genome.fa.s9.2.7.7.80.10.50.1000.10.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  10  of  97  ( 11551 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)
4829104--4829143	2	21.0	2	85	10	57	47	0	0	52	1.00
4829089--4829141	16	3.2	16	89	5	70	43	3	0	52	1.19
4836788--4836829	15	2.7	16	85	7	59	2	50	0	47	1.14
4839266--4839695	215	2.0	214	90	2	684	36	12	8	42	1.73
4857076--4857196	29	4.2	29	81	1	118	19	27	6	46	1.75
4893181--4893221	2	21.0	2	95	5	75	51	0	0	48	1.00
4895282--4895306	2	12.5	2	100	0	50	0	48	0	52	1.00
4903408--4903458	25	2.0	25	88	0	75	74	3	17	3	1.12
4918185--4918241	23	2.6	22	72	5	53	63	14	3	19	1.44
4919585--4919643	26	2.3	24	82	8	64	37	8	1	52	1.42
4919611--4919656	24	1.9	24	82	8	58	47	2	0	50	1.13
4929110--4929141	2	16.0	2	93	0	55	53	0	0	46	1.00
4930579--4930642	28	2.2	28	83	13	76	51	1	4	42	1.32
4930646--4930677	16	2.0	16	93	0	55	46	3	0	50	1.17
4930886--4930917	16	2.0	16	93	0	55	18	15	0	65	1.27
4931370--4931414	24	1.9	22	82	13	54	42	0	13	44	1.43
4933514--4933546	11	3.1	11	82	8	50	48	0	0	51	1.00
4933509--4933564	21	2.6	22	85	5	78	51	3	0	44	1.18
4933900--4933968	22	3.1	22	79	8	86	44	2	0	52	1.16
4942980--4943030	2	26.0	2	96	4	95	50	0	0	49	1.00
4945510--4945599	46	2.0	46	88	0	135	28	20	14	36	1.92
4947472--4947533	30	2.1	30	100	0	124	24	19	27	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4955019--4955092	29	2.6	27	80	16	78	40	5	0	54	1.24
4959319--4959358	2	20.0	2	100	0	80	0	50	0	50	1.00
4959810--4959852	21	2.0	22	81	4	52	53	0	2	44	1.13
4972628--4972698	30	2.4	30	90	0	106	21	2	14	61	1.44
4973154--4973202	2	25.0	2	95	4	91	48	0	0	51	1.00
4974801--4974881	2	41.0	2	82	7	67	51	2	0	44	1.14
4983036--4983098	26	2.7	23	77	15	74	49	4	0	46	1.23
4983047--4983103	26	2.2	26	93	0	96	52	5	0	42	1.24
4982920--4983218	111	2.7	108	81	9	284	55	5	0	38	1.26
4982954--4983218	111	2.3	113	82	8	315	56	5	0	37	1.26
4983169--4983235	28	2.4	27	80	11	73	56	1	0	40	1.08
4983169--4983230	27	2.2	28	83	8	74	58	1	0	38	1.08
4983248--4983367	27	4.3	26	71	17	89	39	3	5	52	1.40
4983350--4983386	16	2.4	16	95	4	67	45	0	0	54	1.00
4985178--4985210	15	2.1	16	88	5	50	57	0	3	39	1.14
4992248--4992327	26	3.0	26	71	10	72	18	31	25	25	1.98
4994084--4994294	97	2.2	97	83	0	260	37	9	33	18	1.84
4994486--4994533	14	3.3	15	88	11	73	41	29	14	14	1.85
4995862--4995907	23	2.1	21	84	15	58	26	8	17	47	1.76
4996431--4997194	382	2.0	382	98	0	1492	30	13	16	39	1.87
5009687--5009771	42	2.0	42	97	0	161	45	14	15	24	1.83
5014500--5014537	19	2.0	20	84	5	51	23	2	52	21	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5028806--5028917	60	1.9	58	81	7	136	35	7	16	40	1.77
5029066--5029125	21	2.9	21	80	9	77	21	15	25	38	1.92
5029135--5029199	23	2.8	24	83	6	80	30	12	23	33	1.91
5029233--5029278	21	2.2	21	84	0	56	47	26	8	17	1.76
5047389--5047455	29	2.3	29	82	2	73	35	10	8	44	1.70
5047518--5047723	114	1.8	114	86	2	297	28	18	17	35	1.94
5047614--5047771	45	3.5	45	88	0	208	27	18	18	36	1.94
5047654--5047887	114	2.1	114	86	1	326	27	18	17	36	1.94
5047748--5047797	24	2.1	24	88	0	73	26	18	14	42	1.87
5047518--5048220	159	4.3	158	82	7	752	29	18	16	35	1.92
5047699--5047839	69	2.0	69	82	2	167	27	17	17	38	1.91
5047773--5047932	45	3.6	45	80	9	182	29	18	16	36	1.92
5047819--5048042	114	2.0	113	83	6	283	29	16	14	38	1.89
5047927--5048177	45	5.6	45	83	2	299	31	17	13	36	1.89
5047931--5048229	90	3.3	89	82	2	330	30	17	15	36	1.91
5047927--5048229	45	6.8	44	79	6	288	30	17	15	36	1.91
5048410--5048460	24	2.1	24	82	7	59	27	17	15	39	1.90
5048151--5048510	69	5.2	69	82	0	387	28	16	16	38	1.91
5061946--5061970	13	1.9	13	100	0	50	44	0	0	56	0.99
5064912--5064948	2	18.5	2	94	0	65	0	48	0	51	1.00
5067226--5067282	3	19.0	3	83	0	51	42	35	21	1	1.63
5067654--5067686	17	1.9	17	100	0	66	24	30	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5068749--5068793	21	2.2	20	84	15	56	75	2	22	0	0.91
5068745--5068807	15	3.9	15	75	21	56	76	3	20	0	0.93
5068743--5068816	22	3.3	21	76	16	60	71	5	22	0	1.06
5079897--5079939	15	2.6	17	85	14	63	11	4	55	27	1.55
5087668--5087701	15	2.3	15	89	0	50	70	8	5	14	1.31
5098095--5098132	3	12.7	3	94	0	67	28	0	2	68	1.03
5112677--5112728	22	2.4	22	84	12	63	40	3	3	51	1.38
5113285--5113318	18	1.9	17	88	5	50	32	0	2	64	1.08
5125249--5125311	32	2.0	32	96	0	117	30	6	19	44	1.75
5125259--5125310	16	3.2	16	70	20	54	26	5	21	46	1.74
5129473--5129520	26	2.0	25	84	12	64	54	8	10	27	1.63
5133327--5133351	6	4.2	6	100	0	50	48	0	0	52	1.00
5133355--5133388	17	2.0	17	88	0	50	55	5	8	29	1.54
5138082--5138134	27	2.0	27	92	0	88	45	18	16	18	1.86
5155871--5155925	2	27.0	2	88	3	83	49	5	0	45	1.25
5163305--5163341	2	18.5	2	94	0	65	0	45	0	54	1.00
5166748--5166776	2	14.5	2	100	0	58	48	0	0	51	1.00
5166750--5166866	59	2.0	56	91	8	191	41	10	3	44	1.55
5166809--5166835	2	13.5	2	100	0	54	48	0	0	51	1.00
5175477--5175510	3	11.3	3	100	0	68	32	0	0	67	0.91
5194631--5194673	18	2.4	19	80	11	54	27	9	9	53	1.63
5205188--5205293	46	2.3	47	83	4	128	26	19	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5209363--5209551	95	2.0	96	85	3	256	34	15	29	20	1.94
5211680--5211722	17	2.5	17	92	0	68	41	13	9	34	1.77
5211828--5211872	18	2.6	18	85	3	56	20	0	2	77	0.87
5212342--5212379	13	3.1	13	81	14	53	0	26	0	73	0.83
5212298--5212438	54	2.6	54	87	4	196	1	35	4	58	1.26
5212467--5212497	16	1.9	16	93	0	53	0	48	0	51	1.00
5212923--5212967	10	4.7	10	74	20	51	22	0	0	77	0.76
5212934--5212978	21	2.1	22	88	12	67	20	0	2	77	0.87
5220634--5220695	31	2.0	32	87	3	90	29	16	12	41	1.85
5226486--5226529	23	2.0	22	82	8	54	54	0	2	43	1.12
5228415--5228485	35	2.1	34	81	5	81	25	8	26	39	1.84
5271828--5271879	27	1.9	27	88	0	77	53	13	11	21	1.70
5271826--5271885	27	2.2	27	78	0	75	55	11	11	21	1.68
5271943--5272009	34	2.0	34	87	0	98	46	22	7	23	1.77
5297800--5297968	26	6.7	26	79	5	157	28	11	21	38	1.88
5297800--5297968	78	2.2	74	83	6	205	28	11	21	38	1.88
5298371--5298690	35	9.3	34	91	6	420	20	14	36	28	1.92
5298366--5298690	104	3.1	104	88	6	466	21	13	36	28	1.91
5299518--5299550	10	3.3	10	95	0	57	69	3	0	27	1.03
5299964--5299999	4	9.8	4	93	6	51	72	0	0	27	0.85
5300160--5300190	16	1.9	16	93	0	53	74	3	0	22	0.96
5300323--5300352	12	2.4	13	94	5	53	66	0	3	30	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5300335--5300387	18	2.8	19	78	16	56	69	1	1	26	1.09
5300401--5300433	16	2.0	17	88	5	50	30	18	12	39	1.87
5301297--5301356	21	2.8	21	77	10	68	48	18	10	23	1.78
5301307--5301352	21	2.2	21	92	0	74	50	21	8	19	1.75
5306637--5306671	2	17.5	2	100	0	70	48	0	0	51	1.00
5310779--5310846	33	2.1	33	91	0	109	17	25	19	38	1.93
5314740--5314782	22	1.9	23	86	13	63	41	9	2	46	1.48
5320807--5320831	7	3.6	7	100	0	50	60	28	0	12	1.32
5321824--5321892	27	2.8	26	79	14	76	49	2	1	46	1.25
5321908--5321954	16	2.8	18	82	17	57	57	0	0	42	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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97