genome.fa.s9.2.7.7.80.10.50.1000.219.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  219  of  226  ( 27023 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)
68496531--68496669	44	3.1	43	68	17	122	29	26	24	19	1.98
68496730--68496987	100	2.6	100	86	1	356	33	21	19	25	1.97
68496730--68496987	50	5.2	50	71	1	194	33	21	19	25	1.97
68496990--68497201	45	4.7	45	81	3	219	33	18	22	26	1.97
68496987--68497152	90	1.8	90	92	0	278	30	19	23	26	1.98
68496989--68497253	45	5.7	47	80	5	184	32	18	21	27	1.96
68497262--68497376	45	2.6	45	82	10	130	25	21	25	27	1.99
68497270--68497377	44	2.4	46	83	8	127	26	21	25	25	1.99
68498445--68498561	39	3.1	39	73	19	131	56	12	10	20	1.65
68498433--68498542	33	3.2	33	76	16	114	59	13	8	19	1.59
68499286--68499326	21	2.0	21	90	0	64	36	2	0	60	1.10
68509026--68509272	96	2.6	96	90	0	386	26	13	18	41	1.87
68509386--68509439	11	4.7	11	75	8	54	48	1	11	38	1.50
68512830--68512867	17	2.2	18	85	4	51	55	2	5	36	1.37
68515791--68515906	41	2.8	41	84	1	142	40	16	25	18	1.90
68516156--68516203	21	2.2	22	85	10	64	64	0	4	31	1.12
68516619--68516672	19	2.8	19	97	0	99	37	12	16	33	1.87
68519765--68519797	16	2.1	16	94	0	57	33	12	6	48	1.65
68520570--68520597	14	2.0	14	100	0	56	0	21	0	78	0.75
68520982--68521022	2	20.5	2	100	0	82	48	0	0	51	1.00
68524490--68524514	4	6.2	4	100	0	50	24	0	0	76	0.80
68527085--68527117	16	2.1	16	94	0	57	33	12	6	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68527166--68527212	24	2.0	23	84	8	60	40	10	4	44	1.59
68528011--68528036	5	5.2	5	100	0	52	19	0	0	80	0.71
68528739--68528774	5	6.8	5	93	6	54	16	0	5	77	0.94
68536619--68536699	30	2.8	29	86	3	117	30	27	2	39	1.70
68536606--68536735	29	4.4	30	84	2	147	30	23	3	42	1.72
68536606--68536735	59	2.2	59	81	2	154	30	23	3	42	1.72
68538900--68538943	21	2.0	22	83	12	56	40	2	0	56	1.11
68538900--68538959	26	2.4	27	81	13	67	43	5	0	51	1.23
68539065--68539128	27	2.6	25	83	14	71	68	4	1	25	1.17
68557775--68557802	2	14.0	2	100	0	56	50	50	0	0	1.00
68563292--68563325	16	2.1	16	88	0	50	17	8	17	55	1.66
68571100--68571130	14	2.2	14	94	0	53	38	32	9	19	1.84
68590085--68590181	13	7.0	13	73	17	72	64	1	32	1	1.07
68590092--68590147	26	2.1	27	90	3	87	69	0	30	0	0.89
68590106--68590219	10	11.0	10	70	10	59	67	0	31	0	0.97
68590130--68590221	5	18.4	5	78	8	80	67	1	31	0	0.98
68590130--68590227	20	4.8	20	77	8	92	67	1	31	0	0.98
68590122--68590216	45	2.1	45	92	3	156	67	1	31	0	0.98
68590576--68590625	26	1.9	26	91	0	82	68	6	4	22	1.29
68590592--68591310	155	4.7	156	85	8	949	50	6	11	31	1.65
68595518--68595702	43	4.3	43	83	2	228	31	28	17	22	1.96
68595518--68595702	86	2.2	86	87	3	257	31	28	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68596640--68596723	40	2.1	40	84	4	107	48	14	5	30	1.67
68596753--68596894	76	1.9	76	82	2	178	44	16	6	33	1.73
68601112--68601143	7	4.6	7	100	0	64	43	56	0	0	0.99
68601127--68601292	87	1.9	88	87	1	244	45	28	1	25	1.61
68601310--68601356	14	3.4	14	81	0	58	31	42	0	25	1.55
68601369--68601398	14	2.1	14	93	0	51	40	30	3	26	1.72
68601478--68601516	21	1.9	20	89	5	60	46	23	0	30	1.53
68601811--68601899	42	2.1	42	93	2	153	30	22	20	26	1.98
68601930--68602065	40	3.4	40	82	2	148	19	22	22	36	1.96
68605766--68605819	20	2.6	21	79	5	65	20	11	11	57	1.63
68613223--68613277	3	18.3	3	100	0	110	32	0	0	67	0.91
68618048--68618193	41	3.6	40	77	9	127	23	18	28	29	1.98
68619212--68619257	19	2.4	18	82	10	56	21	19	10	47	1.80
68621874--68622014	45	3.0	47	81	8	171	46	15	24	12	1.81
68623279--68623799	88	5.9	88	87	1	675	28	15	25	30	1.96
68623279--68623799	177	2.9	177	89	0	765	28	15	25	30	1.96
68623279--68623866	265	2.2	266	89	1	885	29	15	25	30	1.96
68623279--68623866	177	3.3	176	87	1	764	29	15	25	30	1.96
68623279--68623936	177	3.7	175	84	3	685	29	15	25	29	1.96
68623392--68623936	133	4.1	133	78	6	377	29	15	25	29	1.96
68625593--68625627	3	11.7	3	100	0	70	31	0	0	68	0.90
68636476--68636647	91	1.9	90	82	5	213	38	16	19	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68650307--68650933	345	1.8	345	88	1	952	37	13	14	34	1.85
68654820--68654870	2	26.0	2	78	11	52	43	1	0	54	1.11
68654998--68655061	27	2.6	25	83	14	71	68	4	1	25	1.17
68662526--68662577	24	2.2	24	96	0	95	34	21	3	40	1.71
68662712--68662741	2	15.0	2	100	0	60	50	0	0	50	1.00
68662850--68662900	2	26.0	2	78	11	52	43	1	0	54	1.11
68666093--68666196	51	2.0	51	94	0	181	34	8	15	41	1.78
68667036--68667149	44	2.6	44	90	0	174	50	14	19	16	1.79
68667036--68667163	44	2.9	44	84	4	161	51	14	18	15	1.76
68668992--68669325	95	3.6	91	77	8	309	26	15	16	40	1.89
68668997--68669398	189	2.1	188	82	6	472	26	15	17	40	1.89
68675220--68675255	15	2.4	15	100	0	72	52	5	0	41	1.24
68675220--68675262	15	2.9	15	92	0	59	48	4	0	46	1.22
68681303--68681328	9	2.9	9	100	0	52	65	0	23	11	1.25
68685380--68685429	24	2.1	24	96	0	91	34	18	4	44	1.68
68685685--68685732	12	3.8	12	76	10	51	37	2	0	60	1.09
68685674--68685730	28	2.0	28	90	6	89	36	1	0	61	1.07
68685664--68685716	23	2.4	22	79	14	56	35	1	0	62	1.06
68685711--68685751	2	20.5	2	84	0	55	46	2	2	48	1.28
68685676--68685750	14	5.2	14	78	15	73	40	2	1	56	1.22
68685870--68685930	24	2.5	25	87	10	83	72	4	1	21	1.13
68693431--68693502	32	2.2	32	80	4	83	20	2	5	70	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68695334--68695362	8	3.6	8	100	0	58	55	0	0	44	0.99
68695334--68695368	16	2.2	16	89	0	52	60	0	0	40	0.97
68697455--68697484	15	2.0	15	93	0	51	40	10	3	46	1.54
68697555--68697595	17	2.4	18	80	15	52	73	2	4	19	1.13
68699805--68699842	15	2.5	15	91	0	58	44	5	2	47	1.39
68699816--68699851	15	2.4	15	90	0	54	38	2	2	55	1.29
68704665--68704840	87	2.0	87	97	0	334	36	4	25	34	1.76
68709861--68709886	13	2.0	13	100	0	52	23	23	23	30	1.99
68712044--68712076	9	3.3	10	87	12	50	60	0	0	39	0.97
68714978--68715020	17	2.8	16	86	13	63	62	2	34	0	1.08
68715658--68716202	18	30.6	16	73	17	320	45	11	14	29	1.79
68715616--68715744	55	2.4	53	92	2	204	44	10	13	31	1.78
68715712--68716200	18	27.5	18	76	15	387	44	11	14	29	1.79
68715713--68716211	35	14.1	34	79	9	459	45	10	14	29	1.79
68716395--68716489	41	2.4	41	82	6	117	41	12	12	33	1.81
68716816--68716881	10	6.4	10	78	13	62	3	13	0	83	0.76
68716815--68716880	24	2.6	25	81	13	73	3	15	0	81	0.80
68716834--68716879	16	2.9	16	81	15	60	0	19	0	80	0.71
68716815--68716882	19	3.8	18	78	16	54	2	16	0	80	0.82
68717196--68717244	3	14.7	3	91	8	53	0	30	0	69	0.89
68717178--68717228	4	13.5	4	81	8	54	0	27	0	72	0.85
68717195--68717244	19	2.7	18	77	22	59	0	32	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68717179--68717240	29	2.2	28	85	8	81	0	29	0	70	0.87
68717539--68717627	29	3.0	30	81	5	90	39	5	22	32	1.77
68717559--68717706	29	5.0	29	80	8	129	42	2	23	31	1.68
68717588--68717699	59	1.9	59	87	3	163	42	0	25	32	1.55
68717583--68717689	30	3.6	29	83	8	126	46	0	21	30	1.58
68717582--68717706	59	2.1	59	82	2	162	44	2	23	29	1.66
68721418--68721442	13	1.9	13	100	0	50	48	8	0	44	1.32
68723058--68723114	27	2.3	25	85	11	73	47	7	3	42	1.47
68730848--68730988	44	3.0	43	78	18	149	52	9	24	14	1.70
68732325--68733031	244	2.9	243	83	5	816	35	19	15	29	1.92

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226