genome.fa.s32.2.7.7.80.10.50.1000.3.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   30   31   32   
          33   

This is table  3  of  33  ( 3877 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)
397062--397159	51	1.9	51	82	0	124	35	9	23	31	1.86
397419--397557	72	1.9	72	94	0	242	26	12	25	35	1.91
402081--402119	13	3.0	13	92	0	60	35	15	20	28	1.93
404181--404215	15	2.2	16	90	5	54	17	22	14	45	1.84
405375--405581	79	2.6	79	82	1	236	29	16	29	24	1.97
405533--405604	28	2.6	28	84	0	81	26	19	31	22	1.97
405796--405871	27	2.8	26	88	9	100	21	22	34	22	1.97
405597--405976	52	7.3	53	70	13	207	32	13	25	28	1.93
408330--408355	13	2.0	13	100	0	52	38	15	15	30	1.88
415456--415758	79	3.9	77	79	6	281	32	12	26	29	1.92
415457--415759	158	1.9	158	82	7	384	32	12	26	29	1.93
415692--415841	51	2.9	51	91	0	237	34	8	24	33	1.84
424365--424389	13	1.9	13	100	0	50	32	16	16	36	1.90
424346--424408	32	1.9	33	90	3	101	38	15	15	30	1.89
424889--425228	158	2.2	157	82	5	411	28	10	16	45	1.79
425814--426471	150	4.4	150	83	5	769	27	18	17	36	1.94
425814--426471	300	2.2	299	86	5	886	27	18	17	36	1.94
427300--427337	19	2.0	19	94	0	67	31	23	15	28	1.96
431019--431052	15	2.3	15	100	0	68	38	17	8	35	1.81
433207--433279	20	3.7	20	85	3	94	38	10	15	35	1.82
433915--434048	61	2.2	61	85	6	182	37	12	27	22	1.90
434105--434559	52	8.7	52	74	8	239	35	15	23	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434090--434458	104	3.5	104	75	10	361	36	15	23	24	1.93
433931--434419	217	2.3	217	88	0	710	36	15	23	24	1.93
434201--434690	52	10.0	49	74	10	312	33	16	25	23	1.95
434515--434646	43	3.1	43	80	0	165	30	17	27	25	1.97
434745--434890	32	4.6	33	81	9	169	26	17	28	27	1.98
434991--435046	27	2.1	27	86	0	76	26	12	35	25	1.91
435075--435360	30	9.0	32	76	10	221	35	14	29	20	1.93
443196--443342	20	6.8	20	77	14	150	29	15	12	42	1.84
443186--443280	50	1.9	50	97	0	181	27	17	11	43	1.84
443877--443902	10	2.6	10	100	0	52	46	46	0	7	1.31
446896--446947	17	3.1	16	81	10	50	75	0	23	1	0.91
449345--449429	20	3.7	20	71	28	71	43	11	16	28	1.83
449435--449462	10	2.8	10	100	0	56	17	28	0	53	1.44
452557--452612	20	2.8	20	97	0	103	33	8	10	46	1.70
452650--452703	21	2.7	20	75	8	56	35	12	12	38	1.82
454172--454224	25	2.2	24	87	9	74	62	3	1	32	1.24
455507--455578	16	4.4	16	71	10	65	56	5	0	37	1.22
455607--455639	16	2.1	16	94	0	57	51	3	3	42	1.32
455864--455917	19	2.7	20	80	11	65	31	0	0	68	0.90
455993--456040	20	2.4	21	79	10	64	35	0	0	64	0.94
456044--456088	16	2.9	16	81	15	58	44	0	0	55	0.99
456047--456132	7	11.6	8	72	17	53	43	1	1	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456084--456140	16	3.6	16	74	13	55	42	1	1	54	1.21
458279--458319	14	2.9	14	92	0	64	9	12	0	78	0.98
458282--458319	7	5.4	7	87	0	58	10	13	0	76	1.02
458652--458697	2	23.0	2	95	0	83	47	0	2	50	1.13
463940--464010	35	2.0	35	94	0	124	56	7	12	23	1.61
464269--464302	3	11.3	3	100	0	68	67	0	0	32	0.91
464906--464949	22	2.0	22	86	4	61	47	2	0	50	1.13
465019--465058	19	2.1	19	85	0	53	32	5	0	62	1.17
467617--467652	2	18.0	2	100	0	72	50	0	0	50	1.00
469340--469372	4	8.2	4	93	0	57	21	0	0	78	0.75
470869--470903	17	2.0	18	88	5	54	65	0	0	34	0.93
471516--471545	15	1.9	16	93	6	53	16	0	10	73	1.09
473305--473329	5	5.0	5	100	0	50	80	0	0	20	0.72
473335--473363	13	2.2	13	100	0	58	27	0	0	72	0.85
474787--474853	20	3.3	20	82	2	71	43	8	13	34	1.75
474815--474862	20	2.5	20	89	3	71	50	8	12	29	1.69
476102--476153	27	1.9	27	88	7	79	23	21	5	50	1.70
476488--476551	27	2.2	28	81	13	76	46	3	3	46	1.34
476957--476984	13	2.2	13	100	0	56	28	14	17	39	1.89
477902--477947	21	2.2	20	82	14	58	26	17	15	41	1.88
483853--483927	20	3.8	20	82	7	98	38	10	16	34	1.83
484846--485715	60	14.7	60	83	7	805	23	16	30	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484846--485697	89	9.6	90	83	6	933	23	16	30	28	1.97
484846--485715	28	29.4	30	84	7	814	23	16	30	28	1.96
486977--487027	17	2.9	17	80	19	61	5	13	9	70	1.32
493155--493280	52	2.4	52	93	0	225	25	19	19	34	1.96
493586--493640	21	2.6	22	83	11	71	34	12	20	32	1.90
495320--495353	12	2.8	12	90	0	50	41	0	35	23	1.55
500018--500064	21	2.3	20	82	10	60	31	19	4	44	1.70
502445--502486	13	3.0	14	82	10	59	40	21	14	23	1.90
504732--504770	20	2.0	19	95	5	69	35	23	10	30	1.88
504780--504804	13	1.9	13	100	0	50	32	16	16	36	1.90
504792--504844	20	2.6	21	82	8	65	37	16	16	28	1.91
504885--504937	20	2.7	21	85	11	76	35	20	13	30	1.91
507832--507899	22	3.1	22	64	26	54	30	16	25	27	1.96
507811--507878	21	3.2	20	66	25	50	29	16	26	27	1.97
507916--508857	92	9.9	92	82	10	970	33	17	23	26	1.96
507769--508857	49	22.8	49	79	13	1119	33	16	23	26	1.96
507916--508857	239	4.0	235	90	4	1359	33	17	23	26	1.96
507765--508857	380	2.9	383	90	5	1716	33	16	23	26	1.96
508760--508858	52	1.9	52	93	0	171	35	17	24	23	1.95
508889--509218	33	9.8	33	86	4	322	33	12	33	20	1.90
509215--509666	30	14.8	30	78	12	235	28	17	28	25	1.97
509198--509675	61	7.8	60	87	5	504	27	17	29	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509246--509676	91	4.7	91	83	5	523	27	16	30	25	1.97
509138--509677	61	8.8	62	84	6	442	28	16	30	24	1.96
510867--510912	12	3.8	12	83	13	58	0	0	19	80	0.71
510869--510917	25	2.0	25	88	8	73	2	0	18	79	0.83
517097--517542	173	2.6	174	82	1	527	42	10	12	34	1.76
517891--517931	16	2.7	16	81	7	50	21	0	2	75	0.92
518511--518553	22	1.9	23	85	4	61	58	4	2	34	1.32
519347--519400	16	3.4	16	74	25	60	42	0	1	55	1.10
527489--527513	12	2.1	12	100	0	50	52	8	0	40	1.31
528037--528096	31	1.9	31	83	6	77	53	18	15	13	1.73
528712--528770	23	2.6	23	83	2	75	44	28	5	22	1.74
529617--530125	254	2.0	254	99	0	1000	30	14	15	39	1.88
530809--530877	33	2.1	33	86	5	95	31	11	20	36	1.88
537237--537286	22	2.3	22	85	0	64	84	14	2	0	0.72
538578--538788	30	6.9	31	78	11	211	24	27	17	30	1.97
538584--538788	61	3.3	61	85	7	265	25	27	18	29	1.98
538897--538988	33	2.8	33	93	0	157	32	33	18	15	1.92
538990--540100	49	22.7	49	87	3	1508	25	26	17	31	1.97
538991--540055	98	10.9	98	92	1	1696	25	26	17	31	1.97
538991--540055	293	3.6	294	93	1	1773	25	26	17	31	1.97
541474--541532	19	3.1	19	85	2	82	32	13	16	37	1.88
541561--541609	20	2.5	20	100	0	98	32	14	20	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541899--541966	19	3.9	18	73	23	74	33	10	16	39	1.82
541901--541963	32	2.0	32	93	0	108	33	11	17	38	1.85
542007--542031	13	1.9	13	100	0	50	32	16	16	36	1.90
542040--542165	52	2.4	52	93	0	216	37	18	18	26	1.93
551389--551426	13	2.9	13	92	0	67	28	13	18	39	1.88
553317--553380	22	2.9	22	90	0	101	34	1	32	31	1.68
554050--554114	33	2.0	33	87	6	96	35	13	15	35	1.87
554995--555023	12	2.4	12	100	0	58	24	17	41	17	1.90
561878--561934	19	2.9	19	84	2	78	31	17	14	36	1.89
566966--566991	13	2.0	13	100	0	52	38	15	15	30	1.88

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   30   31   32   
          33