genome.fa.s160.2.7.7.80.10.50.1000.16.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  16  of  30  ( 3592 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)
2484895--2485203	120	2.6	119	77	8	286	18	20	11	48	1.79
2485125--2485239	40	2.9	40	79	5	117	20	20	10	48	1.78
2486083--2486137	19	2.9	19	88	0	83	38	14	20	27	1.91
2493731--2493793	33	1.9	33	90	0	99	31	17	15	34	1.92
2493824--2493878	19	2.8	20	86	5	85	34	14	18	32	1.91
2493864--2493890	13	2.1	13	100	0	54	40	14	14	29	1.86
2497077--2497200	52	2.4	51	93	4	205	29	17	18	34	1.94
2497077--2497220	52	2.8	50	84	13	177	30	17	18	33	1.94
2497209--2497233	13	1.9	13	100	0	50	36	16	16	32	1.90
2497274--2497340	33	2.0	33	91	0	107	38	14	11	34	1.84
2497296--2497320	13	1.9	13	100	0	50	32	16	16	36	1.90
2497637--2497691	22	2.5	22	100	0	110	43	14	12	29	1.82
2505087--2505193	21	5.3	18	65	30	56	10	47	1	40	1.48
2505090--2505208	42	2.8	42	94	0	202	10	45	1	42	1.47
2505123--2505198	12	6.9	11	77	15	61	10	47	2	39	1.52
2511923--2511992	28	2.5	28	75	11	72	45	0	4	50	1.21
2523898--2524120	79	2.8	79	78	6	209	31	14	27	26	1.95
2526587--2526612	13	2.0	13	100	0	52	38	15	15	30	1.88
2528223--2528266	14	3.0	14	83	6	52	40	0	0	59	0.98
2532811--2532890	1	80.0	1	100	0	160	0	0	100	0	0.00
2534784--2534838	16	3.4	16	71	28	53	45	0	0	54	0.99
2534776--2534852	32	2.7	27	70	27	68	45	0	1	53	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2535216--2535266	2	26.0	2	96	4	95	49	0	0	50	1.00
2535439--2535562	7	17.7	7	66	13	51	48	11	2	37	1.52
2535477--2535542	33	2.0	33	96	0	123	48	7	3	40	1.47
2535539--2535596	27	2.1	27	87	6	82	48	20	3	27	1.66
2535856--2535899	2	22.5	2	86	4	63	54	2	0	43	1.12
2536347--2536407	32	1.9	32	100	0	122	49	11	3	36	1.55
2536994--2537075	40	2.1	39	97	2	155	29	2	12	56	1.49
2536994--2537100	40	2.7	38	86	11	103	31	3	13	51	1.58
2539702--2539726	13	1.9	13	100	0	50	32	16	16	36	1.90
2539808--2539860	20	2.7	20	96	0	97	39	20	11	28	1.87
2541295--2541319	13	1.9	13	100	0	50	32	16	16	36	1.90
2541419--2541444	13	2.0	13	100	0	52	38	15	15	30	1.88
2541401--2541464	33	2.0	32	90	3	101	39	20	14	26	1.90
2543518--2543571	20	2.7	20	82	8	65	40	9	16	33	1.80
2543626--2543763	52	2.7	50	79	8	143	30	13	12	43	1.81
2547580--2547626	20	2.4	20	85	3	69	29	19	14	36	1.92
2552473--2552575	9	11.1	9	69	15	68	12	43	0	43	1.42
2552475--2552596	12	11.3	11	69	24	82	13	44	0	42	1.43
2552473--2552596	42	3.0	42	95	0	212	13	43	0	42	1.44
2558211--2558255	21	2.1	21	84	8	56	22	20	4	53	1.63
2560450--2560501	19	2.7	20	84	6	70	28	13	17	40	1.87
2560450--2560507	19	3.0	18	80	12	62	25	12	20	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2568776--2568834	27	2.2	27	87	6	84	42	5	16	35	1.71
2569794--2569841	11	4.5	11	75	15	55	54	0	2	43	1.12
2574424--2574468	23	2.0	23	90	0	72	35	13	22	28	1.92
2577726--2577775	2	25.0	2	100	0	100	50	0	0	50	1.00
2579463--2579506	4	11.0	4	90	0	61	43	0	6	50	1.29
2579461--2579506	12	3.8	12	88	0	74	41	0	8	50	1.33
2579686--2579712	2	13.5	2	100	0	54	51	0	0	48	1.00
2581563--2581648	30	2.9	31	79	6	88	47	6	2	43	1.43
2583918--2583948	2	15.5	2	100	0	62	48	0	0	51	1.00
2584633--2584682	15	3.4	14	86	10	64	24	4	8	64	1.38
2595057--2595113	19	2.9	19	86	2	78	33	17	15	33	1.92
2595156--2595211	13	4.7	13	72	20	59	35	12	19	32	1.89
2595145--2595211	34	2.0	33	88	8	100	35	13	17	32	1.89
2595967--2595991	13	1.9	13	100	0	50	36	16	16	32	1.90
2595947--2596013	33	2.0	33	88	0	98	32	11	14	40	1.83
2596054--2596078	13	1.9	13	100	0	50	32	16	16	36	1.90
2596087--2596216	52	2.5	52	91	3	201	33	19	16	31	1.94
2600144--2600174	9	3.4	9	100	0	62	22	0	19	58	1.40
2601590--2601617	13	2.2	13	100	0	56	28	14	17	39	1.89
2601570--2601635	33	2.0	33	88	5	98	30	16	13	39	1.87
2609497--2609541	17	2.6	17	86	10	56	84	13	0	2	0.72
2610041--2610098	20	2.9	20	97	0	107	39	17	15	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2610086--2610110	13	1.9	13	100	0	50	32	16	16	36	1.90
2610338--2610377	18	2.2	18	100	0	80	25	27	30	17	1.97
2623102--2623126	13	1.9	13	100	0	50	36	16	16	32	1.90
2623079--2623146	32	2.1	33	88	2	102	33	11	19	35	1.88
2623179--2623231	20	2.6	21	84	3	72	28	15	15	41	1.87
2625191--2625235	20	2.1	22	88	8	67	4	28	48	17	1.66
2625503--2625543	23	1.9	21	85	14	57	46	2	19	31	1.63
2631747--2631771	13	1.9	13	100	0	50	36	16	16	32	1.90
2633887--2633951	15	4.4	14	81	9	67	81	10	7	0	0.87
2633917--2633949	5	6.8	5	96	3	59	84	15	0	0	0.61
2633884--2633961	10	7.5	10	77	16	61	83	10	6	0	0.81
2633886--2633959	15	4.9	14	75	11	58	82	10	6	0	0.84
2635437--2636380	49	19.8	49	82	6	846	25	25	18	30	1.98
2635437--2636380	98	9.9	97	81	9	948	25	25	18	30	1.98
2635685--2636186	43	11.0	43	79	13	493	25	26	18	29	1.98
2635485--2636220	282	2.6	282	91	1	1169	25	26	18	30	1.98
2635983--2636094	21	5.2	21	64	19	52	25	26	20	26	1.99
2636049--2636380	100	3.4	99	77	8	324	25	25	18	31	1.97
2637096--2637120	13	1.9	13	100	0	50	36	16	16	32	1.90
2641500--2642224	32	22.8	31	82	7	775	22	28	14	33	1.94
2641496--2642258	285	2.7	285	86	4	1044	22	29	14	33	1.93
2642110--2642353	61	4.0	61	82	5	244	22	30	13	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2642205--2642313	27	3.8	27	71	15	101	25	32	12	29	1.93
2642286--2642419	34	4.0	33	81	10	139	17	35	12	34	1.88
2642286--2642419	68	2.0	67	82	10	166	17	35	12	34	1.88
2642419--2642885	39	11.0	39	72	16	313	28	25	18	27	1.98
2642585--2643184	48	12.8	48	72	13	387	25	24	17	31	1.97
2642551--2642935	87	4.4	88	91	0	576	26	25	19	28	1.99
2642852--2643227	100	3.8	98	79	5	323	24	23	17	34	1.95
2642848--2643227	148	2.6	145	77	7	379	24	23	17	34	1.96
2644044--2644071	14	2.0	14	100	0	56	42	7	0	50	1.30
2648567--2649048	233	2.1	234	79	5	510	29	12	16	41	1.85
2654178--2654226	21	2.3	21	85	0	62	26	10	2	61	1.39
2654991--2655021	16	1.9	16	93	0	53	61	3	0	35	1.12
2655121--2655197	32	2.4	32	80	6	86	15	12	24	46	1.81
2655170--2655218	16	3.1	16	85	8	64	14	16	20	48	1.80
2656362--2656405	22	2.0	22	91	8	72	36	4	9	50	1.55
2657717--2657815	27	3.2	31	72	22	84	43	1	2	53	1.19
2657732--2657817	32	3.0	27	76	17	100	46	0	2	51	1.13
2657742--2657808	18	3.8	18	71	26	63	46	0	1	52	1.09
2659768--2659800	14	2.4	14	100	0	66	33	33	12	21	1.90
2660237--2660293	21	2.8	20	79	12	53	29	1	1	66	1.12
2660264--2660305	21	2.0	21	81	9	50	38	0	0	61	0.96
2661445--2661474	2	15.0	2	100	0	60	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)
2662677--2662746	20	3.5	20	86	2	86	35	18	7	38	1.78
2663541--2663688	51	2.9	49	83	5	161	35	14	25	25	1.93
2663550--2663827	101	2.7	101	80	6	294	36	14	23	26	1.92
2663540--2663827	52	5.6	52	76	4	264	36	14	23	26	1.93
2663795--2664003	58	3.6	57	80	5	224	32	14	26	26	1.94
2663795--2664003	116	1.8	115	83	5	278	32	14	26	26	1.94
2664072--2664223	29	5.2	29	81	2	153	26	13	29	30	1.94
2665733--2665802	9	8.8	8	77	13	56	11	1	5	81	0.92
2665723--2665801	29	2.5	31	80	14	90	12	3	5	78	1.05
2665733--2665802	17	4.2	17	80	5	65	11	1	5	81	0.92

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