genome.fa.s8.2.7.7.80.10.50.1000.177.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  177  of  190  ( 22705 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)
51504821--51504892	19	3.7	18	77	17	65	59	6	1	31	1.32
51541407--51541444	20	1.9	20	94	0	67	34	2	0	63	1.09
51541406--51541451	20	2.3	20	84	0	65	34	2	0	63	1.07
51543456--51543504	23	2.2	23	85	3	64	30	0	14	55	1.40
51544174--51544283	21	5.2	21	73	4	96	14	23	18	43	1.87
51544173--51544283	42	2.6	42	84	2	143	14	23	18	44	1.86
51545659--51545910	50	4.8	50	83	9	297	26	21	30	21	1.98
51545716--51545840	59	2.1	60	92	3	216	28	21	28	20	1.98
51545666--51545891	109	2.1	111	87	2	330	27	21	29	21	1.98
51550521--51550555	17	2.1	17	89	5	54	45	0	2	51	1.16
51551794--51551834	17	2.4	18	80	12	50	48	14	2	34	1.57
51561570--51561613	6	7.3	6	100	0	88	31	0	0	68	0.90
51565075--51565128	11	4.8	12	80	15	62	24	31	1	42	1.65
51566919--51566965	21	2.2	21	85	7	60	27	40	27	4	1.75
51567200--51567244	22	2.1	22	91	4	74	46	24	0	28	1.53
51567207--51567256	22	2.3	22	86	6	66	44	30	0	26	1.55
51567193--51567370	57	3.1	55	83	6	230	44	30	1	23	1.60
51567328--51567378	22	2.3	22	93	0	84	49	29	0	21	1.50
51567301--51567470	92	1.8	92	81	7	211	46	29	0	24	1.53
51567392--51567435	14	3.2	14	77	3	54	40	31	0	27	1.56
51567440--51567483	22	2.0	21	86	4	61	45	27	0	27	1.54
51570582--51571021	125	3.5	125	86	2	605	29	22	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51574515--51574576	17	3.5	17	77	18	56	22	27	0	50	1.50
51585644--51586058	125	3.3	125	91	1	661	33	19	19	28	1.96
51589229--51589386	49	3.2	49	93	0	262	48	5	3	43	1.43
51589815--51589852	18	2.1	18	90	0	58	44	7	23	23	1.79
51591645--51591703	11	5.3	11	79	2	55	52	1	23	22	1.56
51598300--51598329	6	5.0	6	100	0	60	66	33	0	0	0.92
51606653--51606727	37	2.0	37	94	0	132	28	20	17	34	1.95
51606752--51606847	37	2.6	36	83	3	111	38	18	15	27	1.91
51606961--51606995	2	17.5	2	100	0	70	51	48	0	0	1.00
51608644--51608674	2	15.5	2	100	0	62	48	0	0	51	1.00
51611128--51611209	34	2.4	34	87	4	112	39	2	17	41	1.62
51611285--51611680	126	3.2	126	87	1	544	36	18	16	28	1.93
51618131--51618182	26	2.0	26	100	0	104	34	11	11	42	1.77
51618600--51618632	12	2.5	13	90	9	50	72	0	6	21	1.05
51618879--51618924	19	2.3	21	88	7	69	76	4	2	17	1.06
51619583--51619645	23	2.7	23	78	7	65	44	3	3	49	1.34
51622809--51622860	25	2.1	24	82	10	61	69	1	0	28	0.99
51624092--51624154	30	2.1	30	96	0	117	57	14	4	23	1.56
51624944--51624978	6	5.8	6	100	0	70	82	0	0	17	0.66
51628397--51628598	97	2.1	98	83	4	248	45	4	2	48	1.36
51635408--51635716	158	2.0	157	93	1	530	27	15	23	33	1.95
51638413--51638440	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51638885--51638929	3	14.7	3	95	4	81	2	31	0	66	1.04
51660278--51660312	5	7.0	5	93	0	61	37	0	0	62	0.95
51660265--51660312	10	4.9	10	84	5	53	33	0	4	62	1.14
51673916--51674066	25	6.3	24	80	15	145	37	18	25	17	1.93
51673916--51674066	47	3.2	46	81	12	171	37	18	25	17	1.93
51676264--51676363	52	1.9	52	89	0	155	35	14	22	29	1.93
51676337--51676446	37	3.0	37	90	2	170	35	15	22	26	1.94
51677773--51677805	13	2.5	13	95	0	57	0	27	0	72	0.85
51679456--51679481	12	2.2	12	100	0	52	84	0	7	7	0.77
51682746--51682899	42	3.6	41	72	16	127	24	18	25	31	1.98
51683198--51683242	17	2.6	18	76	16	51	44	0	20	35	1.51
51686326--51686427	41	2.5	40	88	6	150	28	25	19	26	1.99
51711094--51711267	86	2.0	86	93	2	296	43	17	11	27	1.83
51716786--51716830	20	2.2	21	88	7	67	53	0	0	46	1.00
51719021--51719058	2	19.0	2	100	0	76	50	0	0	50	1.00
51731040--51731161	61	2.0	60	88	1	181	14	4	34	46	1.64
51744578--51744767	100	1.9	103	87	7	289	55	3	7	33	1.43
51763406--51763448	11	3.8	11	80	17	52	30	2	2	65	1.18
51763409--51763452	23	1.9	23	90	0	70	31	2	4	61	1.28
51765905--51765936	15	2.0	17	88	11	50	6	0	12	81	0.87
51766260--51766328	30	2.5	27	79	11	77	68	0	0	31	0.90
51769340--51769374	16	2.1	17	89	5	54	37	0	22	40	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51770162--51770289	60	2.1	62	81	11	147	39	4	10	44	1.60
51770557--51770594	18	2.1	18	85	9	51	63	0	2	34	1.09
51775368--51775723	180	2.0	180	96	0	658	32	17	14	35	1.90
51783140--51783189	25	2.0	26	88	11	77	50	4	2	44	1.32
51784448--51784477	15	1.9	16	93	6	53	66	0	0	33	0.92
51790267--51790308	20	2.0	21	86	4	59	52	11	0	35	1.38
51790231--51790311	18	4.3	18	70	20	58	46	14	1	37	1.53
51790234--51790316	20	4.3	20	67	14	57	44	15	1	38	1.55
51805807--51805848	20	2.1	20	86	0	57	47	0	7	45	1.30
51808242--51808370	43	3.0	42	75	17	120	24	18	27	30	1.98
51812583--51812634	27	1.9	27	100	0	104	15	0	32	51	1.43
51814379--51814443	21	3.1	21	79	0	85	41	16	24	16	1.89
51814347--51814486	42	3.4	42	82	5	142	42	17	23	17	1.89
51814586--51814633	24	2.0	24	95	0	87	18	29	10	41	1.84
51814691--51814778	45	1.9	46	86	2	124	44	13	1	40	1.51
51817890--51817926	19	2.0	18	89	5	56	29	0	2	67	1.04
51817936--51817969	8	4.2	8	84	0	50	52	0	0	47	1.00
51824061--51824116	19	2.8	21	73	18	64	41	8	10	39	1.71
51825776--51825905	43	3.0	43	92	4	210	32	27	18	21	1.97
51825747--51825905	86	1.8	86	84	7	216	30	27	18	23	1.97
51827310--51827360	24	2.1	24	92	0	84	23	29	3	43	1.72
51827365--51827522	33	4.7	33	65	14	90	29	20	17	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51827354--51827592	101	2.4	101	87	3	356	28	21	17	32	1.96
51828521--51828553	16	2.0	17	88	5	50	27	12	12	48	1.76
51828981--51829022	21	2.0	21	81	9	50	73	2	4	19	1.12
51830177--51830433	125	2.1	125	90	2	401	29	16	22	31	1.96
51833635--51833937	28	11.6	27	79	16	293	31	0	21	46	1.58
51833635--51833942	51	5.9	51	83	5	361	31	1	20	46	1.59
51836288--51836390	52	2.0	51	84	5	136	35	0	31	33	1.58
51836340--51836409	22	3.2	22	93	0	122	38	0	30	31	1.58
51839757--51839781	10	2.5	10	100	0	50	60	0	0	40	0.97
51866903--51866927	3	8.3	3	100	0	50	0	32	0	68	0.90
51867402--51867438	2	18.5	2	100	0	74	0	48	0	51	1.00
51871461--51871489	6	4.8	6	100	0	58	51	31	0	17	1.45
51877933--51878012	29	2.7	30	77	14	76	61	3	1	33	1.22
51879890--51879924	17	2.2	17	90	10	56	71	5	0	22	1.07
51885718--51885748	16	1.9	16	93	0	53	38	0	6	54	1.26
51886635--51886765	58	2.2	61	81	8	144	42	17	6	33	1.74
51886787--51886834	20	2.4	20	85	0	60	60	10	0	29	1.30
51888125--51888149	12	2.1	12	100	0	50	28	0	0	72	0.86
51896159--51896254	25	3.9	24	74	10	88	13	26	22	37	1.91
51896130--51896276	50	3.0	49	79	6	138	17	24	20	37	1.94
51896258--51896314	25	2.3	25	87	6	80	24	29	19	26	1.98
51897891--51898036	27	5.7	25	78	10	118	36	22	23	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51897957--51898025	27	2.6	27	97	0	129	34	18	23	23	1.96
51898097--51898174	24	3.2	24	70	13	61	35	19	28	16	1.93
51909318--51909490	41	4.2	41	85	1	231	29	22	21	26	1.99
51910412--51910445	2	17.0	2	100	0	68	50	0	0	50	1.00
51914776--51914823	5	9.8	5	95	4	89	41	0	0	58	0.98
51915805--51915885	22	3.5	23	86	10	112	14	27	19	38	1.91
51915782--51915836	25	2.2	25	86	0	74	18	23	21	36	1.95
51917891--51917979	42	2.1	42	97	0	169	23	25	32	17	1.97
51938229--51938264	5	7.0	5	90	6	54	80	2	16	0	0.83
51940742--51940782	21	2.0	21	90	9	66	51	0	0	48	1.00

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