genome.fa.s16.2.7.7.80.10.50.1000.25.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  25  of  35  ( 4175 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)
3708743--3708789	19	2.2	20	82	14	51	4	4	10	80	0.98
3716090--3716115	10	2.6	10	100	0	52	34	11	19	34	1.88
3721162--3721743	156	3.7	155	75	10	493	37	19	17	25	1.93
3723357--3723655	166	1.8	165	81	5	379	48	10	10	30	1.70
3724949--3724973	13	1.9	13	100	0	50	36	16	16	32	1.90
3728200--3728251	2	26.0	2	100	0	104	0	50	0	50	1.00
3728921--3728973	10	5.3	10	88	0	70	49	13	1	35	1.53
3728931--3728973	6	7.2	6	89	0	50	51	11	0	37	1.39
3729422--3729473	2	26.0	2	92	0	86	0	46	3	50	1.20
3737273--3737307	14	2.8	12	84	16	52	48	5	0	45	1.26
3737416--3737534	14	9.1	14	70	16	69	52	1	0	44	1.16
3737437--3737534	12	7.7	12	73	18	74	53	2	1	43	1.19
3737437--3737534	26	3.8	24	77	16	74	53	2	1	43	1.19
3737410--3737519	38	2.9	38	82	6	109	50	1	0	47	1.18
3737465--3737532	26	2.7	25	80	14	77	54	2	1	41	1.24
3740784--3740836	21	2.5	21	75	6	54	20	7	7	64	1.44
3742520--3742569	25	2.0	25	100	0	100	48	12	0	40	1.40
3746952--3747023	36	2.0	35	82	12	85	29	0	6	63	1.20
3746952--3747023	35	2.0	36	84	12	96	29	0	6	63	1.20
3747000--3747040	18	2.3	18	87	4	57	29	0	4	65	1.13
3750307--3750354	21	2.3	20	79	10	53	56	16	8	18	1.65
3752972--3753089	41	2.9	42	84	3	134	44	13	22	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3753910--3754934	166	6.2	164	80	5	1023	30	10	9	49	1.69
3753910--3754934	332	3.1	330	86	3	1323	30	10	9	49	1.69
3762086--3762171	40	2.1	41	84	2	111	38	11	26	23	1.89
3762641--3762762	41	3.0	40	83	4	145	37	11	26	24	1.89
3768545--3768626	39	2.1	39	100	0	164	41	19	9	29	1.83
3771188--3771342	79	2.0	80	86	1	222	30	13	26	29	1.94
3771197--3771370	79	2.2	79	83	1	204	31	14	24	29	1.94
3771328--3771396	28	2.5	27	80	4	66	31	20	23	24	1.98
3771380--3771601	51	4.4	51	86	1	284	29	12	27	30	1.93
3771537--3771711	79	2.2	79	92	0	287	28	16	28	27	1.97
3771663--3771738	27	2.7	29	88	6	104	19	19	35	25	1.95
3774031--3774085	20	2.8	20	100	0	110	40	10	14	34	1.81
3774123--3774148	13	2.0	13	100	0	52	38	15	15	30	1.88
3774201--3774252	21	2.6	21	90	6	81	32	15	13	38	1.86
3774879--3774978	42	2.4	42	81	8	116	42	9	29	20	1.82
3775071--3775650	55	10.3	54	87	6	755	22	21	28	27	1.99
3775514--3775601	26	3.3	26	66	20	72	22	20	30	26	1.98
3776735--3776792	11	5.7	10	80	13	57	3	1	8	86	0.76
3776742--3776789	5	9.6	5	80	8	53	4	0	10	85	0.73
3776735--3776792	13	4.4	13	77	18	57	3	1	8	86	0.76
3776736--3776792	25	2.3	25	90	6	89	3	1	8	85	0.77
3778646--3778688	22	2.0	22	100	0	86	18	27	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3787019--3787045	4	6.8	4	100	0	54	77	0	0	22	0.76
3787552--3787648	19	5.8	18	71	27	88	34	12	16	37	1.86
3787554--3787650	32	3.0	32	96	0	176	35	12	16	36	1.86
3787573--3787629	13	3.9	13	76	24	60	35	14	17	33	1.90
3787670--3787735	20	3.7	20	71	26	74	27	16	15	40	1.88
3787689--3787714	13	2.0	13	100	0	52	30	15	15	38	1.88
3787670--3787735	33	2.0	33	96	0	123	27	16	15	40	1.88
3787723--3787851	52	2.5	52	96	0	231	34	17	18	29	1.94
3794733--3794773	20	2.0	20	100	0	82	90	9	0	0	0.46
3794733--3794771	1	39.0	1	84	0	51	92	7	0	0	0.39
3794733--3794773	11	3.9	11	87	12	68	90	9	0	0	0.46
3796022--3796916	33	28.0	31	72	17	343	20	31	14	33	1.93
3796059--3796171	57	2.0	56	89	1	172	23	32	15	28	1.95
3796118--3796295	95	1.9	93	83	7	229	20	34	14	30	1.92
3796231--3796841	68	9.3	68	72	13	221	20	30	14	34	1.92
3796342--3796387	23	2.0	23	95	0	83	28	30	21	19	1.98
3796308--3796421	57	2.0	58	89	3	176	22	31	17	28	1.97
3796204--3796554	194	1.8	186	80	9	411	19	31	14	33	1.92
3796367--3796510	34	4.3	34	78	12	84	20	32	13	32	1.92
3796365--3796977	31	18.4	35	75	15	375	20	31	14	34	1.92
3796657--3796972	105	3.1	105	89	5	495	18	32	13	35	1.90
3796625--3797010	105	3.7	102	85	8	448	19	31	13	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3796686--3796990	102	3.0	96	87	6	351	18	31	13	36	1.90
3797001--3797129	33	3.9	33	85	2	188	31	34	17	17	1.93
3797129--3797944	49	17.0	49	80	10	866	24	24	17	32	1.97
3797196--3797263	21	3.2	20	66	25	50	26	27	16	29	1.97
3797124--3797878	92	8.0	92	86	7	966	24	25	18	31	1.97
3797451--3797941	101	5.0	100	86	6	605	24	24	17	33	1.96
3797791--3797941	55	2.8	54	80	3	180	25	22	15	36	1.94
3797956--3798053	49	2.0	49	86	4	135	23	27	20	28	1.99
3798609--3798679	19	3.7	19	96	1	124	32	11	18	38	1.86
3798717--3798745	13	2.2	13	100	0	58	27	13	17	41	1.87
3798698--3798763	33	2.0	33	93	0	114	28	13	13	43	1.82
3798698--3798763	20	3.7	20	69	26	65	28	13	13	43	1.82
3798751--3798879	52	2.5	52	94	0	213	35	16	18	29	1.93
3803385--3803442	28	2.0	28	86	10	80	32	12	25	29	1.92
3803348--3803521	79	2.2	79	86	1	231	31	13	25	29	1.93
3803478--3803549	28	2.6	29	88	6	112	27	20	29	22	1.99
3803532--3803702	50	3.4	51	83	7	213	29	12	27	30	1.93
3803639--3803891	79	3.2	78	86	6	332	31	15	24	28	1.95
3806351--3806402	21	2.6	21	87	6	72	30	15	13	40	1.86
3806830--3806881	19	2.7	20	87	6	79	38	19	13	28	1.89
3808086--3808111	13	2.0	13	100	0	52	30	15	15	38	1.88
3808150--3808225	21	3.7	21	80	3	100	28	17	11	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808171--3808243	20	3.6	20	81	3	101	31	19	13	35	1.91
3808150--3808243	41	2.3	41	98	0	179	29	18	12	39	1.88
3808861--3808922	31	2.0	31	96	0	115	45	24	3	27	1.68
3810551--3810597	21	2.3	21	76	23	55	38	4	23	34	1.74
3810718--3810756	13	3.0	13	96	0	69	35	15	17	30	1.91
3810742--3810820	20	3.7	20	70	20	70	45	16	12	25	1.82
3812835--3812865	15	2.1	15	93	0	53	12	22	16	48	1.80
3816928--3816953	13	2.0	13	100	0	52	30	15	15	38	1.88
3816992--3817067	21	3.7	21	80	3	100	28	17	11	42	1.84
3817013--3817085	20	3.6	20	81	3	101	31	19	13	35	1.91
3816992--3817085	41	2.3	41	98	0	179	29	18	12	39	1.88
3819894--3819919	13	2.0	13	100	0	52	30	23	15	30	1.95
3819926--3819971	21	2.1	22	92	4	76	39	8	23	28	1.84
3819959--3819989	10	3.1	10	90	0	53	41	6	29	22	1.78
3820013--3820149	53	2.6	53	95	1	247	27	17	18	37	1.93
3820119--3820189	20	3.5	20	77	11	74	29	12	16	40	1.86
3820229--3820269	21	2.0	21	85	9	57	39	9	12	39	1.76
3820505--3820554	21	2.3	21	80	10	57	56	4	18	22	1.58
3822352--3822382	15	2.1	15	93	0	53	48	16	22	12	1.80
3824450--3824475	13	2.0	13	100	0	52	30	15	15	38	1.88
3826947--3826998	19	2.7	20	87	6	79	38	19	13	28	1.89
3829397--3830117	79	9.3	78	80	8	724	27	25	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3829813--3829943	68	1.9	69	85	1	183	28	25	15	31	1.95
3829881--3830106	80	2.9	79	82	5	262	27	26	14	32	1.94
3832668--3832731	27	2.4	26	77	12	67	76	0	14	9	1.01
3832743--3832785	23	1.9	22	85	4	59	74	0	16	9	1.06
3833826--3833949	44	2.8	44	68	17	103	20	16	15	47	1.82
3833743--3833949	88	2.3	87	83	5	245	21	17	14	47	1.82
3834593--3834625	16	2.0	17	94	5	59	84	6	0	9	0.76
3834881--3834916	18	2.1	18	89	5	56	83	0	2	13	0.76
3839519--3839630	27	4.2	26	83	5	125	24	29	13	33	1.93
3839564--3839828	28	9.4	28	83	4	291	28	31	16	23	1.96

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   27   28   29   30   31   32   
          33   34   35