genome.fa.s8.2.7.7.80.10.50.1000.9.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:  48574783

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  9  of  135  ( 16172 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)
4146427--4146508	23	3.8	23	79	10	93	37	24	21	15	1.93
4146427--4146514	44	2.1	40	83	8	104	37	25	21	15	1.93
4148875--4148914	14	2.9	15	85	10	50	35	2	15	47	1.58
4151569--4151614	5	9.2	5	95	0	65	60	6	0	32	1.22
4155945--4155986	16	2.5	17	88	7	68	69	2	0	28	1.01
4157153--4157194	20	2.1	20	95	0	75	35	11	9	42	1.74
4158654--4158726	23	3.2	23	86	1	103	23	32	19	24	1.97
4162190--4162303	57	2.0	60	85	5	162	50	2	0	46	1.15
4187608--4187720	51	2.2	51	85	1	163	39	18	21	20	1.92
4188670--4188696	12	2.2	12	100	0	54	59	0	0	40	0.98
4192028--4192086	21	2.8	21	71	0	64	16	25	16	40	1.90
4191986--4192109	42	3.0	42	79	2	133	18	21	15	44	1.86
4195914--4195967	13	4.1	13	72	13	56	35	16	7	40	1.77
4195903--4195959	27	2.1	27	80	6	62	33	17	5	43	1.71
4196117--4196146	15	2.1	15	93	6	53	33	0	0	66	0.92
4200196--4200249	20	2.6	21	74	8	58	59	1	7	31	1.36
4201376--4201402	6	4.5	6	100	0	54	33	0	29	37	1.58
4221595--4221651	30	1.9	30	92	0	96	24	31	7	36	1.82
4229166--4229245	15	5.3	15	79	5	81	38	3	36	21	1.71
4229166--4229246	30	2.7	29	83	5	99	39	3	35	20	1.71
4233179--4233245	27	2.4	28	90	7	100	40	11	0	47	1.40
4233255--4233286	16	1.9	16	93	6	55	68	15	6	9	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4233539--4233568	15	2.0	15	93	0	51	50	10	0	40	1.36
4233576--4233647	23	3.2	23	63	31	55	43	0	13	43	1.44
4233574--4233662	45	2.0	45	95	0	160	43	0	14	41	1.45
4234210--4234239	15	2.0	15	93	0	51	6	0	23	70	1.11
4234350--4234412	27	2.3	27	91	8	101	49	0	7	42	1.32
4238483--4238508	13	2.0	13	100	0	52	7	23	30	38	1.83
4265675--4265723	24	2.1	23	85	11	64	55	4	6	34	1.44
4275493--4275539	20	2.3	20	77	0	58	59	4	0	36	1.17
4275495--4275555	19	3.0	20	78	7	61	59	3	1	36	1.24
4275490--4275594	10	10.3	10	69	11	52	62	2	1	32	1.20
4275558--4275594	18	2.1	18	89	0	56	67	2	0	29	1.04
4300452--4300509	29	2.1	28	83	6	73	34	8	29	27	1.87
4311753--4311815	30	2.1	30	93	0	108	26	23	4	44	1.73
4318424--4318458	17	2.0	18	94	5	63	51	0	14	34	1.42
4326139--4326199	27	2.2	27	77	13	63	55	1	1	40	1.19
4333157--4333200	23	1.9	23	90	0	70	31	2	4	61	1.28
4334283--4334309	2	13.5	2	100	0	54	51	0	0	48	1.00
4335571--4335829	129	2.0	130	99	0	511	42	6	8	41	1.62
4347301--4347469	87	1.9	87	91	0	275	31	21	11	34	1.89
4349606--4349642	18	2.1	18	100	0	74	59	5	10	24	1.52
4351435--4351512	38	2.1	38	90	4	122	55	6	10	28	1.58
4351446--4351510	19	3.4	19	67	23	55	53	7	7	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4351448--4351533	38	2.2	38	83	6	102	56	5	8	29	1.51
4351820--4351868	11	4.4	11	76	5	53	63	0	2	34	1.06
4352074--4352119	23	2.0	23	83	8	58	58	15	8	17	1.61
4353039--4353175	72	1.9	72	92	2	233	29	14	11	44	1.81
4359139--4359821	338	2.0	338	99	0	1357	31	23	17	27	1.97
4368688--4368712	13	1.9	13	100	0	50	56	0	0	44	0.99
4368692--4368735	18	2.6	18	82	17	58	56	0	0	43	0.99
4377178--4377272	42	2.2	42	96	1	172	28	23	13	34	1.93
4383481--4383634	52	3.0	52	92	0	254	18	21	13	46	1.84
4410783--4410814	16	2.0	16	93	0	55	62	9	12	15	1.54
4413664--4413711	18	2.7	18	96	0	87	35	12	12	39	1.81
4414146--4414379	72	3.3	72	93	2	384	23	5	15	55	1.61
4432168--4432210	23	1.9	22	86	13	61	30	2	4	62	1.28
4439679--4439726	24	2.0	23	84	4	60	60	6	2	31	1.33
4445694--4445726	2	16.5	2	93	0	57	48	48	0	3	1.17
4446993--4447018	5	5.2	5	100	0	52	23	19	38	19	1.93
4450118--4450142	13	1.9	13	100	0	50	12	16	0	72	1.13
4451994--4452160	81	2.1	81	94	0	289	31	13	14	40	1.84
4456566--4456798	116	2.0	117	99	0	459	32	11	5	51	1.59
4459679--4459745	29	2.3	29	94	0	116	29	11	8	49	1.70
4470089--4470134	15	3.0	16	75	9	51	34	0	0	65	0.93
4480387--4480432	15	3.0	16	75	9	51	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4484936--4485062	51	2.5	51	82	7	150	25	17	25	30	1.97
4485198--4485270	37	1.9	37	84	13	96	43	2	21	31	1.67
4490977--4491002	2	13.0	2	100	0	52	50	0	0	50	1.00
4491118--4491143	2	13.0	2	100	0	52	50	0	0	50	1.00
4490939--4491221	141	2.0	142	99	0	559	39	7	7	45	1.58
4495796--4495824	7	4.1	7	100	0	58	27	13	13	44	1.82
4497187--4497323	68	2.0	68	100	0	274	51	16	20	11	1.75
4501408--4501453	17	2.7	17	82	0	56	39	0	0	60	0.97
4501860--4501892	7	4.7	7	100	0	66	42	27	0	30	1.56
4515448--4515500	21	2.5	21	87	0	79	30	35	9	24	1.87
4520370--4520463	45	2.1	46	90	6	147	32	13	8	44	1.74
4524134--4524178	21	2.1	21	84	8	56	48	2	8	40	1.47
4527425--4527449	3	8.3	3	100	0	50	36	0	32	32	1.58
4529881--4529931	26	2.0	26	84	7	68	49	0	5	45	1.26
4531031--4531081	26	2.0	26	84	7	68	49	0	5	45	1.26
4547080--4547109	9	3.2	9	90	9	51	43	13	0	43	1.43
4551150--4551176	3	9.0	3	100	0	54	0	33	0	66	0.92
4554142--4554201	3	20.0	3	100	0	120	33	0	0	66	0.92
4568230--4568266	2	19.5	2	83	10	51	56	0	0	43	0.99
4571335--4571374	20	2.0	20	100	0	80	15	10	10	65	1.48
4571719--4571745	13	2.1	13	100	0	54	40	22	14	22	1.90
4574877--4575247	185	2.0	186	99	0	735	39	8	5	46	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4596350--4596423	31	2.4	30	82	10	87	33	6	5	54	1.50
4596877--4597049	61	2.9	60	82	6	208	46	10	20	22	1.81
4596877--4597049	59	2.9	59	82	5	204	46	10	20	22	1.81
4597800--4597929	68	1.9	68	85	3	181	39	15	7	37	1.76
4606143--4606172	15	2.0	15	93	0	51	73	3	0	23	0.98
4614153--4614179	1	27.0	1	100	0	54	100	0	0	0	0.00
4618497--4618535	3	13.0	3	100	0	78	66	0	0	33	0.92
4619011--4619064	26	2.1	26	96	3	101	37	3	3	55	1.35
4622774--4622813	20	2.0	20	100	0	80	15	15	25	45	1.84
4635771--4635801	7	4.6	7	96	4	55	22	16	0	61	1.34
4647306--4647352	24	2.0	23	95	4	85	29	34	12	23	1.92
4651147--4651183	3	12.3	3	100	0	74	67	0	0	32	0.91
4664300--4664329	7	4.4	7	91	8	53	86	13	0	0	0.57
4664300--4664329	13	2.2	14	94	5	53	86	13	0	0	0.57
4665571--4665765	97	2.0	98	98	1	383	40	9	5	45	1.58
4668066--4668259	106	1.8	106	92	2	327	51	6	18	23	1.69
4694584--4694676	36	2.6	36	82	0	105	17	20	48	13	1.81
4696886--4696927	20	2.0	21	86	9	59	28	9	14	47	1.75
4713578--4713670	42	2.2	42	92	3	152	41	13	19	24	1.88
4728796--4728826	7	4.6	7	96	4	55	41	0	0	58	0.98
4728997--4729037	21	2.0	21	95	0	73	65	0	2	31	1.05
4733308--4733468	46	3.5	46	96	0	295	27	26	9	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4743824--4743850	2	13.5	2	100	0	54	48	0	0	51	1.00
4744161--4744201	21	1.9	22	85	5	57	65	2	0	31	1.05
4744441--4744484	16	2.8	16	79	3	54	29	18	6	45	1.75
4747044--4747220	44	4.0	44	99	0	345	36	10	20	32	1.87
4754308--4754393	40	2.1	40	89	6	136	38	2	0	59	1.10
4754293--4754354	29	2.1	29	91	8	99	29	1	0	69	0.98
4754332--4754392	32	1.9	32	90	6	97	37	1	0	60	1.07
4758494--4758546	21	2.5	20	79	11	61	33	0	1	64	1.05
4758494--4758548	22	2.5	22	82	8	69	34	0	1	63	1.05
4763094--4763346	125	2.0	126	99	0	499	33	11	14	39	1.83

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135