genome.fa.s72.2.7.7.80.10.50.1000.34.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  34  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)
4925448--4925711	99	2.6	99	86	2	343	34	18	13	33	1.90
4925969--4926017	21	2.3	22	82	7	64	55	0	2	42	1.11
4926668--4926707	6	6.7	6	83	11	55	60	0	0	40	0.97
4926668--4926707	17	2.2	19	91	8	66	60	0	0	40	0.97
4926680--4926708	13	2.2	13	100	0	58	58	0	0	41	0.98
4927482--4927520	19	2.1	18	85	4	51	64	0	0	35	0.94
4927493--4927565	25	2.9	24	80	13	67	63	0	0	36	0.95
4933589--4933614	2	13.0	2	100	0	52	0	50	0	50	1.00
4934348--4934393	18	2.7	17	83	9	58	52	2	0	45	1.13
4934809--4934872	20	3.2	20	70	22	53	59	1	0	39	1.07
4934886--4934938	23	2.3	23	83	6	72	50	0	1	47	1.12
4934965--4935045	34	2.4	35	77	8	96	54	0	0	45	0.99
4935001--4935035	18	1.9	18	88	0	52	65	0	0	34	0.93
4935025--4935055	5	6.2	5	92	0	53	45	0	0	54	0.99
4938537--4938578	22	1.9	22	95	0	75	42	2	11	42	1.54
4944155--4944204	19	2.7	17	82	14	55	40	0	0	60	0.97
4944179--4944206	13	2.2	13	100	0	56	39	0	0	60	0.97
4944210--4944244	13	2.7	13	83	16	54	68	0	0	31	0.90
4944664--4944724	16	3.6	16	70	12	50	59	0	0	40	0.98
4944688--4944732	13	3.5	13	79	11	56	53	0	0	46	1.00
4944688--4944748	13	4.6	13	74	10	52	55	0	1	42	1.09
4944670--4944748	27	2.9	27	77	7	79	58	0	1	40	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4944652--4944742	35	2.6	33	71	10	83	56	1	0	42	1.06
4948009--4948043	18	1.9	18	88	0	52	54	2	2	40	1.30
4952597--4952667	20	3.5	20	74	11	63	46	4	0	49	1.21
4952624--4952671	15	3.2	15	77	11	53	45	4	0	50	1.21
4954184--4954248	29	2.3	28	82	10	78	56	0	3	40	1.15
4954195--4954274	20	4.1	20	69	16	60	58	0	1	40	1.06
4956247--4956273	13	2.1	13	100	0	54	40	0	0	59	0.98
4957300--4957337	17	2.2	17	100	0	76	31	5	15	47	1.68
4959020--4959078	25	2.4	25	80	13	68	57	0	0	42	0.98
4959872--4959902	2	15.5	2	100	0	62	51	0	0	48	1.00
4961542--4961582	17	2.4	17	87	0	55	53	0	2	43	1.13
4962155--4962199	19	2.3	20	80	3	56	46	0	0	53	1.00
4962420--4962449	2	15.0	2	100	0	60	50	0	0	50	1.00
4963675--4963738	25	2.4	26	82	15	78	37	0	1	60	1.06
4964390--4964433	14	3.1	14	81	15	54	59	0	0	40	0.98
4965610--4965706	42	2.3	43	81	15	105	50	0	0	49	1.00
4966003--4966057	14	3.9	14	79	11	58	36	0	0	63	0.95
4966003--4966060	29	2.0	30	83	10	75	36	0	0	63	0.94
4966003--4966065	32	2.1	29	85	8	81	38	0	0	61	0.96
4966344--4966416	31	2.3	31	81	9	85	54	0	1	43	1.08
4966368--4966421	9	6.4	9	77	12	53	57	0	0	42	0.98
4966369--4966415	15	3.0	15	75	19	51	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4966886--4966933	15	3.4	14	78	18	55	43	0	0	56	0.99
4968026--4968122	28	3.7	26	78	8	97	49	19	7	23	1.73
4968059--4968124	27	2.4	27	87	7	89	50	18	7	24	1.72
4970001--4970046	21	2.1	22	84	4	58	19	30	19	30	1.97
4972619--4972689	27	2.6	28	88	2	108	49	21	4	25	1.67
4975857--4975948	30	3.1	30	74	12	91	48	1	15	34	1.52
4979504--4979543	17	2.2	19	86	8	57	45	5	0	50	1.23
4981965--4981992	2	14.0	2	100	0	56	50	0	0	50	1.00
4983636--4983670	11	3.3	11	88	8	54	40	0	0	60	0.97
4983675--4983708	16	2.1	17	88	5	52	50	0	5	44	1.26
4983680--4983720	16	2.5	17	84	7	50	46	0	4	48	1.23
4986150--4986269	32	3.8	32	72	19	92	55	2	0	41	1.13
4986735--4986834	39	2.7	39	76	15	106	53	0	1	46	1.07
4987098--4987160	14	4.4	14	76	6	63	38	0	1	60	1.07
4987124--4987162	16	2.6	14	84	11	51	33	0	0	66	0.92
4987406--4987444	15	2.5	16	84	16	55	46	0	0	53	1.00
4987515--4987590	38	2.0	41	82	10	97	36	3	3	55	1.37
4987695--4987756	6	10.3	6	77	19	67	62	0	0	37	0.95
4987693--4987756	23	2.8	21	80	17	65	64	0	0	35	0.94
4987695--4987756	17	3.4	18	75	22	67	62	0	0	37	0.95
4987696--4987755	31	1.9	31	83	12	79	63	0	0	36	0.95
4988962--4989011	24	2.0	26	88	7	77	44	2	0	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996983--4997007	13	1.9	13	100	0	50	32	24	24	20	1.98
4998598--4998626	2	14.5	2	100	0	58	51	0	0	48	1.00
4998752--4998798	3	15.7	3	100	0	94	65	0	0	34	0.93
4999100--4999143	18	2.4	18	81	7	54	63	0	2	34	1.07
4999289--4999334	23	2.0	24	91	4	76	60	0	0	39	0.97
4999875--4999899	2	12.5	2	100	0	50	48	0	0	52	1.00
5000133--5000310	90	2.0	91	93	4	308	33	14	7	44	1.72
5000354--5000513	6	26.2	6	65	25	61	41	0	0	58	1.03
5000335--5000421	26	3.3	26	80	15	83	44	1	0	54	1.07
5000353--5000491	19	7.6	18	71	19	76	41	0	0	58	1.03
5000385--5000504	20	5.8	20	66	22	59	40	0	0	58	1.04
5000364--5000511	67	2.2	67	80	17	152	41	0	0	58	1.03
5000395--5000513	26	4.3	29	70	22	80	41	0	0	57	1.04
5000386--5000512	18	7.2	17	72	19	68	40	0	0	59	1.03
5000412--5000514	17	5.6	17	73	20	66	40	0	0	58	1.05
5000357--5000538	91	2.0	92	81	13	216	40	2	0	57	1.11
5000703--5000732	2	15.0	2	100	0	60	50	0	0	50	1.00
5006578--5006617	2	20.0	2	100	0	80	50	0	0	50	1.00
5015527--5015587	21	2.8	21	85	9	70	39	0	3	57	1.15
5023617--5023667	15	3.3	15	75	2	57	45	0	0	54	0.99
5023622--5023866	10	23.8	11	69	17	86	42	1	0	55	1.09
5023720--5023872	25	6.5	23	69	16	84	39	1	0	58	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5023727--5023781	14	4.2	13	73	17	51	32	0	0	67	0.91
5023719--5023799	23	3.3	23	79	16	83	37	1	0	61	1.04
5023762--5023856	17	5.9	16	69	17	63	44	1	0	54	1.07
5023631--5023893	118	2.3	115	82	10	308	40	1	0	57	1.11
5024719--5024779	12	5.5	11	75	21	56	44	1	0	54	1.10
5024741--5024784	23	2.0	23	82	13	56	47	2	0	50	1.13
5025171--5025222	2	26.0	2	100	0	104	50	0	0	50	1.00
5025954--5025996	18	2.3	18	84	8	50	48	4	0	46	1.22
5027566--5027640	17	4.6	16	77	12	71	52	5	5	37	1.47
5027775--5027811	19	2.1	18	90	10	58	62	0	0	37	0.96
5028461--5028492	2	16.5	2	93	6	57	53	0	0	46	1.00
5028834--5028899	31	2.2	31	76	17	75	51	0	0	48	1.00
5028856--5028898	18	2.4	18	84	0	59	55	0	0	44	0.99
5029006--5029032	2	13.5	2	100	0	54	48	0	0	51	1.00
5029468--5029543	22	3.4	21	70	16	62	50	1	2	46	1.24
5030106--5030163	28	2.1	28	81	12	66	55	1	0	43	1.10
5030489--5030528	15	2.5	16	88	8	55	52	5	0	42	1.23
5030489--5030531	16	2.6	17	85	10	63	51	4	0	44	1.22
5030489--5030587	37	2.8	34	73	20	87	52	4	0	43	1.20
5031032--5031061	8	3.8	8	90	0	51	0	13	0	86	0.57
5031937--5032002	12	5.4	12	74	16	64	63	0	1	34	1.04
5031948--5032034	27	3.3	27	73	15	74	62	0	1	36	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5032066--5032106	4	10.0	4	84	5	55	0	24	0	75	0.80
5032045--5032098	13	4.2	13	77	13	58	0	18	1	79	0.82
5032067--5032108	21	2.0	21	95	0	75	0	21	0	78	0.75
5032071--5032107	17	2.2	17	90	0	56	0	21	0	78	0.75
5032179--5032230	13	4.2	13	82	9	63	63	0	1	34	1.06
5032170--5032230	30	2.0	31	84	9	81	63	0	3	32	1.10
5035532--5035583	24	2.2	23	86	3	68	69	1	0	28	0.99
5035632--5035674	12	3.7	11	84	9	50	72	0	4	23	1.04
5035643--5035675	11	2.8	12	90	4	50	69	0	6	24	1.10
5035733--5035761	14	2.0	15	93	6	51	58	0	0	41	0.98

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