genome.fa.s7.2.7.7.80.10.50.1000.28.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  28  of  37  ( 4421 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)
4873749--4873811	32	2.0	32	84	6	83	17	17	25	39	1.91
4873743--4873815	16	4.6	16	77	0	65	16	17	27	38	1.91
4878629--4878685	21	2.7	22	70	26	59	12	8	22	56	1.63
4878850--4878905	19	2.9	19	89	2	76	35	16	17	30	1.92
4879040--4879081	22	1.9	22	95	0	75	35	14	16	33	1.89
4879457--4879502	22	2.0	23	87	4	67	32	26	0	41	1.56
4882840--4882870	16	1.9	16	93	0	53	35	9	0	54	1.33
4885958--4885992	15	2.3	15	95	0	61	28	28	0	42	1.56
4887800--4887885	39	2.2	39	83	8	104	34	6	15	43	1.73
4887819--4887929	39	2.8	38	82	5	123	38	7	14	39	1.74
4894243--4894287	24	1.9	23	82	13	56	64	0	6	28	1.19
4898083--4898144	31	2.0	31	100	0	124	29	6	12	51	1.65
4898194--4898354	78	2.0	79	80	7	175	31	6	14	48	1.68
4898356--4898438	39	2.2	37	81	10	96	38	8	13	39	1.75
4905392--4905417	13	2.0	13	100	0	52	30	15	15	38	1.88
4907484--4907526	20	2.1	20	86	4	59	9	30	44	16	1.79
4907801--4907847	21	2.3	21	82	10	62	44	4	19	31	1.70
4907981--4908006	13	2.0	13	100	0	52	38	15	15	30	1.88
4911879--4911923	22	2.1	21	84	8	56	22	15	6	55	1.63
4911868--4911923	21	2.7	21	75	13	62	23	14	7	55	1.63
4912506--4912539	12	2.8	12	90	0	50	23	35	0	41	1.55
4914047--4914085	19	2.1	19	85	9	53	30	10	15	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4914139--4914164	13	2.0	13	100	0	52	30	15	15	38	1.88
4915011--4915052	10	4.1	10	79	14	50	33	0	4	61	1.17
4916268--4916336	33	2.1	33	91	5	113	34	20	11	33	1.89
4916298--4916335	20	1.9	20	94	0	67	39	18	10	31	1.85
4916290--4916315	13	2.0	13	100	0	52	38	15	15	30	1.88
4916389--4916450	33	1.9	32	90	3	97	41	17	16	24	1.89
4916969--4917056	39	2.2	41	89	4	135	35	25	3	36	1.73
4924324--4924376	20	2.7	20	91	5	81	30	20	13	35	1.91
4927569--4927641	20	3.5	20	83	3	74	36	8	17	36	1.80
4927750--4927776	13	2.1	13	100	0	54	40	14	14	29	1.86
4928664--4928705	21	2.2	18	87	12	57	26	23	11	38	1.90
4928713--4928833	64	1.9	64	92	0	206	29	17	14	38	1.90
4929380--4929424	23	2.0	23	82	8	56	37	17	8	35	1.81
4931906--4931969	33	1.9	32	84	12	85	29	18	15	35	1.92
4932000--4932038	20	2.0	20	100	0	78	30	17	15	35	1.91
4932022--4932048	14	1.9	14	100	0	54	37	14	14	33	1.88
4934354--4934394	21	1.9	22	85	5	57	53	2	19	24	1.57
4938823--4938859	3	12.3	3	94	0	65	29	35	0	35	1.58
4944712--4945195	155	3.1	153	75	5	436	39	19	15	25	1.91
4944802--4945249	155	2.9	154	78	3	389	37	20	16	25	1.93
4946863--4946923	22	2.7	23	75	10	72	3	22	0	73	0.97
4946863--4946909	11	4.4	11	78	10	53	2	23	0	74	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948548--4949235	155	4.4	155	78	3	652	39	20	16	23	1.91
4951031--4951084	20	2.6	21	82	2	65	38	14	12	33	1.85
4951914--4951952	19	2.0	21	90	10	64	5	15	0	79	0.90
4952473--4952521	20	2.5	20	83	3	64	24	12	18	44	1.84
4952567--4952609	13	3.3	13	93	0	77	30	9	16	44	1.79
4953699--4954163	165	2.8	163	83	6	530	51	7	11	30	1.65
4954059--4954086	14	2.0	14	100	0	56	64	7	7	21	1.43
4958498--4958523	13	2.0	13	100	0	52	30	15	15	38	1.88
4961067--4961105	13	3.0	13	100	0	78	38	15	15	30	1.88
4963184--4963214	15	2.1	15	93	0	53	12	22	16	48	1.80
4964967--4965005	20	1.9	21	89	5	62	23	10	10	56	1.63
4966884--4966911	9	3.1	9	100	0	56	57	21	10	10	1.63
4975324--4975443	58	2.1	58	100	0	240	39	11	25	24	1.89
4978058--4978144	1	87.0	1	73	0	66	86	9	2	2	0.75
4978059--4978144	8	10.6	8	80	14	97	86	9	2	2	0.76
4978060--4978144	33	2.6	35	85	10	117	85	9	2	2	0.76
4979417--4979618	32	6.4	32	83	3	250	31	30	17	19	1.95
4979364--4980053	28	23.4	29	81	7	589	30	29	17	22	1.97
4979364--4980053	57	11.7	57	80	7	593	30	29	17	22	1.97
4980926--4981000	20	3.8	20	87	0	114	32	14	13	40	1.85
4982005--4982043	20	1.9	21	89	5	62	25	10	10	53	1.66
4984249--4984274	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4990430--4990466	13	2.8	13	87	0	56	35	18	13	32	1.90
4995128--4995357	98	2.4	96	80	9	259	35	13	23	27	1.93
5001456--5001483	13	2.2	13	100	0	56	39	17	14	28	1.89
5001526--5001590	33	2.0	33	87	0	94	40	13	12	33	1.82
5001546--5001570	13	1.9	13	100	0	50	32	16	16	36	1.90
5002481--5003013	49	11.1	52	76	15	209	32	17	24	24	1.97
5002548--5003058	43	11.1	43	82	11	572	31	18	25	25	1.98
5002508--5002974	92	5.0	92	97	0	862	31	18	24	25	1.97
5002871--5003025	51	3.1	51	91	4	244	29	19	25	25	1.98
5003053--5003116	33	1.9	33	96	0	119	17	18	34	29	1.94
5003125--5003576	34	13.6	34	73	11	287	33	13	32	20	1.92
5003292--5003408	61	1.9	61	92	0	198	27	15	35	22	1.94
5003237--5003471	129	1.8	130	87	4	359	34	12	32	20	1.90
5003125--5003562	231	1.9	226	84	5	576	34	13	32	19	1.91
5003519--5003672	62	2.5	61	88	5	227	29	15	31	23	1.95
5003520--5003680	32	5.2	30	84	10	191	29	14	32	22	1.94
5004616--5004642	10	2.7	10	100	0	54	0	0	7	92	0.38
5004616--5004645	11	2.8	11	95	5	53	0	0	10	90	0.47
5011945--5011972	13	2.2	13	100	0	56	39	17	14	28	1.89
5012015--5012079	33	2.0	33	87	0	94	40	13	12	33	1.82
5012035--5012059	13	1.9	13	100	0	50	32	16	16	36	1.90
5012566--5012619	20	2.7	20	94	0	90	31	12	7	48	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5015863--5015888	13	2.0	13	100	0	52	30	15	15	38	1.88
5016512--5016602	39	2.3	41	81	9	116	35	23	4	37	1.75
5017964--5018006	20	2.1	20	86	4	59	9	25	44	20	1.81
5018420--5018457	13	2.9	13	96	0	67	31	15	18	34	1.92
5020538--5020568	15	2.1	15	93	0	53	12	22	16	48	1.80
5025006--5025449	81	5.6	79	84	5	486	31	27	9	31	1.89
5025033--5025447	160	2.6	158	81	4	483	31	27	10	31	1.90
5026511--5026844	44	7.6	43	72	8	199	20	20	16	41	1.90
5026511--5026864	88	4.0	87	72	10	288	20	21	16	42	1.89
5026463--5026939	132	3.6	132	80	0	506	21	23	15	39	1.92
5027224--5027328	40	2.5	42	75	6	106	17	24	15	42	1.87
5028576--5028983	166	2.5	166	82	3	446	28	11	11	48	1.73
5028985--5029102	52	2.2	52	80	8	132	20	26	14	38	1.91
5029042--5029201	61	2.6	61	81	5	182	23	26	15	34	1.94
5030794--5030999	97	2.1	98	78	7	215	29	22	12	35	1.90
5033746--5033801	19	2.8	20	79	12	71	33	12	17	35	1.88
5034385--5034563	58	3.1	58	93	0	295	44	15	5	34	1.70
5036470--5036503	13	2.6	13	95	0	59	35	14	14	35	1.87
5039803--5039854	19	2.7	20	84	6	70	40	17	13	28	1.87
5040292--5040358	37	1.9	35	88	11	102	32	11	25	29	1.92
5042753--5042897	70	2.1	70	97	0	272	30	6	13	48	1.69
5043638--5043662	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5045501--5045526	13	2.0	13	100	0	52	38	15	15	30	1.88
5045483--5045546	32	2.0	33	87	3	94	40	17	14	28	1.88
5045984--5046050	37	1.9	35	88	11	102	32	11	25	29	1.92
5048445--5048589	70	2.1	70	98	0	281	30	6	14	48	1.70
5049331--5049355	13	1.9	13	100	0	50	36	16	16	32	1.90
5051194--5051219	13	2.0	13	100	0	52	38	15	15	30	1.88
5051176--5051239	32	2.0	33	87	3	94	40	17	14	28	1.88
5051677--5051743	37	1.9	35	88	11	102	32	11	25	29	1.92
5059366--5059401	13	2.8	13	91	0	54	33	19	16	30	1.94
5061967--5062035	34	2.1	32	86	10	95	33	15	15	34	1.90

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