genome.fa.s71.2.7.7.80.10.50.1000.18.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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  18  of  33  ( 3929 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)
2836340--2836401	23	2.9	20	79	13	70	35	0	0	64	0.94
2836337--2836410	20	3.5	20	74	13	76	32	0	0	67	0.91
2837814--2837885	24	3.0	24	89	6	92	51	1	6	40	1.37
2837828--2837885	24	2.4	24	97	0	107	53	0	6	39	1.28
2846412--2846983	101	5.6	102	73	15	299	43	4	5	45	1.48
2846820--2846895	24	3.0	24	70	16	64	46	0	1	52	1.08
2846759--2846914	52	3.1	51	68	15	128	46	3	3	46	1.34
2847630--2847691	27	2.3	26	83	10	72	54	0	3	41	1.16
2850320--2850379	28	2.2	28	82	5	70	51	0	3	45	1.17
2850334--2850397	28	2.3	27	91	2	101	42	1	1	54	1.19
2850334--2850406	28	2.6	27	81	12	85	43	1	2	52	1.24
2850489--2850518	14	2.1	15	93	6	53	66	0	0	33	0.92
2850588--2850613	2	13.0	2	100	0	52	50	0	0	50	1.00
2850830--2850860	2	15.5	2	100	0	62	48	0	0	51	1.00
2851092--2851122	16	1.9	16	93	0	53	35	3	0	61	1.12
2852976--2853065	39	2.3	39	84	1	110	14	12	13	60	1.60
2855106--2855161	16	3.4	16	67	13	51	44	0	0	55	0.99
2855757--2855811	21	2.5	23	80	8	71	43	0	0	56	0.99
2855762--2855814	23	2.3	23	83	6	63	45	0	0	54	0.99
2855798--2855851	22	2.5	22	79	11	67	50	0	0	50	1.00
2855800--2855843	21	2.1	21	88	12	65	50	0	0	50	1.00
2856002--2856069	29	2.3	30	87	2	93	47	1	0	51	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2856016--2856068	16	3.4	16	77	17	58	47	1	0	50	1.12
2856002--2856051	13	3.6	14	80	15	59	46	0	0	54	1.00
2861710--2861798	43	2.1	43	83	10	112	49	0	4	46	1.22
2862278--2862326	22	2.2	22	85	10	64	55	2	0	42	1.11
2864398--2864430	2	16.5	2	100	0	66	51	0	0	48	1.00
2867288--2867343	18	3.0	18	78	5	58	44	3	1	50	1.29
2868458--2868495	17	2.2	18	85	4	51	57	2	0	39	1.12
2869874--2869936	21	3.0	21	79	13	67	49	0	0	50	1.00
2870976--2871031	29	1.9	29	82	13	71	50	0	0	50	1.00
2873031--2873065	3	11.7	3	93	0	61	65	2	0	31	1.07
2873442--2873475	16	2.2	15	89	5	50	35	5	14	44	1.70
2885160--2885197	19	2.0	19	85	10	51	44	0	0	55	0.99
2885589--2885618	14	2.1	14	93	0	51	53	0	0	46	1.00
2886114--2886150	17	2.1	18	90	5	58	37	2	0	59	1.12
2886114--2886150	18	2.1	18	89	0	56	37	2	0	59	1.12
2888426--2888497	28	2.5	28	95	2	126	56	18	6	18	1.62
2892412--2892442	16	1.9	16	93	0	53	41	12	0	45	1.42
2892430--2892481	23	2.1	26	82	13	65	46	1	0	51	1.12
2892548--2892588	21	2.0	21	85	9	57	41	9	4	43	1.59
2893182--2893219	19	2.0	19	85	10	51	34	0	0	65	0.93
2894736--2894785	14	3.7	14	73	10	50	60	6	2	32	1.32
2895194--2895269	24	3.3	22	72	15	64	30	3	1	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2896327--2896356	14	2.1	14	93	0	51	43	6	3	46	1.46
2908305--2908346	7	6.0	7	78	10	50	66	0	0	33	0.92
2913877--2913929	2	26.5	2	96	0	97	49	0	1	49	1.12
2915577--2915623	23	2.1	23	88	11	71	36	0	2	61	1.08
2915745--2915861	58	2.0	59	93	1	200	38	17	20	23	1.93
2917389--2917478	44	2.0	44	93	0	153	22	16	10	51	1.74
2917446--2917502	28	2.0	28	96	0	105	21	14	15	49	1.80
2917402--2917549	72	2.1	72	94	0	260	20	16	11	51	1.75
2918466--2918564	9	10.7	9	70	14	58	51	1	3	44	1.23
2918466--2918562	14	6.9	14	70	17	58	52	1	3	43	1.23
2918697--2918725	15	2.0	15	93	6	51	62	3	0	34	1.12
2919146--2919194	21	2.3	22	82	13	66	53	0	0	46	1.00
2920778--2920903	59	2.2	58	88	2	189	50	5	2	41	1.38
2928528--2928704	96	1.8	96	96	0	327	21	33	19	25	1.97
2929932--2930006	38	2.0	38	82	10	91	48	1	2	48	1.24
2935559--2935743	34	5.5	34	85	3	239	40	25	7	27	1.82
2939809--2939871	19	3.3	19	90	0	90	34	19	17	28	1.94
2940173--2940356	34	5.4	34	84	3	237	40	25	7	26	1.82
2941376--2941613	126	1.9	126	90	1	379	21	28	19	29	1.98
2941606--2941647	21	2.0	21	90	4	68	21	28	26	23	1.99
2941480--2941994	147	3.5	146	92	0	805	21	29	19	29	1.97
2943659--2943706	20	2.5	18	78	21	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2945109--2945142	17	1.9	18	88	5	52	70	5	0	23	1.09
2946310--2947300	111	8.9	111	94	0	1552	25	31	20	23	1.98
2948062--2948121	25	2.3	25	80	5	66	63	1	0	35	1.05
2948368--2948413	16	2.9	16	81	12	60	43	0	0	56	0.99
2950374--2950434	16	3.5	16	70	20	50	49	0	0	50	1.00
2950369--2950432	21	3.3	21	66	20	57	48	0	0	51	1.00
2950357--2950409	27	2.0	28	85	10	76	52	0	0	47	1.00
2950372--2950445	37	2.0	37	89	0	112	48	0	1	50	1.09
2950441--2950496	12	4.5	13	76	12	55	42	0	1	55	1.10
2950466--2950564	27	3.6	27	74	8	92	43	1	1	54	1.13
2950946--2951014	34	2.1	34	94	2	122	40	0	13	46	1.43
2952209--2952304	10	9.1	11	70	13	51	60	1	0	38	1.04
2952260--2952288	13	2.1	14	93	6	51	51	0	0	48	1.00
2953197--2953229	5	6.6	5	100	0	66	18	0	39	42	1.50
2953473--2953549	28	2.7	28	76	11	77	48	3	0	48	1.20
2953610--2953710	11	8.8	12	69	25	58	63	0	1	34	1.06
2953824--2954033	69	3.0	69	75	13	180	61	2	1	34	1.20
2953925--2954015	23	4.0	23	67	17	64	67	2	0	30	1.03
2953998--2954068	19	3.8	19	78	12	67	61	1	0	36	1.05
2953929--2954094	8	18.8	9	65	23	59	65	1	0	32	1.08
2954129--2954154	13	2.0	13	100	0	52	0	38	0	61	0.96
2954402--2954436	16	2.1	17	89	5	54	68	2	0	28	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2954735--2954788	22	2.5	20	80	11	63	62	1	0	35	1.06
2954782--2954821	19	2.0	20	95	4	73	60	0	0	40	0.97
2954796--2954832	14	2.5	15	86	8	58	62	0	0	37	0.96
2954918--2954963	21	2.2	21	88	0	65	50	0	0	50	1.00
2954929--2954961	17	2.0	17	88	5	50	45	0	0	54	0.99
2963307--2963352	24	1.9	24	86	0	65	52	0	0	47	1.00
2963424--2963468	18	2.7	17	90	10	67	55	0	2	42	1.12
2963434--2963484	9	5.6	9	75	13	50	56	0	1	41	1.10
2963455--2963524	11	6.5	11	72	18	58	67	0	0	32	0.91
2963458--2963522	22	2.9	22	82	15	80	66	0	0	33	0.92
2963883--2963943	28	2.1	31	84	9	83	34	1	8	55	1.39
2968438--2968474	19	1.9	19	88	0	56	40	8	5	45	1.56
2974984--2975008	13	1.9	13	100	0	50	40	16	8	36	1.77
2975700--2975731	2	16.0	2	100	0	64	50	0	0	50	1.00
2976887--2976943	24	2.4	24	80	8	64	50	0	0	49	1.00
2976913--2976960	18	2.7	18	81	9	55	56	0	0	43	0.99
2982115--2982173	29	2.0	29	87	6	84	40	3	0	55	1.16
2987739--2987768	12	2.5	12	94	0	51	43	0	6	50	1.28
2988344--2988385	18	2.3	18	87	0	57	61	0	0	38	0.96
2988488--2988580	28	3.5	26	75	11	89	47	8	1	43	1.41
2991576--2991607	2	16.0	2	100	0	64	50	0	0	50	1.00
2993220--2993630	148	2.8	147	81	5	431	37	8	11	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995485--2995539	27	2.0	27	82	6	67	50	7	5	36	1.53
2995897--2995929	16	2.0	17	94	5	59	69	0	0	30	0.88
2996227--2996270	20	2.2	20	87	0	61	38	2	0	59	1.10
2996245--2996306	16	3.9	16	75	12	65	41	1	0	56	1.09
2996245--2996306	32	1.9	32	83	6	81	41	1	0	56	1.09
3000684--3000709	13	2.0	13	100	0	52	38	15	15	30	1.88
3000666--3000729	32	2.0	33	87	3	94	40	17	14	28	1.88
3005898--3005982	32	2.5	33	88	7	127	58	0	0	41	0.98
3005884--3006040	16	8.7	18	70	21	75	59	1	0	37	1.13
3007226--3007306	11	8.2	10	75	19	64	66	2	0	30	1.05

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