genome.fa.s66.2.7.7.80.10.50.1000.18.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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   

This is table  18  of  26  ( 3105 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)
3020973--3021008	18	1.9	19	88	5	56	33	0	5	61	1.19
3024460--3024519	21	2.8	22	88	11	90	46	13	6	33	1.69
3025609--3025685	10	7.7	10	69	11	50	38	1	1	58	1.15
3025666--3025703	13	3.0	13	88	3	51	36	0	0	63	0.95
3025772--3025825	14	3.2	17	78	17	51	46	1	0	51	1.11
3027300--3027352	23	2.3	24	75	15	58	54	0	0	45	0.99
3027344--3027370	5	5.4	5	100	0	54	37	0	0	62	0.95
3027300--3027368	28	2.5	28	75	13	72	50	0	0	49	1.00
3028683--3028914	114	2.0	113	94	0	401	28	12	16	43	1.84
3040477--3040529	27	2.0	26	81	3	61	49	0	0	50	1.00
3041287--3041360	35	2.1	35	97	0	139	28	6	20	44	1.76
3046341--3046365	11	2.3	11	100	0	50	32	8	8	52	1.60
3054829--3054872	22	2.0	23	86	13	65	40	4	0	54	1.21
3057207--3057245	18	2.1	18	85	4	51	46	0	2	51	1.14
3057663--3057723	29	2.1	30	81	3	70	54	3	3	39	1.33
3057843--3057904	27	2.2	29	82	5	74	61	1	0	37	1.06
3057857--3057896	20	2.0	20	95	0	71	62	0	0	37	0.95
3061653--3061695	17	2.4	18	80	3	52	62	4	6	25	1.40
3062144--3062170	8	3.4	8	100	0	54	55	0	0	44	0.99
3062144--3062204	16	3.9	16	75	12	63	57	0	3	39	1.15
3065599--3065649	15	3.4	14	77	20	50	49	1	0	49	1.12
3067302--3067345	22	2.0	22	82	8	54	47	2	6	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067608--3067654	3	15.7	3	100	0	94	34	0	0	65	0.93
3069180--3069233	12	4.2	13	73	22	51	38	0	0	61	0.96
3069158--3069233	39	1.9	39	84	10	102	39	0	0	60	0.97
3069159--3069232	27	2.7	27	83	8	80	39	0	0	60	0.97
3069188--3069234	24	2.0	23	83	4	58	42	0	0	57	0.98
3069284--3069310	12	2.2	12	100	0	54	33	7	0	59	1.25
3073873--3074479	154	3.9	153	76	7	491	40	18	16	23	1.91
3074209--3074504	152	1.9	154	79	9	329	41	18	16	22	1.89
3074742--3074766	10	2.5	10	100	0	50	56	8	0	36	1.29
3075957--3076003	12	3.6	12	86	13	58	2	2	14	80	0.89
3076116--3076170	25	2.2	24	83	3	65	5	12	1	80	0.97
3076300--3076351	14	3.3	15	78	10	52	65	0	1	32	1.04
3076439--3076470	17	1.9	16	93	6	55	40	9	12	37	1.75
3076638--3077038	166	2.4	164	78	10	388	48	7	12	32	1.68
3078026--3078078	25	2.1	25	96	0	97	41	28	7	22	1.81
3080407--3080470	26	2.4	26	84	7	85	54	0	0	45	0.99
3080895--3080930	18	1.9	19	88	5	56	38	0	5	55	1.23
3081071--3081126	14	4.1	14	77	9	53	55	1	0	42	1.10
3082247--3082292	16	2.9	16	83	0	56	34	0	6	58	1.24
3082269--3082315	21	2.2	21	88	0	67	44	0	2	53	1.12
3082270--3082340	36	2.0	35	83	8	90	43	0	2	53	1.15
3082283--3082358	31	2.7	29	82	13	95	43	0	2	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082207--3082347	5	27.0	5	67	14	54	40	0	4	55	1.19
3082265--3082375	52	2.1	50	82	12	127	39	0	2	56	1.19
3082577--3082610	11	3.1	11	86	0	50	73	0	0	26	0.83
3082596--3082704	32	3.3	33	81	10	125	56	0	0	43	0.99
3082560--3082718	35	4.7	32	70	16	99	59	0	0	39	1.02
3082585--3082718	35	4.0	35	72	14	113	58	0	0	41	1.03
3082826--3082852	3	9.0	3	100	0	54	66	0	0	33	0.92
3083376--3083436	31	2.0	31	93	0	104	50	3	11	34	1.55
3083581--3083630	21	2.3	21	83	13	57	48	2	2	48	1.24
3087946--3087999	27	2.0	27	92	0	90	37	18	25	18	1.94
3090466--3090513	19	2.5	19	93	0	78	35	14	12	37	1.84
3090566--3090590	13	1.9	13	100	0	50	32	16	16	36	1.90
3090599--3090719	52	2.3	52	95	0	224	34	18	19	28	1.95
3091187--3091211	13	1.9	13	100	0	50	36	16	16	32	1.90
3091200--3091247	17	2.6	19	90	6	73	31	12	20	35	1.90
3091333--3091461	52	2.5	52	89	0	204	36	17	16	29	1.92
3093593--3093662	27	2.6	27	90	0	113	25	44	17	12	1.84
3103645--3103670	2	13.0	2	100	0	52	50	0	0	50	1.00
3106194--3106244	12	4.3	12	71	14	52	45	0	0	54	0.99
3106174--3106332	20	8.2	20	69	17	79	40	2	5	52	1.37
3106752--3106798	21	2.2	21	96	0	85	48	2	8	40	1.45
3107430--3107460	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109932--3109959	2	14.0	2	100	0	56	0	50	0	50	1.00
3126849--3126890	2	21.0	2	100	0	84	50	0	0	50	1.00
3130710--3131420	355	2.0	355	98	0	1368	24	20	16	38	1.92
3136291--3136333	21	2.0	22	86	4	61	23	2	16	58	1.50
3136806--3136878	29	2.5	29	90	0	110	46	0	12	41	1.41
3140515--3140566	23	2.3	23	90	6	81	65	0	1	32	1.04
3141374--3141416	3	14.3	3	100	0	86	32	0	0	67	0.91
3141590--3141620	3	10.3	3	92	0	53	35	0	0	64	0.94
3148153--3148200	21	2.3	22	82	10	64	62	0	0	37	0.95
3148831--3148894	29	2.2	28	77	5	65	40	1	4	53	1.31
3148843--3148887	21	2.1	21	83	0	54	35	0	0	64	0.94
3149060--3149106	18	2.5	19	80	13	62	31	0	0	68	0.90
3149060--3149106	17	2.5	19	83	10	62	31	0	0	68	0.90
3152754--3152821	30	2.2	31	82	10	86	54	1	0	44	1.09
3152779--3152852	25	3.0	24	79	11	71	56	0	0	43	0.99
3152806--3152865	27	2.3	27	86	11	88	58	0	0	41	0.98
3154761--3154792	14	2.3	15	89	10	50	75	0	9	15	1.05
3161881--3161927	24	2.0	24	91	0	76	42	6	0	51	1.27
3161884--3161938	24	2.3	24	83	0	65	45	3	0	50	1.19
3162908--3162936	7	4.1	7	100	0	58	55	0	0	44	0.99
3162910--3162979	14	5.1	13	74	20	54	51	1	1	45	1.18
3163457--3163493	19	1.9	19	88	0	56	27	16	16	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168302--3168339	15	2.4	16	86	8	60	15	10	13	60	1.59
3170560--3170634	20	3.8	20	78	0	87	34	13	12	40	1.81
3170560--3170637	40	2.0	39	87	2	111	34	12	12	39	1.82
3171545--3171600	22	2.5	23	94	5	105	17	10	8	62	1.52
3171553--3171607	22	2.6	21	88	5	58	20	9	9	61	1.52
3175691--3175727	15	2.5	15	95	0	65	32	37	8	21	1.83
3179114--3180858	27	64.0	27	94	1	2905	22	35	14	27	1.93
3179114--3180858	218	8.0	216	94	1	2889	22	35	14	27	1.93
3180841--3181697	32	26.8	32	93	0	1423	31	34	18	15	1.92
3182180--3182254	20	3.8	20	78	0	87	34	13	12	40	1.81
3182180--3182257	40	2.0	39	87	2	111	34	12	12	39	1.82
3183165--3183220	22	2.5	23	94	5	105	17	10	8	62	1.52
3183173--3183227	22	2.6	21	88	5	58	20	9	9	61	1.52
3187672--3187766	30	3.5	30	64	26	84	26	14	14	44	1.84
3187652--3187785	50	2.7	48	87	6	187	26	14	14	44	1.84
3190138--3190882	157	4.7	158	81	6	789	27	25	13	33	1.93
3190138--3190882	79	9.4	78	82	7	767	27	25	13	33	1.93
3190138--3190890	236	3.2	231	81	8	856	28	25	13	33	1.93
3192050--3192125	38	2.0	38	97	0	143	32	13	17	36	1.88
3192335--3192391	13	3.9	13	76	24	60	35	14	17	33	1.90
3192315--3192412	32	3.0	32	96	1	178	34	12	17	35	1.87
3192313--3192410	19	5.8	18	71	28	90	33	12	17	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3192453--3192477	13	1.9	13	100	0	50	32	16	16	36	1.90
3196061--3196100	17	2.3	18	86	4	55	30	12	5	52	1.60
3196632--3196663	2	16.0	2	100	0	64	50	0	0	50	1.00
3197288--3197461	54	3.3	54	69	15	159	47	1	4	47	1.31
3197313--3197470	48	3.2	47	66	16	129	46	1	4	48	1.30
3197414--3197469	26	2.3	26	85	11	75	46	0	1	51	1.11
3202653--3202706	22	2.4	23	75	9	58	29	12	3	53	1.56
3205976--3206029	22	2.4	23	75	9	58	29	12	3	53	1.56
3207390--3207445	29	1.9	29	82	7	69	44	7	0	48	1.30
3208545--3208586	22	1.9	22	90	9	68	38	0	0	61	0.96

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