genome.fa.s64.2.7.7.80.10.50.1000.28.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   40   41   42   43   44   45   

This is table  28  of  45  ( 5312 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)
4957973--4958022	20	2.5	20	96	0	91	16	20	12	52	1.75
4971581--4971623	18	2.3	20	80	15	56	60	6	20	11	1.54
4973505--4973536	14	2.1	16	88	11	50	40	12	6	40	1.68
4976225--4976272	17	2.7	18	80	9	53	56	4	2	37	1.30
4977213--4977252	2	20.0	2	100	0	80	50	0	0	50	1.00
4981579--4981634	19	2.9	19	94	0	94	33	16	17	32	1.92
4982636--4982692	2	28.5	2	100	0	114	50	0	0	49	1.00
4983607--4983647	16	2.6	16	85	11	50	51	0	2	46	1.14
4983605--4983647	17	2.6	16	82	13	52	51	0	2	46	1.13
4983940--4983983	21	2.1	21	87	8	63	40	13	0	45	1.44
4984761--4984811	26	1.9	26	88	4	75	50	0	0	49	1.00
4984798--4984863	22	3.0	22	73	20	75	43	0	1	54	1.09
4984786--4984852	18	3.7	19	73	16	61	46	0	1	52	1.09
4984825--4985051	35	6.5	36	68	18	119	42	1	2	53	1.21
4984842--4985025	72	2.7	71	81	7	184	43	1	2	52	1.25
4984890--4985052	68	2.3	71	82	5	197	41	1	1	54	1.22
4985193--4985226	18	1.9	17	88	5	50	44	0	0	55	0.99
4985162--4985240	21	3.8	22	83	6	94	44	8	0	46	1.34
4986417--4986445	12	2.5	12	94	5	51	62	0	0	37	0.96
4986422--4986476	20	2.7	20	81	13	67	56	1	0	41	1.10
4986423--4986515	19	4.9	18	72	13	62	53	2	0	44	1.12
4989173--4989260	31	2.8	31	87	0	113	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4994413--4994452	6	6.7	6	91	0	62	32	45	0	22	1.53
4994553--4994748	63	3.1	63	90	0	313	23	27	15	33	1.95
4995744--4995768	2	12.5	2	100	0	50	0	48	0	52	1.00
4996748--4996804	3	19.0	3	100	0	114	33	0	0	66	0.92
4996962--4997030	12	5.7	12	70	14	52	40	0	0	59	0.97
5001888--5001930	2	21.5	2	100	0	86	51	0	0	48	1.00
5005978--5006041	19	3.4	19	82	2	76	46	0	0	53	1.00
5005988--5006146	34	4.6	36	72	12	136	41	1	0	55	1.15
5007300--5007345	6	7.7	6	95	0	83	30	50	2	17	1.58
5007626--5007682	3	19.0	3	92	0	60	33	35	8	22	1.85
5007189--5008182	342	3.0	321	82	6	1182	21	27	13	37	1.91
5009168--5009212	2	22.5	2	100	0	90	0	48	0	51	1.00
5010044--5010093	20	2.5	20	80	0	55	32	0	0	68	0.90
5016170--5016219	4	13.8	4	84	16	65	74	0	26	0	0.83
5016167--5016219	11	4.4	13	77	22	62	73	0	26	0	0.83
5016175--5016214	10	3.9	10	81	18	55	72	0	27	0	0.85
5016171--5016219	7	6.9	7	88	11	73	73	0	26	0	0.83
5018938--5018964	11	2.5	11	100	0	54	44	0	0	55	0.99
5019094--5019172	30	2.6	30	82	11	99	59	0	0	40	0.97
5019275--5019335	16	4.1	16	74	21	60	57	0	0	42	0.98
5019275--5019331	28	2.0	28	93	6	98	56	0	0	43	0.99
5019318--5019368	24	2.1	23	82	10	57	50	1	0	47	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5019345--5019385	15	2.7	15	84	3	55	56	2	0	41	1.13
5020526--5020567	2	21.0	2	100	0	84	50	0	0	50	1.00
5021423--5021452	2	15.0	2	100	0	60	50	0	0	50	1.00
5022747--5022786	21	1.9	21	90	10	64	42	0	0	57	0.98
5023057--5023125	20	3.1	21	73	17	68	49	0	0	50	1.00
5023025--5023125	44	2.4	42	86	6	132	45	0	0	54	0.99
5023046--5023142	44	2.3	41	81	15	103	45	0	0	54	0.99
5023487--5023587	43	2.4	40	80	15	107	39	1	2	55	1.26
5026504--5026572	32	2.2	32	82	12	88	43	7	11	37	1.69
5032065--5032102	12	3.0	12	92	7	58	0	13	0	86	0.56
5032069--5032122	20	2.9	17	83	10	54	1	20	0	77	0.86
5033432--5033809	28	13.2	28	88	6	487	21	18	30	29	1.97
5033414--5034629	56	21.8	56	82	8	967	24	16	30	28	1.96
5033808--5034271	28	16.5	28	84	3	556	23	17	29	29	1.97
5033735--5033874	73	1.9	73	86	4	201	26	17	26	30	1.97
5033707--5033910	102	2.0	101	81	7	236	24	20	26	28	1.99
5033808--5034271	169	2.7	169	90	2	693	23	17	29	29	1.97
5033895--5034595	28	25.2	27	82	7	439	26	15	30	27	1.96
5033944--5034595	55	11.7	55	84	6	532	26	15	31	26	1.96
5034227--5034595	82	4.5	82	87	3	503	29	13	31	24	1.94
5034228--5034627	27	14.5	28	82	7	131	30	14	31	24	1.94
5035951--5035996	23	2.0	24	86	4	67	4	13	10	71	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5043088--5043130	22	1.9	22	85	4	59	2	4	6	86	0.79
5045735--5045946	113	1.9	113	83	3	275	41	8	9	40	1.69
5052764--5053016	59	4.3	58	82	1	310	35	33	14	16	1.89
5057819--5057945	51	2.5	51	84	7	161	35	12	23	28	1.91
5060758--5060792	17	2.1	17	94	0	61	48	14	11	25	1.77
5062390--5062424	2	17.5	2	100	0	70	48	0	0	51	1.00
5064673--5064744	24	2.9	24	79	20	85	51	0	1	47	1.09
5066325--5066368	23	1.9	23	81	9	54	34	0	0	65	0.93
5067029--5067104	13	6.2	13	75	15	72	59	0	1	39	1.06
5067061--5067117	29	2.0	29	89	6	89	61	0	0	38	0.96
5067047--5067121	11	6.6	11	73	24	59	60	0	0	40	0.97
5067047--5067112	18	3.7	17	78	13	71	62	0	0	37	0.96
5067142--5067189	18	2.5	21	74	22	59	39	0	0	60	0.97
5067158--5067193	10	3.8	10	85	14	58	41	0	0	58	0.98
5067152--5067190	18	2.2	17	95	4	69	43	0	0	56	0.99
5068364--5068398	17	2.1	17	94	0	61	48	14	11	25	1.77
5068528--5068588	10	6.4	10	74	24	60	47	0	1	50	1.10
5068518--5068595	27	2.9	27	84	9	113	44	0	1	53	1.08
5070028--5070056	2	14.5	2	100	0	58	48	0	0	51	1.00
5072212--5072272	27	2.3	26	82	2	68	40	13	19	26	1.88
5078567--5078639	20	3.7	20	80	7	69	76	1	17	4	1.01
5078593--5078643	21	2.5	20	84	9	68	80	1	15	1	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5079367--5079501	58	2.4	57	80	10	150	31	6	10	51	1.61
5079409--5079445	19	1.9	19	88	0	56	27	10	8	54	1.63
5079640--5079664	9	2.8	9	100	0	50	44	0	0	56	0.99
5079637--5079712	29	2.6	28	76	12	73	38	6	3	51	1.47
5081044--5081068	11	2.3	11	100	0	50	76	8	0	16	1.02
5083907--5084089	34	5.4	34	82	5	228	41	26	7	24	1.80
5083907--5084089	68	2.7	68	91	0	287	41	26	7	24	1.80
5083907--5084089	102	1.8	101	90	3	296	41	26	7	24	1.80
5087890--5088071	34	5.4	34	82	8	203	43	24	5	26	1.76
5087889--5088071	67	2.7	68	86	1	244	43	24	5	26	1.76
5090451--5090511	27	2.3	26	83	8	79	52	4	1	40	1.33
5091684--5091717	2	17.5	2	93	6	61	50	0	0	50	1.00
5091685--5091727	21	2.0	21	86	0	59	46	6	0	46	1.30
5097916--5097953	20	1.9	20	94	0	67	34	15	7	42	1.76
5097999--5098047	20	2.4	21	86	10	66	28	16	12	42	1.84
5100371--5100419	25	1.9	26	87	4	73	42	4	2	51	1.32
5100455--5100489	13	2.8	12	87	12	52	51	2	0	45	1.16
5101049--5101355	165	1.9	165	86	2	447	43	5	8	42	1.58
5102900--5102953	28	1.9	28	88	7	83	61	0	0	38	0.96
5106106--5106143	13	2.8	14	84	8	60	0	13	0	86	0.56
5107622--5107652	10	3.1	10	90	0	53	35	0	19	45	1.51
5111624--5111662	15	2.4	16	87	12	62	69	5	5	20	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5114660--5114789	64	2.0	64	95	0	233	55	8	13	22	1.65
5114670--5114780	37	3.3	37	63	23	89	54	9	13	22	1.66
5120420--5120473	27	2.0	27	96	0	99	38	3	27	29	1.74
5120460--5120507	17	2.8	17	90	3	69	39	0	37	22	1.55
5120520--5120562	17	2.5	17	80	0	50	41	0	32	25	1.56
5121230--5121292	32	1.9	33	87	3	92	34	12	11	41	1.79
5124112--5124195	38	2.2	38	80	6	98	44	4	0	51	1.22
5124786--5124826	2	20.5	2	94	0	73	48	0	0	51	1.00
5127429--5127454	2	13.0	2	100	0	52	50	0	0	50	1.00
5128139--5128374	86	2.7	87	78	7	257	36	8	23	32	1.84

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   40   41   42   43   44   45