genome.fa.s5.2.7.7.80.10.50.1000.116.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  116  of  208  ( 24913 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)
35257403--35257515	51	2.2	51	95	0	199	28	29	0	41	1.62
35257530--35257581	10	5.1	10	76	4	50	30	1	0	67	1.02
35257517--35257581	31	2.1	31	94	0	112	33	1	1	63	1.13
35259332--35259366	18	1.9	18	88	0	52	25	34	8	31	1.86
35260174--35260242	35	2.0	35	82	5	86	49	8	2	39	1.49
35263252--35263598	123	2.8	123	91	1	545	31	21	17	30	1.96
35266478--35266581	52	2.0	52	98	0	199	25	26	12	34	1.92
35267142--35267186	22	2.0	22	100	0	90	28	31	8	31	1.88
35270822--35270871	20	2.5	20	80	0	64	50	0	6	44	1.26
35270958--35270996	19	2.1	19	90	0	60	43	10	10	35	1.73
35270948--35271009	33	1.9	31	87	12	90	40	11	8	40	1.70
35272521--35272559	19	2.1	19	90	0	60	30	0	5	64	1.15
35273704--35273741	18	2.1	19	85	9	53	44	7	7	39	1.63
35275968--35276257	50	5.7	50	82	6	309	27	22	28	21	1.99
35282596--35282621	11	2.4	11	100	0	52	23	38	7	30	1.83
35291602--35291654	16	3.1	18	70	10	56	24	28	16	30	1.97
35292260--35292292	15	2.2	15	89	10	50	81	0	12	6	0.85
35292263--35292292	10	2.8	11	90	10	53	80	0	13	6	0.91
35293559--35293591	17	1.9	17	93	0	57	21	30	6	42	1.77
35297884--35297916	17	1.9	17	93	0	57	21	27	9	42	1.83
35306197--35306234	17	2.2	17	100	0	76	39	5	28	26	1.78
35308118--35308178	29	2.1	28	81	3	68	26	14	16	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35308471--35308518	22	2.2	22	96	0	87	31	31	0	37	1.58
35308525--35308605	22	3.4	22	66	18	54	27	24	0	48	1.52
35308492--35308601	50	2.2	51	93	1	186	28	29	0	42	1.56
35308602--35308660	10	5.8	10	82	11	75	40	0	0	59	0.97
35308604--35308660	21	2.8	19	89	7	78	40	0	0	59	0.97
35308602--35308658	30	1.9	30	92	0	96	40	0	0	59	0.97
35309745--35309769	7	3.6	7	100	0	50	28	0	12	60	1.32
35310421--35310455	18	1.9	18	88	0	52	25	34	8	31	1.86
35310870--35310928	25	2.3	26	88	2	84	52	1	8	37	1.42
35310924--35310972	18	2.7	18	90	0	71	48	20	2	28	1.60
35310949--35311171	29	8.2	29	81	11	258	44	29	0	26	1.54
35310949--35311171	58	4.1	58	82	15	321	44	29	0	26	1.54
35311007--35311048	18	2.3	18	95	0	75	47	23	0	28	1.52
35310946--35311132	102	1.9	100	94	2	329	45	28	0	26	1.54
35311169--35311415	55	4.3	54	81	13	305	39	10	5	44	1.63
35311278--35311312	18	1.9	18	94	0	61	37	8	2	51	1.47
35311223--35311423	65	3.2	62	76	17	204	40	9	4	44	1.59
35311399--35311423	10	2.5	10	100	0	50	44	8	0	48	1.32
35311278--35311423	65	2.2	65	89	6	215	41	8	4	44	1.57
35314510--35314735	124	1.8	124	93	1	391	33	21	15	29	1.94
35329877--35329937	31	2.0	31	96	0	113	29	9	14	45	1.77
35333175--35333274	38	2.6	39	83	1	121	40	3	7	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35334852--35334899	17	2.8	17	77	0	60	25	31	14	29	1.95
35339923--35339983	25	2.4	25	88	0	86	14	16	24	44	1.85
35339940--35340010	25	2.9	25	82	2	81	12	12	29	45	1.79
35339979--35340066	40	2.2	40	84	8	108	12	17	30	39	1.86
35340102--35340421	110	2.9	111	84	3	414	25	17	26	30	1.97
35343240--35343274	18	1.9	18	94	0	61	14	37	28	20	1.91
35349464--35349537	26	2.9	25	84	6	94	35	17	8	39	1.79
35351540--35351627	38	2.3	40	83	11	105	40	0	1	57	1.06
35351707--35351744	12	3.2	12	88	0	58	76	0	0	23	0.79
35359130--35359173	2	22.0	2	100	0	88	50	0	0	50	1.00
35359576--35359737	17	8.8	17	67	20	76	37	1	0	61	1.04
35359576--35359651	37	2.1	37	100	0	152	40	0	0	59	0.98
35359588--35359756	39	4.4	40	88	4	224	35	1	0	62	1.06
35359653--35359714	29	2.1	29	85	5	81	33	3	0	62	1.11
35359642--35359747	11	10.4	11	72	20	63	35	2	0	61	1.11
35359730--35359769	21	1.9	21	89	0	62	37	2	0	60	1.11
35359729--35359783	21	2.5	20	80	13	56	38	1	3	56	1.28
35360179--35360213	19	1.9	17	88	11	52	20	2	11	65	1.37
35362672--35362700	2	14.5	2	100	0	58	51	0	0	48	1.00
35367514--35367539	13	2.0	13	100	0	52	7	0	0	92	0.39
35369558--35369629	36	1.9	39	86	8	105	55	5	8	30	1.52
35371347--35371400	24	2.2	24	96	0	99	38	18	16	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35371520--35371610	44	2.1	44	97	0	173	53	23	12	10	1.69
35371524--35371621	44	2.3	43	91	6	157	55	21	12	11	1.68
35371773--35371801	14	2.1	14	100	0	58	17	6	55	20	1.65
35371784--35371836	19	2.8	19	91	0	88	18	9	50	20	1.74
35372173--35372222	19	2.5	20	87	6	75	34	2	36	28	1.69
35380252--35380342	38	2.4	39	90	3	148	46	10	8	34	1.70
35386862--35386940	38	2.1	39	92	2	133	44	10	8	36	1.70
35387413--35387448	16	2.2	17	90	5	56	47	0	11	41	1.39
35401054--35401116	21	3.2	20	74	24	55	42	19	1	36	1.61
35402495--35402538	23	1.9	22	82	17	54	36	25	0	38	1.56
35402584--35402676	45	2.1	45	91	0	150	31	22	20	25	1.98
35404010--35404051	21	2.0	21	95	0	75	26	42	16	14	1.86
35404784--35404828	21	2.1	22	83	4	56	37	4	0	57	1.19
35411389--35411551	43	3.8	43	80	8	170	31	28	18	22	1.97
35434595--35434719	58	2.2	58	88	2	180	52	3	0	44	1.17
35434981--35435011	16	1.9	16	93	0	53	51	16	3	29	1.59
35445939--35445978	9	4.2	9	81	12	53	32	0	0	67	0.91
35445940--35445978	10	4.0	10	84	15	55	30	0	0	69	0.89
35445932--35446017	35	2.4	34	76	16	86	31	0	1	67	0.98
35445932--35446005	9	8.6	9	73	18	50	28	0	1	70	0.96
35452062--35452092	15	2.1	15	93	0	53	67	16	0	16	1.23
35452221--35452266	19	2.4	19	85	10	58	78	4	2	15	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35454477--35456353	44	42.5	44	80	4	1806	30	25	15	28	1.95
35454477--35456353	265	7.1	265	84	3	1897	30	25	15	28	1.95
35454477--35456353	309	6.1	309	83	3	1940	30	25	15	28	1.95
35457225--35457273	26	1.9	26	88	12	75	61	8	14	16	1.56
35471069--35471099	15	2.1	15	93	0	53	67	16	0	16	1.23
35471229--35471274	19	2.4	19	85	10	58	78	4	2	15	1.01
35483359--35483431	25	3.0	24	84	7	85	23	28	16	31	1.96
35484580--35484610	12	2.6	12	94	0	53	22	41	29	6	1.78
35494607--35494671	27	2.4	26	78	19	71	47	13	3	35	1.59
35494612--35494671	25	2.3	26	81	16	70	48	13	3	35	1.59
35505547--35505857	154	2.0	155	94	3	556	41	7	8	42	1.64
35505999--35506084	34	2.6	34	96	1	156	44	9	8	38	1.66
35506667--35506725	3	20.0	3	73	16	52	30	3	1	64	1.20
35506666--35506701	17	2.1	18	89	5	56	25	5	0	69	1.10
35506667--35506724	20	2.8	21	84	7	66	29	3	1	65	1.19
35510979--35511016	14	2.7	14	76	15	51	28	21	13	36	1.91
35512136--35512174	18	2.2	17	86	13	53	33	0	20	46	1.51
35512386--35512507	23	5.3	23	91	0	181	27	22	21	29	1.99
35519590--35519628	18	2.2	17	86	13	53	33	0	20	46	1.51
35525221--35525288	8	8.5	8	95	0	109	25	14	10	50	1.74
35525293--35525328	3	12.0	3	100	0	72	66	0	0	33	0.92
35525327--35525386	3	20.0	3	96	0	111	31	0	1	66	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35527595--35527676	18	4.4	19	71	15	64	54	4	0	40	1.22
35527638--35527696	18	3.2	18	76	7	64	57	1	3	37	1.25
35528027--35528083	20	2.9	20	86	2	71	63	1	7	28	1.30
35533194--35533230	19	1.9	19	94	0	65	45	8	5	40	1.56
35541249--35541311	29	2.3	27	83	8	81	49	7	14	28	1.71
35541258--35541311	29	1.9	29	88	7	85	48	7	14	29	1.71
35545346--35545376	12	2.6	12	94	0	53	61	19	0	19	1.35
35545524--35545557	18	1.9	17	88	5	50	64	2	5	26	1.30
35545623--35545657	3	11.7	3	100	0	70	68	31	0	0	0.90
35545718--35545756	20	2.0	21	85	10	55	66	10	0	23	1.22

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