genome.fa.s9.2.7.7.80.10.50.1000.137.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  137  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)
45697676--45697706	16	2.0	15	93	6	53	6	29	0	64	1.18
45705794--45705854	18	3.4	18	90	0	95	36	24	9	29	1.88
45705803--45705869	18	3.9	18	86	5	86	35	22	8	32	1.85
45707259--45707329	21	3.5	20	76	10	65	32	0	0	67	0.91
45717674--45717708	14	2.5	14	90	0	52	45	14	2	37	1.59
45719214--45719331	43	2.7	44	78	2	132	32	27	19	20	1.97
45721404--45721440	18	2.1	18	94	0	65	29	35	2	32	1.72
45725975--45726064	42	2.1	42	81	0	99	24	26	33	15	1.95
45726624--45726672	25	2.0	25	83	0	62	30	26	16	26	1.97
45730327--45730351	12	2.1	12	100	0	50	0	8	0	92	0.40
45732084--45732136	21	2.5	21	81	0	61	47	0	7	45	1.31
45732692--45732742	22	2.4	22	77	9	52	39	23	3	33	1.73
45741637--45741715	29	2.7	30	84	5	92	35	6	25	32	1.81
45741644--45741725	29	2.8	29	77	3	85	37	6	25	30	1.80
45742261--45742285	13	1.9	13	100	0	50	12	8	16	64	1.49
45745734--45745785	25	2.1	24	86	10	70	21	17	17	44	1.87
45745768--45745829	25	2.5	24	77	10	63	20	19	22	37	1.95
45752054--45752143	25	3.6	25	77	4	85	22	21	21	35	1.96
45752433--45752521	42	2.1	42	97	0	169	25	28	30	15	1.96
45753530--45753621	11	8.3	11	71	23	52	54	5	2	38	1.36
45753530--45753560	16	1.9	16	93	0	53	54	3	0	41	1.16
45755084--45755137	27	2.0	26	89	10	83	46	31	0	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45759048--45759085	16	2.2	18	86	9	53	47	2	2	47	1.30
45760794--45760902	55	2.0	55	98	0	209	34	0	17	47	1.48
45763178--45763241	32	2.0	32	100	0	128	62	9	9	18	1.52
45764719--45764771	27	2.0	27	81	7	63	45	3	3	47	1.39
45765128--45765191	32	2.0	32	100	0	128	37	9	15	37	1.80
45766078--45766104	11	2.5	11	100	0	54	55	22	7	14	1.64
45776870--45776906	9	4.1	9	85	0	56	48	13	8	29	1.71
45778275--45778374	39	2.6	39	85	0	137	46	17	3	34	1.63
45779456--45779482	14	1.9	14	100	0	54	44	11	7	37	1.68
45784712--45784806	30	3.2	30	73	10	95	21	23	17	37	1.94
45784716--45784802	31	2.9	30	75	10	86	20	25	17	36	1.94
45787074--45787229	29	5.4	29	83	4	154	23	25	11	40	1.88
45787103--45787229	58	2.2	58	87	2	184	22	25	11	40	1.86
45787214--45787284	29	2.4	29	88	0	97	29	21	11	38	1.88
45791211--45791252	21	2.0	21	100	0	84	28	23	14	33	1.94
45793025--45793076	24	2.2	24	89	0	77	51	5	3	38	1.44
45797342--45797398	24	2.4	24	88	5	80	45	8	5	40	1.58
45797355--45797405	24	2.1	24	88	0	75	50	5	3	39	1.45
45799535--45799583	25	2.0	25	87	0	71	28	16	6	48	1.69
45800925--45800951	14	1.9	14	100	0	54	59	7	7	25	1.51
45803992--45804022	15	2.1	14	94	5	53	22	3	0	74	0.96
45803994--45804044	23	2.1	26	85	10	72	21	1	1	74	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45804005--45804057	18	2.8	19	78	18	65	20	3	1	73	1.08
45807367--45807443	12	6.0	13	69	11	52	29	1	5	63	1.24
45819653--45819731	30	2.7	30	80	5	90	54	6	8	30	1.56
45819843--45819881	2	19.5	2	100	0	78	51	0	0	48	1.00
45837462--45837503	22	1.9	22	85	9	59	52	7	4	35	1.50
45837590--45837630	16	2.6	16	84	0	55	51	2	0	46	1.14
45863548--45863590	18	2.3	19	80	15	54	4	20	0	74	1.00
45864926--45864971	22	2.1	22	91	0	74	13	19	17	50	1.78
45865844--45865869	13	2.0	13	100	0	52	38	7	7	46	1.61
45878479--45878518	21	1.9	21	85	10	55	62	7	5	25	1.42
45882250--45882274	12	2.1	12	100	0	50	24	16	32	28	1.96
45883026--45883069	12	3.5	13	84	9	56	70	0	0	29	0.88
45883352--45883408	28	2.1	26	84	12	71	71	0	19	8	1.11
45883374--45883419	22	2.2	20	84	11	56	73	0	15	10	1.08
45885543--45885576	16	2.1	16	88	5	50	8	0	14	76	1.01
45891199--45891224	11	2.4	11	100	0	52	26	0	0	73	0.84
45896750--45896778	12	2.3	13	94	5	51	17	44	6	31	1.75
45897645--45897690	22	2.1	22	95	0	83	21	15	19	43	1.87
45898057--45898202	20	7.3	20	77	1	114	17	21	15	45	1.85
45900622--45900653	16	1.9	17	93	6	57	75	0	15	9	1.05
45900860--45901007	69	2.2	69	84	4	185	32	13	20	33	1.91
45901945--45901996	16	3.2	16	73	10	52	32	15	11	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45905317--45905402	9	9.6	9	89	0	136	24	9	23	43	1.83
45905309--45905402	18	5.2	18	93	0	152	24	8	24	42	1.82
45905466--45905645	28	5.8	29	66	21	105	32	13	18	35	1.90
45905494--45905616	37	3.6	36	69	19	127	34	16	19	30	1.94
45905442--45905646	65	3.2	65	100	0	410	31	15	18	34	1.92
45906638--45906725	45	2.0	45	90	0	140	51	6	17	25	1.69
45907257--45907281	13	1.9	13	100	0	50	40	0	8	52	1.31
45914669--45914705	19	1.9	19	88	0	56	37	29	5	27	1.79
45916324--45916384	22	2.8	22	80	14	72	37	18	24	19	1.94
45925919--45926014	41	2.3	41	85	0	129	32	15	27	25	1.96
45925944--45926018	21	3.7	21	70	18	68	33	16	28	22	1.95
45929915--45929953	19	2.1	19	90	4	62	35	0	2	61	1.10
45932584--45932610	14	1.9	14	100	0	54	51	7	18	22	1.70
45948539--45948909	105	3.6	103	92	2	591	30	29	20	19	1.97
45958383--45958432	25	2.0	25	85	14	68	24	6	0	70	1.10
45958386--45958437	6	8.3	6	78	16	52	21	3	0	75	0.97
45962177--45962302	63	2.0	63	100	0	252	38	3	19	39	1.67
45966840--45966866	2	13.5	2	100	0	54	48	0	0	51	1.00
45968393--45968420	12	2.3	12	100	0	56	0	57	0	42	0.99
45969879--45969904	9	2.9	9	100	0	52	34	19	11	34	1.88
45973086--45973120	18	1.9	18	94	0	61	14	25	11	48	1.77
45974770--45974794	12	2.1	12	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45976473--45976504	2	16.0	2	93	0	55	46	3	0	50	1.17
45976524--45976573	23	2.2	23	88	0	73	6	12	22	60	1.53
45976531--45976609	23	3.4	23	85	3	95	7	8	18	64	1.45
45976536--45976609	24	3.1	24	86	1	96	8	8	17	66	1.42
45983205--45983264	30	2.0	30	96	0	111	56	15	3	25	1.54
45986237--45986285	18	2.7	19	78	9	57	40	16	0	42	1.48
45996469--45996550	40	2.0	40	100	0	164	35	18	17	29	1.93
45998115--45998182	32	2.1	32	88	0	100	19	11	23	45	1.83
45998152--45998208	28	2.0	29	86	3	80	15	15	24	43	1.86
46026692--46026788	51	2.0	50	85	6	135	48	16	6	28	1.70
46027263--46027293	15	2.1	15	100	0	62	48	19	6	25	1.72
46032227--46032255	15	2.0	15	93	6	51	48	20	3	27	1.66
46049669--46049722	26	2.1	25	86	3	72	20	7	14	57	1.61
46057371--46057414	2	22.0	2	100	0	88	50	0	0	50	1.00
46058976--46059122	57	2.5	59	85	8	201	28	21	26	23	1.99
46059244--46059375	67	2.0	67	92	0	219	21	18	31	28	1.97
46059503--46059566	26	2.4	27	75	17	62	53	6	9	31	1.58
46062700--46062738	20	2.0	20	90	10	62	15	23	5	56	1.59
46062940--46063125	50	3.7	50	79	10	177	22	26	22	28	1.99
46062948--46063181	50	4.6	50	78	6	168	23	26	21	28	1.99
46074156--46074210	28	2.0	28	100	0	110	65	16	3	14	1.41
46074160--46074205	14	3.3	14	72	22	51	65	17	4	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46074641--46074714	34	2.2	32	81	11	85	52	6	0	40	1.28
46080967--46081006	20	1.9	22	85	10	57	32	7	10	50	1.64
46082122--46082165	2	22.0	2	100	0	88	50	0	0	50	1.00
46083252--46083276	8	3.1	8	100	0	50	76	0	0	24	0.80
46096495--46096776	76	3.7	76	80	4	318	35	18	17	28	1.94
46107259--46107304	5	9.2	5	82	17	60	17	0	4	78	0.91
46107259--46107304	19	2.3	20	92	7	76	17	0	4	78	0.91
46107262--46107306	11	4.4	11	83	13	60	17	0	4	77	0.92
46109390--46109479	47	1.9	46	97	2	171	45	6	5	42	1.53
46116630--46116685	21	2.7	21	94	0	94	12	19	7	60	1.55

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