genome.fa.s8.2.7.7.80.10.50.1000.89.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  89  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)
33918082--33918119	16	2.4	16	90	0	58	31	0	34	34	1.58
33918098--33918207	45	2.6	43	80	9	129	33	5	29	31	1.80
33930841--33930917	34	2.3	35	82	13	90	61	2	0	36	1.10
33933065--33933097	16	2.1	16	94	0	57	33	9	24	33	1.87
33933155--33933188	17	1.9	18	88	5	52	2	14	8	73	1.19
33933155--33933191	16	2.2	18	85	9	51	2	16	8	72	1.19
33933227--33933257	12	2.7	11	90	9	53	29	0	0	70	0.87
33933422--33933454	14	2.3	15	94	5	59	72	0	0	27	0.85
33933604--33933656	21	2.4	23	81	6	65	41	1	5	50	1.36
33934027--33934051	8	3.1	8	100	0	50	12	0	0	88	0.53
33938531--33938577	19	2.5	19	73	13	51	53	2	0	44	1.12
33940733--33941012	139	2.0	139	96	0	515	26	13	21	38	1.91
33944390--33944415	13	2.0	13	100	0	52	46	7	7	38	1.61
33945001--33945198	38	5.2	38	84	3	254	34	30	19	15	1.93
33945969--33945996	11	2.5	11	100	0	56	28	0	0	71	0.86
33947079--33947172	29	3.2	29	73	5	91	21	25	31	21	1.98
33947082--33947193	58	1.9	58	88	0	170	19	23	33	24	1.97
33947091--33947203	29	3.9	29	77	4	111	16	23	33	26	1.96
33949590--33949633	22	2.0	22	86	0	61	56	2	9	31	1.43
33953161--33953510	44	7.9	43	65	10	123	23	25	19	31	1.98
33953089--33953509	133	3.2	133	93	1	675	22	25	19	31	1.98
33965309--33965355	23	2.1	22	84	7	60	57	2	8	31	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33967323--33967358	3	12.0	3	100	0	72	33	0	0	66	0.92
33967529--33967580	3	17.3	3	100	0	104	32	0	0	67	0.91
33970310--33970345	15	2.3	16	95	4	65	5	50	36	8	1.56
33973329--33973444	60	1.9	60	82	3	144	40	2	14	42	1.60
33975675--33975718	21	2.1	21	82	0	52	31	11	9	47	1.71
33978239--33978263	5	5.0	5	100	0	50	20	0	40	40	1.52
33985750--33986031	141	2.0	141	98	0	546	31	19	10	37	1.87
33990581--33990630	22	2.3	23	82	10	68	60	2	4	34	1.27
34000603--34000732	69	1.9	67	83	1	152	19	36	12	31	1.89
34004605--34004650	22	2.1	22	87	0	65	36	0	26	36	1.57
34009512--34009546	18	1.9	18	88	0	52	37	2	11	48	1.54
34013366--34013442	38	2.0	38	97	0	145	46	18	16	18	1.84
34016311--34016344	15	2.3	15	89	0	50	23	0	0	76	0.79
34016367--34016423	30	1.9	30	92	0	96	49	3	3	43	1.36
34018128--34018192	11	6.3	10	72	12	51	53	0	4	41	1.21
34018128--34018200	20	3.6	21	79	7	71	56	0	5	38	1.23
34018148--34018204	29	2.0	28	83	10	71	56	0	7	36	1.27
34018404--34018451	17	2.9	15	77	17	51	25	0	6	68	1.12
34025472--34025500	14	2.0	15	93	6	51	34	0	10	55	1.34
34034796--34034820	4	6.2	4	100	0	50	24	0	0	76	0.80
34040605--34040631	5	5.4	5	100	0	54	55	0	0	44	0.99
34046257--34046320	32	2.0	32	93	6	112	42	6	17	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34046265--34046332	32	2.1	32	86	0	91	45	7	17	29	1.75
34048114--34048142	15	1.9	15	100	0	58	34	20	0	44	1.52
34048568--34048600	16	2.0	17	88	5	50	30	27	0	42	1.56
34048903--34048935	16	2.0	17	94	5	59	48	0	3	48	1.17
34048905--34048942	16	2.3	17	86	4	51	55	0	2	42	1.14
34049391--34049498	43	2.5	43	76	11	121	23	19	27	29	1.98
34055466--34055503	18	2.1	18	95	0	67	42	18	0	39	1.50
34058586--34058612	14	1.9	14	100	0	54	85	0	14	0	0.61
34060789--34060818	11	2.6	11	94	5	51	70	0	0	30	0.88
34070314--34070372	21	2.8	21	81	0	73	28	25	8	37	1.85
34077802--34078008	103	2.0	103	91	0	333	31	9	14	44	1.77
34078948--34078992	22	2.1	21	84	12	56	31	0	4	64	1.13
34078950--34078992	21	2.0	21	82	8	52	30	0	4	65	1.13
34080647--34080689	3	14.3	3	90	0	68	62	0	37	0	0.95
34084873--34084911	18	2.1	19	85	4	53	53	0	0	46	1.00
34085697--34085762	29	2.2	29	84	10	80	53	13	13	19	1.73
34086307--34086379	32	2.2	35	81	13	84	49	1	6	42	1.38
34087144--34087278	42	3.2	41	79	11	148	33	3	11	51	1.56
34089090--34089123	11	3.0	11	86	4	50	76	2	2	17	1.04
34091794--34091829	16	2.2	16	95	0	63	52	5	2	38	1.39
34098314--34098524	117	1.8	117	92	0	359	22	9	24	43	1.83
34105234--34105318	37	2.3	37	83	2	100	45	15	15	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34105513--34105550	18	2.1	19	90	5	60	44	10	5	39	1.61
34106571--34106609	17	2.3	17	90	0	60	41	7	17	33	1.79
34109335--34109377	20	2.2	20	87	8	61	39	2	13	44	1.57
34115552--34115578	6	4.5	6	100	0	54	51	0	33	14	1.43
34123642--34123696	27	2.0	28	83	13	71	50	3	7	38	1.48
34124350--34124388	13	3.1	12	88	7	51	82	0	7	10	0.86
34124349--34124384	18	2.0	18	88	0	54	80	0	5	13	0.88
34125963--34126026	30	2.1	30	97	0	119	28	29	3	39	1.72
34127750--34127792	18	2.4	18	92	0	68	20	27	9	41	1.83
34128191--34128246	24	2.4	22	78	21	60	41	0	3	55	1.17
34131237--34131880	125	5.1	125	90	2	875	29	16	17	35	1.93
34131943--34132072	34	3.9	34	72	8	104	43	14	2	40	1.58
34136100--34136212	48	2.3	49	78	13	117	36	22	23	18	1.95
34136179--34136249	26	2.8	26	82	6	83	36	22	19	21	1.95
34136310--34136392	24	3.4	23	74	9	67	30	21	32	15	1.95
34137244--34137288	17	2.7	16	83	10	54	20	8	0	71	1.12
34139039--34139064	13	2.0	13	100	0	52	38	0	7	53	1.30
34139446--34139484	12	3.2	12	85	0	51	35	10	46	7	1.67
34139590--34139617	12	2.3	12	100	0	56	32	0	67	0	0.91
34147680--34147962	126	2.3	126	80	5	317	22	15	15	45	1.84
34147681--34148051	125	3.0	123	79	6	365	23	15	14	46	1.83
34151749--34151855	28	3.9	27	70	12	67	48	4	0	46	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34151792--34151826	18	2.0	17	88	5	52	54	0	0	45	0.99
34154345--34154433	45	2.0	45	95	0	160	50	17	4	26	1.65
34157296--34157320	13	1.9	13	100	0	50	48	8	0	44	1.32
34158557--34158627	29	2.6	28	76	13	67	61	5	1	30	1.27
34175902--34175963	19	3.3	18	73	6	61	64	3	6	25	1.33
34175947--34175999	28	1.9	28	84	3	72	66	0	5	28	1.15
34176170--34176456	89	3.2	87	77	7	299	32	8	17	41	1.79
34176624--34176679	29	1.9	30	92	7	98	32	16	0	51	1.44
34179054--34179128	16	4.8	16	77	8	82	33	0	1	65	1.01
34179044--34179128	32	2.7	31	73	8	82	32	0	1	65	1.00
34179283--34179357	31	2.5	30	89	6	107	41	13	17	28	1.87
34183326--34183368	22	2.0	22	81	9	52	55	0	11	32	1.36
34184199--34184229	16	1.9	16	93	0	53	45	0	3	51	1.17
34208244--34208289	22	2.1	22	96	4	85	43	0	4	52	1.21
34210643--34210673	16	1.9	16	93	0	53	54	3	0	41	1.16
34213216--34213407	63	3.0	63	77	1	206	26	28	19	26	1.99
34214414--34214472	29	2.0	30	83	3	75	33	5	13	47	1.65
34215745--34215797	19	2.8	19	74	2	54	33	0	1	64	1.05
34218107--34218475	46	8.0	46	92	0	594	28	23	8	38	1.84
34222570--34222607	13	3.0	13	88	3	60	44	2	7	44	1.47
34226835--34226872	19	2.0	20	89	5	60	15	13	10	60	1.59
34239728--34239873	42	3.5	42	85	2	188	29	21	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34243612--34243724	19	5.8	19	85	4	163	39	9	15	35	1.80
34243613--34243719	40	2.7	40	91	2	173	40	10	14	35	1.79
34243612--34243731	59	2.1	56	86	6	161	40	9	15	35	1.79
34244568--34244856	98	3.0	97	93	3	512	27	12	25	34	1.91
34250773--34250799	3	9.0	3	100	0	54	66	0	0	33	0.92
34252540--34252568	14	2.0	15	93	6	51	51	0	0	48	1.00
34256896--34256961	19	3.5	19	76	16	75	68	0	3	28	1.05
34256920--34256948	8	3.6	8	100	0	58	89	0	0	10	0.48
34256900--34256975	36	2.1	37	90	4	120	72	0	2	25	0.98
34259519--34259882	17	20.7	17	74	8	239	45	10	12	31	1.76

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