358--471386	14	2.0	15	93	6	51	37	0	0	62	0.96
471889--471931	22	2.0	22	100	0	86	37	4	6	51	1.50
472048--472081	8	4.2	8	100	0	68	35	0	0	64	0.94
472619--472646	14	2.0	14	100	0	56	42	0	0	57	0.99
474504--474585	20	3.9	20	66	20	51	52	4	4	37	1.44
474873--474918	23	2.0	22	87	4	65	50	0	2	47	1.13
474865--474942	29	2.6	30	85	2	95	47	1	3	47	1.28
475534--475590	29	2.0	29	86	6	80	29	1	1	66	1.12
477231--477271	20	2.1	20	86	4	57	36	0	0	63	0.95
478875--478914	18	2.2	18	90	0	62	42	5	0	52	1.23
479911--479965	29	1.9	28	89	10	85	63	0	3	32	1.12
479972--480066	32	3.2	28	71	17	77	54	1	0	44	1.07
480022--480064	17	2.6	18	78	14	56	51	0	0	48	1.00
480132--480166	17	2.1	17	89	5	54	45	0	0	54	0.99
482173--482199	4	6.8	4	100	0	54	25	0	0	74	0.83
486624--486665	13	3.2	13	80	16	50	66	0	4	28	1.12
487079--487115	19	1.9	19	89	10	58	59	0	0	40	0.97
487071--487134	20	3.3	19	76	22	69	56	0	0	43	0.99
487310--487352	14	3.0	14	77	16	52	41	6	0	51	1.29
489051--489096	19	2.4	19	85	0	56	58	0	4	36	1.18
489501--489568	24	3.0	21	72	17	64	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489501--489551	13	3.8	13	80	15	52	39	0	0	60	0.97
489501--489568	26	2.8	26	66	27	67	41	0	0	58	0.98
489498--489552	21	2.7	20	81	10	67	40	0	0	60	0.97
489511--489587	18	4.0	20	68	20	56	40	0	0	59	0.97
489571--489623	18	3.2	18	66	20	51	49	0	1	49	1.12
489892--489926	16	2.1	16	89	5	52	62	2	0	34	1.10
490842--490889	24	2.0	24	83	0	60	54	0	0	45	0.99
493937--493963	3	9.0	3	100	0	54	33	0	0	66	0.92
495439--495486	24	1.9	26	84	16	66	50	2	2	45	1.25
495974--496021	14	3.6	14	78	13	57	58	0	0	41	0.98
496068--496109	3	14.7	3	81	18	54	69	0	0	30	0.89
496068--496112	16	2.6	17	93	6	74	68	0	0	31	0.89
496767--496796	3	9.7	3	92	7	51	66	3	0	30	1.07
498415--498480	24	2.8	24	86	8	75	57	0	0	42	0.98
498423--498480	24	2.5	22	88	5	80	56	0	0	43	0.99
498593--498631	19	2.0	20	90	5	62	35	2	2	58	1.25
498807--498837	2	15.5	2	100	0	62	51	0	48	0	1.00
500533--500566	17	1.9	18	88	5	52	41	0	0	58	0.98
501384--501490	30	3.7	29	87	5	135	38	1	0	59	1.08
501490--501546	18	3.2	19	76	16	59	54	0	0	45	0.99
501944--501985	15	2.5	17	75	24	52	42	0	0	57	0.99
501986--502019	17	1.9	17	88	5	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502260--502295	18	2.0	18	88	0	54	66	2	2	27	1.19
502291--502342	12	4.4	12	76	9	54	50	1	1	46	1.23
502451--502489	15	2.5	15	87	4	60	69	2	0	28	1.02
503077--503178	32	3.2	32	79	8	109	43	2	2	50	1.32
503160--503195	17	2.1	17	94	0	63	44	5	8	41	1.58
503396--503464	31	2.3	30	78	9	79	42	1	1	55	1.18
503864--503921	11	5.7	10	75	20	50	65	0	0	34	0.93
503867--503921	18	2.8	20	83	13	69	67	0	0	32	0.91
504903--504962	31	1.9	31	100	0	120	60	8	6	25	1.50
505226--505258	13	2.4	14	85	10	50	3	12	0	84	0.72

Tables:   1   2   3   4   5