genome.fa.s7.2.7.7.80.10.50.1000.45.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  45  of  204  ( 24458 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)
15175013--15175077	31	2.1	32	85	2	87	43	0	30	26	1.55
15176771--15176815	18	2.5	18	89	7	65	80	0	17	2	0.82
15188252--15188284	2	17.0	2	93	6	59	48	0	0	51	1.00
15188722--15188766	21	2.1	22	84	12	58	53	0	2	44	1.13
15193680--15193724	12	3.6	12	80	11	54	35	8	0	55	1.31
15197487--15197526	13	3.1	13	96	0	71	40	27	7	25	1.82
15198203--15198261	31	1.9	31	89	3	93	74	3	1	20	1.05
15198944--15199002	27	2.3	26	91	5	93	44	8	0	47	1.33
15199649--15199707	19	3.2	19	82	4	84	37	13	0	49	1.43
15199937--15200002	19	3.5	19	75	4	80	48	1	10	39	1.47
15200425--15200489	27	2.4	28	97	2	123	49	0	10	40	1.38
15201287--15201343	20	3.1	19	75	9	55	45	0	5	49	1.24
15202346--15202387	18	2.3	19	83	8	59	19	4	4	71	1.22
15204668--15204744	35	2.2	35	95	2	138	62	3	18	15	1.47
15206574--15206658	23	3.6	23	85	3	98	31	24	28	15	1.95
15206626--15206696	26	2.8	26	86	2	99	35	23	25	15	1.94
15211057--15211109	26	2.0	26	100	0	106	16	22	18	41	1.90
15223907--15224142	96	2.5	95	89	0	328	35	16	18	29	1.93
15223907--15224098	51	3.9	51	74	8	180	36	15	17	30	1.91
15224050--15224210	44	3.7	44	85	1	207	32	20	19	27	1.97
15224219--15224361	50	2.8	50	82	7	139	32	16	15	34	1.91
15233341--15233396	24	2.3	24	90	0	85	39	5	7	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15239803--15239832	15	2.0	15	93	0	51	56	0	0	43	0.99
15241265--15241343	14	5.6	14	71	5	52	16	1	20	62	1.40
15241271--15241373	29	3.6	29	76	5	77	16	0	23	59	1.43
15243573--15243638	11	5.8	12	76	18	70	27	31	1	39	1.66
15243573--15243616	23	1.9	23	86	9	63	25	31	2	40	1.68
15243597--15243696	51	2.0	51	82	4	121	26	27	3	44	1.69
15246054--15246102	14	3.6	14	71	17	50	42	34	0	22	1.54
15246082--15246208	21	6.0	21	76	1	128	47	24	2	25	1.64
15246061--15246114	27	2.0	27	88	0	81	42	35	1	20	1.63
15246086--15246208	42	2.9	43	79	13	146	47	23	2	26	1.64
15251985--15252555	127	4.5	126	91	2	848	29	23	16	30	1.96
15251985--15252555	252	2.3	251	89	3	853	29	23	16	30	1.96
15253071--15253120	16	3.1	17	80	8	50	62	2	4	32	1.25
15253130--15253154	13	1.9	13	100	0	50	24	12	0	64	1.27
15253242--15253289	17	2.8	17	78	15	53	70	0	2	27	0.98
15254110--15254152	21	2.0	21	100	0	86	44	4	13	37	1.65
15254116--15254162	21	2.2	21	85	7	60	44	8	8	38	1.65
15257969--15258271	33	8.8	33	69	23	130	21	20	27	30	1.98
15257966--15258194	104	2.2	103	91	1	370	21	20	27	30	1.98
15258098--15258292	75	2.7	71	85	4	248	21	18	28	31	1.97
15258173--15258273	33	2.8	38	80	13	140	22	17	28	30	1.97
15259996--15260125	21	6.2	21	67	3	73	43	15	23	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15260011--15260123	42	2.7	43	82	5	133	42	15	24	16	1.88
15259996--15260131	42	3.2	42	80	4	123	41	14	23	19	1.89
15269069--15269126	15	3.6	15	78	15	62	29	8	20	41	1.82
15277503--15277554	24	2.2	24	92	0	86	51	9	1	36	1.46
15278731--15278793	14	5.0	13	72	18	53	63	0	0	36	0.95
15280019--15280062	22	2.0	22	81	4	52	61	6	2	29	1.34
15287587--15287634	21	2.3	21	96	0	87	22	37	10	29	1.88
15292989--15293189	43	4.7	43	85	2	233	31	31	17	19	1.95
15296675--15296712	13	2.8	14	88	8	60	36	5	0	57	1.21
15297044--15297079	7	5.1	7	93	0	63	27	52	0	19	1.46
15297227--15297387	87	1.8	89	86	7	240	44	26	1	27	1.65
15297401--15297441	21	2.0	21	85	0	55	29	43	0	26	1.55
15297906--15298022	41	2.9	41	81	2	137	32	24	23	19	1.98
15297896--15298037	41	3.5	38	77	16	133	30	23	23	22	1.99
15298079--15298216	40	3.4	41	79	4	129	16	21	23	38	1.93
15299254--15299314	18	3.4	19	68	23	51	44	14	8	32	1.75
15308865--15308907	11	3.8	11	77	17	52	62	4	2	30	1.28
15308861--15308904	23	1.9	23	90	0	70	59	6	2	31	1.36
15315679--15315746	34	2.0	34	85	0	91	35	0	14	50	1.44
15321952--15322096	41	3.5	41	85	8	186	37	2	0	60	1.14
15321954--15322078	40	3.1	40	81	12	166	36	2	0	60	1.10
15321962--15322068	11	10.4	11	71	23	74	38	2	0	58	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15327128--15327162	13	2.7	13	100	0	70	42	8	0	48	1.33
15330985--15331048	34	1.9	34	87	6	96	32	6	15	45	1.71
15330983--15331063	30	2.6	32	82	3	103	32	6	16	45	1.71
15331055--15331243	48	3.9	48	90	0	306	29	16	22	31	1.96
15334223--15334281	31	1.9	31	85	0	82	55	13	15	15	1.69
15334501--15334549	24	2.1	24	85	11	66	59	4	8	28	1.45
15337854--15337897	8	5.4	8	81	5	52	38	2	2	56	1.24
15337858--15337898	17	2.3	18	87	4	57	34	2	2	60	1.23
15340702--15340729	2	14.0	2	100	0	56	0	0	50	50	1.00
15348563--15348610	14	3.3	14	75	11	51	27	6	18	47	1.72
15349498--15349791	75	3.9	75	85	3	385	27	18	21	33	1.96
15349506--15349793	150	1.9	150	89	1	443	27	18	21	32	1.96
15352075--15352117	21	2.0	22	90	4	70	32	20	11	34	1.89
15353387--15353440	25	2.1	26	86	3	74	61	1	3	33	1.25
15356661--15356790	9	14.4	9	84	6	156	44	23	7	24	1.79
15356661--15356795	27	5.0	27	86	4	173	44	22	8	24	1.80
15356897--15356940	18	2.4	18	88	0	61	13	2	43	40	1.57
15361346--15361371	13	2.0	13	100	0	52	30	23	23	23	1.99
15368600--15368694	46	2.1	46	100	0	190	18	15	18	46	1.84
15375670--15375717	23	2.1	23	81	11	55	41	6	12	39	1.68
15381633--15381760	64	2.0	64	80	3	141	22	22	22	32	1.98
15381735--15381782	25	1.9	25	86	0	69	22	22	14	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15386811--15386855	16	2.6	16	83	13	54	66	0	2	31	1.04
15393608--15393635	6	4.7	6	100	0	56	85	0	0	14	0.59
15397314--15397425	34	3.3	34	83	0	107	25	9	28	36	1.88
15399313--15399357	19	2.5	17	80	13	54	35	2	13	48	1.54
15400367--15400400	18	1.9	18	88	5	52	52	2	0	44	1.16
15400799--15400850	21	2.4	22	87	3	70	59	0	0	40	0.97
15400799--15400866	11	6.4	11	72	11	52	55	1	0	42	1.08
15400792--15400931	59	2.4	58	84	9	187	55	0	0	43	1.10
15400794--15400882	14	6.0	15	75	17	71	55	1	0	43	1.07
15400862--15400928	24	2.9	23	74	10	66	56	0	1	41	1.08
15400931--15400989	25	2.3	26	91	2	93	47	3	0	49	1.18
15400937--15400989	26	2.1	25	92	3	88	50	3	0	45	1.19
15403763--15403940	61	2.9	59	70	10	155	42	1	3	51	1.30
15403855--15403913	26	2.3	25	85	8	82	40	0	1	57	1.09
15403868--15403923	15	4.0	15	73	17	57	44	0	0	55	0.99
15403778--15403963	41	4.6	40	68	23	122	41	2	3	52	1.31
15403916--15403959	17	2.6	17	83	16	56	40	4	2	52	1.34
15404162--15404199	16	2.4	16	90	0	58	34	34	0	31	1.58
15405847--15405887	2	20.5	2	100	0	82	0	48	0	51	1.00
15405968--15406001	16	2.1	16	94	0	59	17	23	0	58	1.38
15408362--15408437	38	2.0	38	100	0	152	36	18	18	26	1.94
15410945--15411010	34	1.9	34	100	0	132	36	3	22	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15412960--15412988	12	2.4	12	100	0	58	44	6	24	24	1.77
15422174--15422216	18	2.5	17	80	3	50	51	4	2	41	1.35
15430494--15430527	17	1.9	18	94	5	61	35	11	5	47	1.65
15432208--15432249	21	2.0	22	85	4	59	38	0	11	50	1.40
15432400--15432462	25	2.5	25	76	0	63	23	26	20	28	1.99
15432447--15432539	25	3.7	26	72	16	72	18	21	20	39	1.92
15432575--15432623	26	1.9	26	83	4	64	26	24	18	30	1.98
15434064--15434114	21	2.4	21	83	6	59	45	0	13	41	1.44
15434419--15434481	25	2.6	24	77	5	72	19	28	19	33	1.96
15434587--15434643	25	2.3	25	93	0	96	19	29	22	28	1.98

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   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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204