genome.fa.s9.2.7.7.80.10.50.1000.9.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  9  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)
4351597--4351654	26	2.2	26	96	0	107	36	29	8	25	1.86
4353973--4354068	23	4.2	22	71	20	65	47	4	1	46	1.28
4354538--4354583	18	2.5	19	74	22	53	60	0	2	36	1.09
4354600--4354628	2	14.5	2	100	0	58	51	0	0	48	1.00
4354664--4354712	24	2.0	26	84	8	66	44	8	2	44	1.45
4355210--4355241	17	1.9	17	93	6	57	40	0	0	59	0.97
4355367--4355403	13	2.8	13	91	0	56	21	0	5	72	1.04
4364631--4364673	2	22.0	2	95	4	79	0	51	0	48	1.00
4367730--4367762	15	2.2	15	100	0	66	45	24	6	24	1.75
4378509--4378782	142	1.9	141	90	0	440	39	4	13	42	1.64
4382176--4382232	27	2.1	27	100	0	114	45	7	21	26	1.77
4388388--4388426	8	4.8	8	90	3	51	48	17	0	33	1.48
4388388--4388428	12	3.3	12	86	3	55	48	17	0	34	1.47
4389533--4389608	35	2.2	35	88	2	109	60	15	0	23	1.35
4390952--4390984	12	2.8	12	86	13	50	81	0	12	6	0.85
4390941--4390972	16	2.1	15	94	5	55	84	0	9	6	0.78
4395960--4396081	38	3.3	38	78	15	166	65	3	4	25	1.28
4395955--4396097	71	2.0	69	97	2	268	65	2	4	26	1.24
4403494--4403541	24	2.0	24	100	0	96	41	20	16	20	1.90
4403445--4403655	69	3.1	68	80	2	251	38	18	18	25	1.92
4403515--4403926	114	3.6	114	80	4	456	35	18	18	26	1.94
4403572--4403700	45	2.9	45	86	0	168	36	17	19	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4403629--4403765	69	2.0	69	89	2	213	37	16	17	27	1.92
4403629--4403719	24	3.9	24	71	8	89	40	15	17	26	1.89
4403696--4403807	45	2.5	45	89	5	172	35	17	17	28	1.93
4403746--4403876	69	1.9	69	85	3	183	36	19	18	25	1.94
4403805--4403950	45	3.2	45	79	5	154	32	21	19	26	1.97
4404019--4404086	29	2.2	30	87	7	93	39	14	13	32	1.85
4404037--4404112	29	2.7	28	81	4	73	42	13	9	35	1.76
4404629--4404751	45	2.7	45	79	2	122	34	20	19	26	1.96
4404725--4404773	24	2.1	23	81	7	55	46	20	14	18	1.83
4404866--4404959	30	3.1	29	84	7	116	39	8	13	38	1.76
4404887--4404990	27	3.7	28	84	6	122	42	10	10	36	1.74
4409546--4409606	31	2.0	29	81	15	70	72	1	19	6	1.16
4416061--4416194	39	3.4	39	100	0	268	37	15	20	26	1.92
4432251--4432286	17	2.1	18	89	5	56	47	0	0	52	1.00
4432311--4432357	24	2.0	24	87	8	69	51	0	2	46	1.13
4433158--4433196	11	3.5	11	82	0	51	35	0	2	61	1.10
4441754--4441903	80	1.9	76	81	5	174	41	9	22	27	1.84
4466357--4466382	3	8.7	3	100	0	52	34	0	30	34	1.58
4474459--4474506	17	2.8	17	78	9	53	70	4	22	2	1.15
4476097--4476138	19	2.1	21	82	8	52	7	7	4	80	1.00
4477579--4477634	16	3.4	16	73	9	58	60	14	8	16	1.57
4477579--4477643	34	1.9	33	90	3	103	60	12	9	18	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4477581--4477657	34	2.3	34	84	6	95	61	15	7	15	1.56
4483638--4483683	2	23.5	2	87	12	69	52	0	45	2	1.13
4486828--4486852	2	12.5	2	100	0	50	48	0	0	52	1.00
4490535--4490559	13	1.9	13	100	0	50	44	0	8	48	1.32
4493502--4493630	27	4.7	27	68	6	82	20	26	19	33	1.97
4493495--4493630	54	2.5	54	81	1	146	21	26	19	32	1.97
4493595--4493655	27	2.3	27	85	0	77	22	31	18	27	1.97
4493622--4493674	27	2.0	27	81	7	63	18	28	18	33	1.95
4493723--4493785	26	2.4	26	78	0	81	20	31	20	26	1.98
4500806--4501032	118	2.0	117	85	10	317	28	6	2	62	1.32
4522628--4522667	2	20.0	2	100	0	80	50	0	0	50	1.00
4525408--4525493	15	5.7	15	80	0	91	34	2	41	20	1.65
4525408--4525484	6	12.8	6	84	0	55	35	2	41	20	1.66
4525444--4525496	9	5.6	9	82	12	61	33	1	45	18	1.61
4525408--4525487	12	6.7	12	79	0	79	35	2	41	21	1.66
4531606--4531664	2	31.5	2	86	13	90	45	0	0	54	0.99
4532307--4532335	12	2.4	12	100	0	58	93	0	0	6	0.36
4532437--4532565	24	5.5	24	76	10	106	27	18	16	37	1.92
4532437--4532584	69	2.2	68	85	4	192	27	18	16	37	1.93
4551159--4551202	18	2.5	18	88	3	63	36	0	4	59	1.18
4553956--4553980	2	12.5	2	100	0	50	0	52	0	48	1.00
4580924--4580971	19	2.5	19	86	10	71	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580955--4581000	24	2.0	23	87	8	67	36	0	0	63	0.95
4580961--4581015	24	2.2	24	83	6	65	38	0	0	61	0.96
4583095--4583138	23	1.9	23	95	0	79	38	13	18	29	1.89
4585100--4585175	29	2.6	29	82	4	89	53	3	1	40	1.27
4585097--4585164	29	2.3	29	84	0	91	57	4	1	36	1.28
4585626--4585671	19	2.4	20	79	17	53	28	4	0	67	1.10
4587789--4587847	21	3.2	17	73	19	55	37	0	1	61	1.07
4587788--4587831	16	2.8	16	86	6	54	38	0	0	61	0.96
4587800--4587852	21	2.5	20	84	6	61	35	0	1	62	1.06
4587824--4587883	29	2.1	29	96	0	111	40	0	3	56	1.16
4587849--4587892	20	2.2	19	84	15	54	45	0	2	52	1.13
4607600--4607669	29	2.4	29	85	0	95	45	10	22	21	1.81
4607921--4608073	35	4.4	35	83	0	180	19	19	16	44	1.87
4608362--4608493	41	3.2	41	77	6	160	29	6	9	55	1.55
4608347--4608469	40	3.1	39	72	8	120	26	6	10	56	1.57
4608449--4608578	65	2.0	65	96	3	244	34	7	5	52	1.53
4609523--4609563	18	2.3	18	86	0	55	19	14	19	46	1.84
4609587--4609708	35	3.5	35	80	2	138	24	20	25	29	1.99
4612981--4613035	26	2.1	27	86	3	76	40	16	14	29	1.88
4613107--4613389	102	2.8	101	82	4	336	41	15	21	22	1.90
4613847--4613971	62	2.0	63	95	3	218	38	21	11	28	1.88
4614734--4614782	14	3.4	14	75	25	57	48	8	26	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614728--4614812	29	2.9	28	89	3	116	47	9	23	20	1.79
4614747--4614812	14	4.5	15	70	12	57	46	9	24	19	1.78
4615049--4615152	35	3.0	35	84	0	109	20	19	16	44	1.87
4628619--4628691	30	2.6	27	76	16	76	38	5	0	56	1.23
4629708--4629753	24	1.9	24	95	0	83	21	26	10	41	1.86
4634737--4634762	2	13.0	2	100	0	52	50	0	50	0	1.00
4649535--4649580	25	1.9	25	82	8	60	23	10	13	52	1.71
4671093--4671119	2	13.5	2	100	0	54	0	48	0	51	1.00
4674912--4674948	19	2.0	18	89	5	56	51	0	0	48	1.00
4674912--4674948	9	4.0	9	89	3	56	51	0	0	48	1.00
4680858--4680891	17	2.0	17	100	0	68	47	11	5	35	1.65
4694420--4694468	24	2.0	24	100	0	98	40	4	24	30	1.74
4700074--4700103	14	2.1	14	93	0	51	50	3	0	46	1.18
4703210--4703371	81	2.0	80	95	1	288	29	27	23	20	1.99
4727348--4727448	1	101.0	1	72	0	58	84	0	0	15	0.63
4727348--4727449	42	2.4	41	85	6	132	83	0	0	16	0.65
4727348--4727445	8	11.6	8	91	6	124	83	0	0	16	0.64
4727692--4727781	39	2.3	38	84	1	117	37	12	41	8	1.74
4728356--4728389	7	4.6	7	86	13	50	82	0	0	17	0.67
4728346--4728395	9	5.4	9	78	21	59	84	0	0	16	0.63
4728347--4728394	16	2.9	16	87	3	69	83	0	0	16	0.65
4736883--4737140	138	1.9	139	90	1	421	36	5	7	50	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4737630--4737853	113	2.0	113	99	0	432	46	3	5	44	1.43
4739999--4740051	23	2.3	23	100	0	106	43	7	18	30	1.78
4763436--4763611	89	1.9	89	83	13	225	25	13	12	48	1.78
4763612--4764220	229	2.7	222	80	7	717	24	20	9	45	1.80
4766723--4766747	2	12.5	2	100	0	50	48	0	52	0	1.00
4766860--4766890	2	15.5	2	100	0	62	48	0	51	0	1.00
4804228--4804259	15	2.0	17	88	11	50	31	3	28	37	1.73
4808021--4808098	39	2.0	39	92	0	129	33	26	12	26	1.93
4816607--4816650	19	2.5	17	86	13	70	40	11	11	36	1.77
4816614--4816650	19	1.9	19	100	0	74	37	13	10	37	1.80

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