genome.fa.s9.2.7.7.80.10.50.1000.86.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  86  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)
30598305--30598516	47	4.4	51	82	5	167	22	22	22	32	1.98
30599458--30599812	99	3.6	99	85	6	436	25	1	16	57	1.45
30603626--30604459	113	7.5	111	86	6	1063	59	14	1	24	1.46
30603421--30604459	215	4.8	221	84	8	1274	58	14	1	25	1.46
30603953--30604459	111	4.5	111	89	3	768	60	14	1	23	1.42
30603411--30604459	437	2.4	428	84	7	1305	58	14	1	25	1.45
30604078--30604463	59	6.9	57	63	23	176	60	14	0	24	1.39
30604466--30604491	13	2.0	13	100	0	52	69	15	0	15	1.20
30604829--30605224	96	4.1	97	85	7	513	40	2	16	40	1.61
30605074--30605233	44	3.5	44	70	21	121	41	1	20	36	1.63
30604829--30605230	195	2.1	191	87	5	578	40	2	16	40	1.61
30605266--30605674	125	3.3	125	94	1	694	35	18	19	26	1.95
30606256--30606490	97	2.5	95	82	6	289	37	17	2	42	1.62
30607914--30607939	4	6.5	4	100	0	52	76	0	0	23	0.78
30611572--30611599	7	4.0	7	100	0	56	28	42	14	14	1.84
30625100--30625148	21	2.5	20	90	6	73	2	6	10	81	0.94
30625653--30625706	18	3.1	18	89	2	74	57	29	1	11	1.44
30625653--30625706	17	3.1	17	86	2	63	57	29	1	11	1.44
30626158--30626217	27	2.3	26	91	5	95	28	6	21	43	1.78
30631239--30631696	202	2.3	201	89	1	684	32	10	14	42	1.79
30636862--30636922	21	2.9	21	80	0	59	39	39	8	13	1.74
30639372--30639423	13	4.0	12	74	16	50	67	0	1	30	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30639378--30639438	27	2.3	28	83	10	76	63	0	1	34	1.04
30639623--30639667	7	6.3	7	86	2	54	48	4	0	46	1.22
30644841--30644871	16	1.9	16	93	0	53	48	6	9	35	1.62
30644960--30645037	3	25.3	3	76	17	72	61	3	1	33	1.22
30646392--30646581	100	1.9	100	82	6	242	24	20	21	33	1.97
30646682--30646835	44	3.6	44	83	4	174	26	22	21	29	1.99
30646584--30647008	212	2.0	211	84	5	563	27	21	19	31	1.97
30646906--30647791	128	6.8	130	84	5	962	24	24	20	30	1.99
30648966--30649000	14	2.6	13	86	8	52	14	14	5	65	1.44
30654686--30654716	16	1.9	16	93	0	53	48	6	9	35	1.62
30654806--30654880	3	24.3	3	73	17	57	60	2	4	33	1.30
30654806--30654858	18	3.1	18	82	17	69	58	3	5	32	1.39
30656255--30656837	114	5.1	114	86	2	778	25	21	25	27	2.00
30656778--30656867	41	2.2	41	83	0	117	22	17	28	31	1.97
30657470--30657509	14	2.9	14	88	0	53	20	0	45	35	1.51
30657481--30657519	12	3.0	13	88	7	53	17	0	51	30	1.46
30657482--30657536	19	2.7	20	80	11	58	23	0	45	30	1.53
30657563--30657890	95	3.6	93	80	12	383	28	1	26	42	1.66
30657638--30657807	83	2.1	82	93	3	288	27	2	27	43	1.67
30657986--30658025	9	4.4	9	87	9	55	62	0	7	30	1.23
30657986--30658027	19	2.3	19	91	4	68	61	0	7	30	1.22
30657986--30658027	10	4.5	10	85	11	54	61	0	7	30	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30658021--30658063	11	4.3	9	81	18	50	83	0	2	13	0.74
30658011--30658063	20	2.6	20	82	8	63	79	0	1	18	0.83
30664321--30664429	26	4.3	26	76	11	82	40	26	13	19	1.89
30664320--30664389	23	2.9	23	80	12	77	38	30	14	17	1.89
30667130--30667500	139	2.7	138	84	8	444	24	12	10	52	1.71
30667090--30667504	139	3.0	131	78	11	422	24	13	11	51	1.73
30667573--30667611	12	3.2	12	79	13	53	23	0	2	74	0.94
30667822--30668220	141	2.9	139	81	5	439	50	11	11	26	1.73
30668563--30668614	24	2.2	24	89	0	77	55	9	1	32	1.43
30670532--30670583	24	2.2	24	89	0	77	55	9	1	32	1.43
30671474--30671623	74	2.0	74	96	0	273	34	6	10	48	1.63
30671864--30671915	19	2.6	20	81	6	52	46	0	1	51	1.12
30671935--30671976	13	2.9	14	80	13	50	45	4	0	50	1.23
30677188--30677214	7	3.9	7	100	0	54	55	14	0	29	1.40
30677534--30677645	59	1.9	59	82	10	140	24	11	13	50	1.74
30678931--30679004	29	2.5	29	82	4	85	29	16	10	43	1.82
30679016--30679042	12	2.2	12	100	0	54	22	14	25	37	1.93
30680113--30680150	19	2.0	20	84	5	51	76	2	5	15	1.08
30681273--30681321	15	3.4	15	80	5	57	67	2	0	30	1.02
30683501--30683533	6	5.5	6	100	0	66	33	18	15	33	1.92
30684785--30684821	18	2.1	18	94	0	65	45	8	10	35	1.69
30687284--30687566	111	2.6	107	87	5	383	26	17	21	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30688110--30688146	19	1.9	19	88	0	56	29	2	8	59	1.40
30689496--30689807	108	2.9	106	86	3	401	27	16	20	35	1.93
30691347--30691381	18	1.9	18	88	11	54	42	5	0	51	1.25
30694044--30694068	12	2.1	12	100	0	50	92	0	8	0	0.40
30695048--30695081	3	11.3	3	100	0	68	32	0	0	67	0.91
30702833--30703060	46	5.0	46	93	1	386	28	25	9	36	1.87
30702833--30703060	91	2.5	92	94	0	404	28	25	9	36	1.87
30703161--30703248	46	1.9	46	97	0	167	27	27	9	36	1.87
30706235--30706283	22	2.2	22	85	0	62	34	22	22	20	1.97
30711466--30711507	2	21.0	2	100	0	84	50	0	0	50	1.00
30715798--30716006	33	6.3	33	89	2	294	31	18	23	26	1.97
30715799--30716006	66	3.2	66	91	1	328	31	18	23	26	1.97
30715799--30716037	33	7.2	33	87	0	237	31	18	23	25	1.97
30715799--30716037	66	3.6	65	88	3	309	31	18	23	25	1.97
30720157--30720470	150	2.1	150	98	0	603	34	10	15	39	1.82
30726692--30726724	17	2.0	17	88	5	50	51	0	0	48	1.00
30727021--30727264	118	2.1	118	93	1	418	38	17	4	40	1.69
30728326--30729295	153	6.4	151	85	7	1279	30	9	7	52	1.63
30728326--30729295	302	3.2	300	88	5	1354	30	9	7	52	1.63
30729253--30729278	13	2.0	13	100	0	52	15	15	7	61	1.55
30731673--30731716	21	2.1	21	82	0	52	52	22	4	20	1.65
30732958--30732990	17	1.9	17	88	11	50	48	21	0	30	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30742669--30742721	23	2.3	23	80	9	63	16	11	5	66	1.42
30745145--30745197	24	2.3	23	78	15	56	15	16	0	67	1.23
30745788--30745814	14	1.9	14	100	0	54	3	7	51	37	1.48
30747441--30747484	20	2.2	20	88	8	63	54	0	4	40	1.21
30757721--30757795	21	3.7	21	91	3	118	13	25	18	42	1.87
30760873--30760916	13	3.3	13	83	3	52	47	0	6	45	1.29
30765724--30765757	2	17.0	2	93	0	59	47	0	0	52	1.00
30768168--30768208	21	2.0	21	85	9	57	43	0	34	21	1.53
30768144--30768203	30	2.0	30	83	3	77	43	0	36	20	1.52
30768696--30768764	4	17.8	4	71	11	54	66	0	2	30	1.06
30768707--30768762	12	4.9	11	77	16	60	64	0	1	33	1.04
30770858--30770892	5	7.2	5	93	6	63	60	0	40	0	0.97
30770858--30770900	15	2.9	15	89	6	52	60	2	37	0	1.10
30773789--30773828	16	2.6	16	88	4	55	22	2	2	72	1.09
30774226--30774327	51	2.0	51	98	0	195	22	7	18	50	1.72
30774666--30774707	21	2.0	21	90	0	66	54	23	9	11	1.66
30784884--30785176	40	7.3	40	93	0	460	11	13	28	45	1.79
30786962--30787017	28	2.0	28	100	0	112	25	21	25	28	1.99
30791306--30791335	6	5.0	6	95	0	51	16	30	0	53	1.44
30793373--30793534	27	6.0	27	76	10	143	39	19	9	30	1.84
30793991--30794054	28	2.3	28	86	2	85	15	21	23	39	1.92
30797114--30797250	55	2.5	55	90	0	184	21	24	26	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30798728--30798764	17	2.2	17	95	4	67	48	8	2	40	1.47
30798718--30798770	17	2.7	20	68	31	51	45	9	1	43	1.47
30800334--30800389	29	1.9	29	85	7	78	35	7	44	12	1.70
30806949--30806998	26	1.9	26	87	0	73	18	16	36	30	1.92
30807025--30807285	42	6.2	41	78	11	251	22	14	25	37	1.93
30806975--30807293	85	3.8	85	91	2	468	22	15	26	35	1.94
30807022--30807293	43	6.4	43	79	11	303	22	15	25	36	1.94
30816174--30816257	28	3.0	28	89	0	132	32	20	22	25	1.98
30816365--30816418	26	2.1	26	85	0	72	35	22	22	20	1.96
30816598--30816707	27	4.1	27	80	6	125	21	14	23	40	1.90

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