genome.fa.s72.2.7.7.80.10.50.1000.21.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   34   35   36   37   38   39   

This is table  21  of  39  ( 4596 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)
3094836--3095142	53	5.8	52	77	7	255	28	29	14	27	1.95
3094987--3095061	27	2.8	27	74	9	73	29	26	13	30	1.94
3094835--3095142	106	2.9	104	76	10	311	28	29	13	27	1.95
3098912--3098985	20	3.8	20	72	1	69	41	10	12	35	1.77
3099903--3100019	32	3.7	31	82	8	123	22	18	30	28	1.97
3099907--3100027	63	1.9	63	83	9	158	21	19	30	28	1.97
3099907--3100046	31	4.6	32	80	11	134	22	19	30	27	1.98
3099994--3100158	28	5.9	29	84	5	171	24	17	28	29	1.97
3100013--3100375	56	6.6	56	74	12	310	24	19	27	28	1.99
3100013--3100158	28	5.2	28	85	4	172	24	19	27	28	1.98
3100170--3100393	28	7.9	28	79	7	211	25	20	27	27	1.99
3100070--3100259	101	1.9	100	85	5	267	26	21	25	26	1.99
3100171--3100375	86	2.4	86	81	3	245	24	20	27	27	1.99
3100404--3100459	26	2.2	26	80	6	60	42	17	7	32	1.77
3101689--3101732	15	3.1	14	81	9	54	4	0	9	86	0.70
3101689--3101739	20	2.6	18	84	12	57	3	1	9	84	0.83
3115573--3115626	19	2.8	19	78	13	56	38	12	11	37	1.79
3120548--3120604	20	2.7	21	76	13	55	38	3	3	54	1.35
3120572--3120603	11	2.9	11	100	0	64	37	6	0	56	1.25
3120622--3120681	32	1.9	32	86	6	88	45	0	1	53	1.10
3120634--3120682	16	2.9	17	77	20	50	42	0	2	55	1.11
3120698--3120771	23	3.5	22	80	14	84	32	4	2	60	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3120692--3120771	40	2.0	39	80	7	90	32	3	2	61	1.27
3120727--3120773	12	4.0	12	77	5	60	31	0	2	65	1.04
3121074--3121102	4	7.2	4	100	0	58	24	0	0	75	0.80
3122314--3122345	16	1.9	17	93	6	57	0	9	3	87	0.64
3132299--3132499	101	2.0	101	100	0	402	52	8	2	35	1.48
3132482--3132514	12	3.0	11	91	8	50	66	0	0	33	0.92
3132734--3132792	18	3.2	19	79	16	61	66	10	1	22	1.31
3133859--3133891	17	2.0	17	88	5	50	48	6	3	42	1.43
3135055--3135101	23	2.0	23	95	0	85	55	12	14	17	1.70
3139161--3139195	18	2.0	18	88	5	54	62	0	0	37	0.95
3139159--3139202	20	2.4	18	81	11	54	56	0	0	43	0.99
3139175--3139275	38	2.8	36	77	15	102	48	0	0	51	1.00
3139187--3139286	35	2.6	36	81	15	105	45	0	0	55	0.99
3139253--3139290	13	3.1	13	77	14	53	42	0	0	57	0.98
3144634--3144662	2	14.5	2	100	0	58	51	0	0	48	1.00
3147787--3147875	22	4.1	23	71	17	66	48	0	0	51	1.00
3147785--3147865	42	2.0	41	81	16	96	44	0	0	55	0.99
3147874--3147906	14	2.4	14	90	5	50	45	15	9	30	1.77
3151233--3151257	6	4.2	6	100	0	50	32	0	16	52	1.44
3151639--3151697	29	2.0	29	87	6	84	57	1	1	38	1.19
3152926--3152965	14	2.9	15	85	10	50	50	0	2	47	1.14
3155465--3155490	5	5.2	5	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3155979--3156011	2	16.5	2	100	0	66	48	0	0	51	1.00
3157682--3157753	34	2.1	34	82	10	85	43	26	1	29	1.63
3157716--3157777	25	2.6	24	80	7	74	43	22	1	32	1.63
3162352--3162407	22	2.5	22	85	0	76	39	28	0	32	1.57
3162466--3162491	12	2.2	12	100	0	52	61	0	0	38	0.96
3165217--3165254	6	6.5	6	88	11	53	55	0	0	44	0.99
3165210--3165254	16	3.1	16	75	18	53	57	0	0	42	0.98
3165212--3165254	22	1.9	23	86	13	63	55	0	0	44	0.99
3165400--3165440	9	4.8	9	79	8	50	46	0	0	53	1.00
3167241--3167271	15	2.1	15	93	0	53	45	0	3	51	1.17
3167277--3167315	18	2.2	17	90	4	60	53	0	0	46	1.00
3167277--3167317	17	2.3	18	91	4	66	53	0	0	46	1.00
3168011--3168089	23	3.3	24	75	16	76	39	0	5	55	1.22
3168360--3168423	29	2.2	28	84	15	78	37	4	0	57	1.19
3168450--3168551	30	3.4	30	81	5	125	53	2	3	39	1.34
3170566--3170610	23	1.9	24	86	4	65	33	8	2	55	1.43
3170675--3170724	14	3.8	14	82	17	63	38	0	0	62	0.96
3171220--3171249	6	5.0	6	100	0	60	33	0	0	66	0.92
3172850--3172893	12	3.8	12	87	6	72	34	0	0	65	0.93
3173217--3173272	29	1.9	29	85	7	78	60	0	0	39	0.97
3173217--3173281	29	2.3	27	79	15	69	58	1	0	40	1.07
3173632--3173670	19	2.1	19	85	4	53	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3173635--3173671	18	2.0	19	89	5	58	40	0	2	56	1.13
3174200--3174263	30	2.2	29	85	2	83	54	7	1	35	1.39
3175696--3175735	11	3.7	11	83	3	55	60	5	7	27	1.45
3176075--3176141	30	2.2	30	78	7	73	73	5	0	20	1.04
3176105--3176139	18	1.9	18	88	0	52	74	5	0	20	1.02
3176493--3176532	20	2.0	20	85	4	55	60	0	2	37	1.11
3177442--3177466	3	8.3	3	100	0	50	36	0	0	64	0.94
3177902--3177929	6	4.7	6	100	0	56	85	0	14	0	0.59
3179497--3179616	58	2.1	58	100	0	240	31	5	20	43	1.73
3179817--3179891	36	2.1	36	100	0	150	29	24	13	33	1.93
3181720--3181840	18	6.7	18	64	11	68	20	9	28	40	1.85
3181707--3181857	36	4.2	36	95	0	257	21	11	28	37	1.89
3210470--3210496	2	13.5	2	100	0	54	0	0	48	51	1.00
3210805--3210836	9	3.6	9	91	0	55	21	0	0	78	0.76
3212033--3212079	4	11.8	4	100	0	94	51	23	0	25	1.49
3212669--3212704	16	2.2	17	90	5	56	19	0	2	77	0.88
3218187--3218232	16	2.9	16	78	12	58	50	4	10	34	1.57
3218219--3218262	15	2.8	16	79	6	54	59	0	4	36	1.18
3218322--3218365	22	2.0	22	86	0	61	52	0	2	45	1.13
3218389--3218421	15	2.2	15	94	0	57	57	0	0	42	0.98
3218417--3218460	9	5.0	9	83	5	54	40	9	2	47	1.48
3220254--3220289	2	18.0	2	100	0	72	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3220289--3220323	2	17.5	2	100	0	70	48	0	0	51	1.00
3220976--3221007	3	10.7	3	100	0	64	31	0	0	68	0.90
3223993--3224017	6	4.2	6	100	0	50	16	0	0	84	0.63
3224191--3224274	24	3.3	25	80	9	91	51	1	7	40	1.37
3224199--3224273	12	6.2	11	71	18	51	49	1	8	41	1.40
3228136--3228175	21	1.9	21	84	0	53	82	0	5	12	0.82
3231000--3231062	32	2.0	32	84	3	83	30	11	4	53	1.56
3232078--3232121	23	1.9	22	86	9	61	29	0	9	61	1.27
3232078--3232135	21	2.7	23	82	12	61	25	0	8	65	1.21
3232551--3232598	14	3.4	14	75	11	53	60	2	0	37	1.09
3233321--3233345	3	8.3	3	100	0	50	68	0	0	32	0.90
3236739--3236775	19	1.9	19	89	10	58	56	0	0	43	0.99
3237144--3237202	14	4.2	13	77	14	55	38	0	0	61	0.96
3237143--3237195	7	7.2	8	73	26	55	37	0	0	62	0.96
3237407--3237458	15	3.6	14	82	7	68	63	0	1	34	1.06
3237397--3237458	29	2.1	31	88	11	94	59	0	1	38	1.07
3237797--3237843	24	2.0	22	88	8	67	53	0	0	46	1.00
3243901--3243932	16	1.9	17	93	6	57	43	0	0	56	0.99
3244124--3244169	21	2.2	21	88	0	65	47	2	8	41	1.46
3245193--3245223	2	15.5	2	100	0	62	48	0	0	51	1.00
3245550--3245576	2	13.5	2	100	0	54	48	0	0	51	1.00
3248487--3248524	3	12.7	3	100	0	76	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)
3251914--3251966	25	2.1	26	82	10	65	33	1	1	62	1.17
3253692--3253717	13	2.0	13	100	0	52	46	0	0	53	1.00
3253658--3253715	29	1.9	31	86	6	84	55	0	0	44	0.99
3254889--3254921	17	2.0	17	88	5	50	39	3	0	57	1.14
3255695--3255722	2	14.0	2	100	0	56	50	0	0	50	1.00
3256493--3256536	3	14.7	3	100	0	88	68	0	0	31	0.90
3256629--3256666	19	2.1	19	85	14	53	55	0	2	42	1.14
3257223--3257269	2	23.5	2	95	0	85	48	0	2	48	1.13
3257593--3257622	15	2.0	15	93	0	51	53	3	0	43	1.17
3258663--3258700	18	2.1	19	85	5	51	52	0	0	47	1.00

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   34   35   36   37   38   39