genome.fa.s140.2.7.7.80.10.50.1000.16.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  16  of  20  ( 2326 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)
2539965--2539999	2	17.5	2	100	0	70	51	0	0	48	1.00
2542790--2542830	19	2.2	19	87	12	59	39	0	0	60	0.96
2546374--2546408	16	2.2	16	89	0	52	40	0	0	60	0.97
2547637--2547713	40	1.9	40	83	0	100	40	11	9	38	1.73
2553067--2553097	12	2.6	12	94	0	53	77	12	0	9	0.99
2556916--2556954	17	2.4	16	87	8	53	33	0	0	66	0.92
2557542--2557629	28	3.2	26	71	16	70	42	5	4	47	1.47
2558564--2558601	16	2.4	16	86	4	51	52	7	5	34	1.53
2558662--2558708	16	2.9	16	87	0	67	63	0	0	36	0.94
2559665--2559712	19	2.7	17	79	17	53	52	2	0	45	1.12
2563336--2563372	17	2.3	15	90	9	56	37	0	0	62	0.96
2562855--2563734	440	2.0	443	89	2	1351	38	8	8	44	1.67
2563734--2563781	15	3.3	15	83	13	57	62	6	0	31	1.20
2565486--2565536	20	2.5	21	90	9	79	39	11	19	29	1.87
2566495--2566544	23	2.2	23	100	0	100	12	12	18	58	1.64
2570759--2570799	3	13.3	3	94	5	73	65	0	0	34	0.93
2571155--2571204	3	16.7	3	100	0	100	66	0	0	34	0.92
2574224--2574263	2	20.0	2	100	0	80	50	0	0	50	1.00
2574508--2574538	2	15.5	2	93	0	53	48	0	3	48	1.17
2575969--2576028	22	2.7	22	72	12	52	46	0	1	51	1.10
2576007--2576045	16	2.4	17	83	12	55	48	0	0	51	1.00
2577249--2577292	3	14.7	3	100	0	88	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2578507--2578546	20	2.2	20	86	13	59	55	0	0	45	0.99
2578515--2578571	29	2.0	29	82	6	71	49	0	3	47	1.18
2578570--2578608	11	3.6	11	83	16	55	51	2	0	46	1.14
2579823--2579873	2	25.5	2	83	0	57	49	7	0	43	1.32
2583525--2583571	14	3.4	14	87	0	76	42	14	0	42	1.46
2583920--2583954	16	2.2	16	89	0	52	31	0	17	51	1.45
2585904--2586015	58	1.9	58	98	0	215	28	20	24	26	1.99
2587505--2587567	17	3.6	17	76	10	56	39	3	1	55	1.25
2587668--2587706	20	2.0	20	89	0	60	51	0	2	46	1.14
2593338--2593384	22	2.1	23	84	7	62	46	0	0	53	1.00
2598739--2598765	13	2.1	13	100	0	54	40	0	0	59	0.98
2599052--2599082	11	2.8	11	95	0	53	35	0	25	38	1.56
2601592--2601636	21	2.1	21	95	0	81	35	15	8	40	1.79
2604154--2604193	19	2.0	20	90	4	64	65	0	0	35	0.93
2604169--2604209	22	2.0	21	85	9	57	65	2	0	31	1.05
2604656--2604706	27	1.9	26	92	4	84	0	19	0	80	0.71
2604673--2604709	19	1.9	19	88	0	56	0	27	0	72	0.84
2604835--2604888	16	3.6	16	74	23	55	53	0	0	46	1.00
2604840--2604883	14	3.2	13	78	9	52	52	0	0	47	1.00
2612801--2612830	2	15.0	2	100	0	60	50	0	50	0	1.00
2615625--2615678	4	13.2	4	78	3	54	1	25	3	68	1.16
2615772--2615858	11	7.8	11	72	11	70	40	0	1	58	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2615804--2615847	17	2.6	17	79	13	54	50	0	0	50	1.00
2615764--2615878	18	6.7	18	74	13	66	37	0	0	61	1.02
2616356--2616401	14	3.1	15	77	22	53	65	0	4	30	1.12
2616783--2616837	15	3.9	15	75	20	55	43	0	0	56	0.99
2616790--2616851	28	2.2	28	80	5	72	38	0	1	59	1.07
2618863--2619081	34	6.5	34	83	4	255	41	25	7	26	1.81
2618861--2619081	68	3.3	67	85	2	307	41	25	7	26	1.81
2618861--2619081	102	2.2	101	85	0	316	41	25	7	26	1.81
2623133--2623184	19	2.7	19	84	0	68	34	19	17	28	1.94
2623491--2623708	34	6.4	34	81	1	233	41	23	7	27	1.81
2623490--2623708	102	2.2	101	88	3	332	42	23	7	26	1.80
2623789--2623818	7	4.1	7	91	8	51	56	0	0	43	0.99
2623789--2623818	15	2.1	14	93	6	51	56	0	0	43	0.99
2624308--2624457	17	8.1	20	68	21	64	39	0	0	59	1.07
2624357--2624442	8	10.1	8	70	21	52	40	1	1	56	1.14
2624331--2624476	77	1.9	76	81	6	179	40	1	0	57	1.12
2625021--2625047	3	9.0	3	100	0	54	33	66	0	0	0.92
2625400--2625455	17	3.2	18	72	10	53	41	0	0	58	0.98
2630940--2630982	2	21.5	2	90	0	68	55	0	44	0	0.99
2630928--2630982	8	7.1	8	85	8	69	58	1	40	0	1.09
2630926--2630988	10	6.3	10	85	7	74	61	1	36	0	1.05
2632770--2632816	16	2.8	17	80	6	60	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2634522--2634556	2	17.5	2	87	0	52	48	2	0	48	1.16
2634809--2634857	18	2.6	19	75	18	57	55	0	0	44	0.99
2634784--2634850	33	2.0	33	91	5	109	55	1	0	43	1.09
2636699--2636741	10	4.2	10	79	5	50	58	4	0	37	1.19
2636667--2636989	175	1.8	176	82	5	422	41	9	6	42	1.64
2636897--2636934	9	4.2	9	83	10	51	55	2	0	42	1.14
2636879--2636934	17	2.9	18	79	15	60	50	5	1	42	1.35
2637114--2637163	26	1.9	26	84	15	68	46	2	0	52	1.12
2637257--2637319	21	3.2	21	68	18	55	42	1	3	52	1.27
2637487--2637519	13	2.5	13	90	9	50	45	0	0	54	0.99
2637668--2637704	19	2.0	18	89	5	56	40	0	0	59	0.97
2637746--2637789	18	2.3	20	84	7	56	61	2	2	34	1.21
2638082--2638107	2	13.0	2	100	0	52	0	50	0	50	1.00
2642712--2642738	13	2.1	13	100	0	54	40	14	14	29	1.86
2642762--2642813	13	3.5	13	73	26	50	36	17	13	32	1.89
2642770--2642831	19	3.6	17	75	24	60	35	16	12	35	1.87
2642762--2642843	32	2.6	32	94	0	137	34	17	13	35	1.88
2648277--2648334	29	2.0	29	87	9	84	41	1	0	56	1.09
2648876--2648921	22	2.0	22	84	12	58	65	2	0	32	1.05
2648963--2649027	20	3.1	21	75	16	64	52	0	1	46	1.10
2648951--2649026	22	3.8	20	78	14	68	52	0	1	46	1.08
2648903--2649023	6	18.1	7	65	27	50	52	0	1	45	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2648866--2649026	15	9.5	17	68	29	55	56	1	1	40	1.15
2648995--2649041	23	2.0	23	91	0	76	61	0	0	38	0.96
2649256--2649287	12	2.6	12	95	5	55	50	0	9	40	1.35
2649344--2649377	17	2.0	17	94	0	59	44	0	0	55	0.99
2649779--2649847	31	2.2	31	80	15	79	27	1	4	66	1.19
2650092--2650128	19	1.9	19	88	0	56	54	0	0	45	1.00
2650124--2650166	21	2.0	21	86	8	61	39	0	0	60	0.97
2653760--2653821	33	2.0	31	90	9	99	51	0	0	48	1.00
2655047--2655077	2	15.5	2	100	0	62	51	0	0	48	1.00
2655421--2655464	22	2.0	22	86	13	63	36	0	0	63	0.95
2657165--2657217	16	3.3	15	82	17	63	49	1	1	47	1.23
2657968--2658038	27	2.6	27	82	8	81	60	1	0	38	1.06
2657965--2658038	8	9.1	8	72	19	55	60	1	0	37	1.05
2657960--2658044	29	3.0	27	77	13	73	61	2	0	36	1.09
2657855--2658055	19	10.9	17	68	21	77	58	2	1	37	1.23
2659378--2659421	18	2.6	18	82	7	56	45	2	2	50	1.27
2661509--2661548	14	2.7	15	84	7	55	35	0	0	65	0.93
2661751--2661780	16	1.9	15	93	6	51	53	0	0	46	1.00
2661840--2661867	12	2.3	12	100	0	56	57	0	0	42	0.99
2663000--2663065	15	4.2	15	72	11	60	37	3	4	54	1.36
2663403--2663485	42	1.9	43	83	13	109	44	0	0	55	0.99
2663441--2663506	28	2.2	28	81	13	69	50	3	0	46	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2664002--2664029	3	9.3	3	100	0	56	64	0	0	35	0.94
2667134--2667165	2	16.0	2	100	0	64	50	0	0	50	1.00
2667770--2667806	2	18.5	2	100	0	74	51	0	0	48	1.00
2668071--2668100	2	15.0	2	100	0	60	50	0	0	50	1.00
2668824--2668866	21	2.0	22	82	13	54	46	2	4	46	1.36
2669389--2669454	27	2.4	28	85	7	82	25	6	21	46	1.74
2672759--2672805	21	2.2	21	100	0	94	65	8	8	17	1.44
2673724--2673798	20	3.8	20	78	3	71	40	10	13	36	1.79
2673721--2673798	40	2.0	39	84	2	102	39	11	12	35	1.80
2674333--2675598	32	39.6	32	97	0	2300	13	18	36	31	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20