genome.fa.s5.2.7.7.80.10.50.1000.143.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  143  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)
43743526--43743587	25	2.5	25	78	5	63	32	16	12	38	1.86
43743922--43743970	18	2.7	18	81	12	55	38	14	0	46	1.44
43755308--43755367	25	2.5	25	86	7	81	23	11	46	18	1.81
43758615--43758749	41	3.3	40	91	3	216	32	17	18	31	1.94
43761664--43761688	11	2.3	11	100	0	50	48	0	8	44	1.32
43765253--43765383	64	2.0	64	94	0	226	51	3	8	36	1.51
43765259--43765361	32	3.2	32	64	10	84	54	2	9	33	1.48
43765467--43765573	46	2.3	46	88	0	160	43	8	3	43	1.52
43767393--43767432	3	13.0	3	94	5	71	35	0	0	65	0.93
43767779--43767815	9	4.1	9	100	0	74	45	10	10	32	1.74
43769910--43769935	5	5.2	5	100	0	52	19	19	19	42	1.90
43780247--43780314	7	9.7	7	82	6	84	27	16	1	54	1.51
43800220--43800260	3	13.7	3	100	0	82	31	0	0	68	0.90
43805859--43805904	22	2.1	22	84	4	58	60	2	2	34	1.21
43807973--43808003	7	4.4	7	91	0	53	25	12	25	35	1.92
43810636--43810762	45	2.8	46	81	2	150	37	14	24	22	1.92
43813548--43813575	5	5.6	5	100	0	56	82	0	0	17	0.68
43819342--43819415	23	3.2	23	86	0	94	31	39	12	17	1.86
43820555--43820587	17	1.9	17	88	11	50	27	18	12	42	1.85
43820782--43820837	17	3.3	17	70	9	60	41	12	10	35	1.78
43820769--43820837	34	2.0	34	100	0	138	43	11	11	33	1.77
43821276--43821317	20	2.1	20	100	0	84	47	19	14	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43823214--43823271	29	2.0	30	96	3	109	17	24	17	41	1.90
43824800--43824833	17	2.1	17	88	5	52	41	32	5	20	1.76
43826265--43826289	11	2.3	11	100	0	50	0	16	8	76	1.02
43829153--43829192	18	2.3	17	83	8	53	42	10	2	45	1.51
43829257--43829312	22	2.4	24	80	11	64	64	0	7	28	1.20
43829287--43829359	27	2.7	27	81	12	87	65	1	12	20	1.32
43829270--43829359	27	3.3	27	79	13	78	66	1	11	21	1.29
43829318--43829371	27	2.0	27	82	7	65	62	0	16	20	1.32
43829322--43829449	51	2.7	45	75	17	125	61	0	12	25	1.31
43829281--43829437	70	2.2	71	82	5	192	62	0	12	24	1.34
43829352--43829459	51	2.1	53	87	6	159	61	0	11	27	1.30
43829871--43829909	18	2.1	18	85	4	51	69	0	7	23	1.14
43829898--43829998	5	18.0	5	72	17	58	51	0	18	29	1.47
43829874--43829998	30	4.2	30	75	18	86	54	0	16	29	1.42
43829900--43829969	12	6.0	12	74	12	56	50	0	18	31	1.48
43829900--43829970	35	2.1	33	82	10	81	50	0	18	30	1.47
43829923--43829998	28	2.7	27	86	8	91	50	0	19	30	1.48
43830033--43830132	20	5.1	20	76	18	79	59	2	9	30	1.40
43830064--43830130	21	3.3	21	82	17	72	58	0	10	31	1.32
43830098--43830160	17	3.8	17	67	23	53	53	0	11	34	1.36
43830099--43830158	29	2.0	30	87	12	88	55	0	10	35	1.34
43830186--43830247	5	11.6	5	77	13	61	62	3	16	17	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43830185--43830248	22	2.9	22	83	4	76	62	3	15	18	1.45
43830186--43830247	27	2.3	27	88	5	90	62	3	16	17	1.45
43830186--43830244	11	5.5	11	78	9	59	61	3	16	18	1.49
43830622--43830665	23	1.9	23	81	9	54	65	2	6	25	1.28
43830663--43830723	23	2.7	23	77	12	63	54	0	14	31	1.41
43830760--43830800	18	2.3	18	86	0	55	65	2	17	14	1.37
43836324--43836362	12	3.4	11	86	10	51	30	0	0	69	0.89
43841254--43841297	8	5.8	8	81	10	56	22	6	0	70	1.11
43841252--43841283	16	2.0	16	100	0	64	25	6	0	68	1.12
43844842--43844896	28	2.0	28	88	0	83	20	41	23	14	1.89
43851400--43851440	21	2.0	21	95	0	73	36	17	2	43	1.62
43851522--43851558	2	18.5	2	100	0	74	48	0	0	51	1.00
43856810--43856891	38	2.2	38	86	4	112	15	12	23	48	1.79
43856469--43857499	342	3.0	342	91	1	1638	28	12	16	43	1.84
43857154--43857234	38	2.1	38	83	0	99	17	14	23	44	1.86
43863148--43863183	16	2.2	16	90	0	54	38	2	0	58	1.13
43864067--43864105	20	1.9	21	84	5	53	28	2	2	66	1.18
43870914--43871308	126	3.1	126	87	1	551	29	17	16	35	1.92
43871406--43871506	34	3.1	34	90	4	154	43	16	0	39	1.48
43874332--43874372	20	2.0	20	90	0	64	31	14	19	34	1.92
43876631--43876802	86	2.0	85	84	10	226	47	6	5	40	1.53
43876791--43876830	17	2.4	17	87	8	55	45	7	15	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43876848--43876904	16	3.6	16	90	0	87	45	3	3	47	1.37
43876878--43876939	22	2.7	23	90	5	90	48	1	1	48	1.21
43878607--43878705	32	3.2	32	67	12	82	35	13	5	46	1.65
43878591--43878731	63	2.3	60	80	4	147	34	16	6	42	1.73
43879450--43879479	15	1.9	16	93	6	53	40	0	3	56	1.16
43880202--43880339	27	5.1	27	73	6	100	41	7	23	26	1.82
43882857--43882949	49	1.9	49	88	2	143	41	15	12	30	1.84
43887780--43887832	24	2.1	26	86	10	74	41	0	5	52	1.25
43890115--43890237	27	4.6	27	89	0	192	34	13	17	33	1.90
43897676--43897741	27	2.4	27	89	0	105	36	12	18	33	1.88
43905931--43905971	18	2.2	19	91	8	66	78	0	9	12	0.98
43909373--43909411	20	2.0	20	90	10	62	38	7	12	41	1.72
43918078--43918117	21	2.0	19	90	9	62	57	0	42	0	0.98
43924579--43924624	24	1.9	24	81	0	56	15	47	21	15	1.81
43927609--43927639	14	2.2	14	100	0	62	29	12	29	29	1.94
43933241--43933384	43	3.3	43	90	4	211	29	31	18	20	1.96
43933263--43933405	43	3.3	43	90	1	216	30	32	18	19	1.96
43936281--43936690	25	16.3	25	76	12	220	31	2	20	44	1.65
43936292--43936687	16	24.1	17	67	20	109	31	2	20	44	1.66
43936289--43936687	9	47.3	9	66	20	170	31	2	20	44	1.66
43936370--43936466	41	2.4	41	80	0	104	27	3	20	48	1.64
43936537--43936690	26	5.9	26	78	6	159	34	1	20	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43936573--43936727	12	12.1	12	63	17	53	32	1	20	46	1.59
43936543--43936710	79	2.1	79	97	0	318	32	0	21	45	1.57
43936776--43936882	37	3.1	36	76	18	127	40	2	11	45	1.54
43936826--43937098	94	2.8	97	81	7	304	42	5	7	45	1.55
43936921--43937028	57	1.9	57	88	0	162	43	5	5	45	1.50
43936973--43937075	45	2.6	37	74	21	107	39	3	9	46	1.55
43936985--43937076	45	2.0	45	93	0	157	41	3	10	44	1.56
43937058--43937109	20	2.6	20	90	0	77	38	7	3	50	1.50
43940592--43940668	7	11.0	7	73	5	57	44	35	1	19	1.59
43940592--43940668	35	2.2	35	82	13	88	44	35	1	19	1.59
43941230--43941611	114	3.3	112	69	13	258	29	19	22	28	1.98
43941247--43941665	228	1.8	228	82	2	536	27	20	22	29	1.99
43941246--43941734	228	2.1	227	78	5	522	26	21	22	29	1.99
43943747--43943852	38	2.8	38	86	8	139	56	3	9	30	1.49
43946593--43946622	15	2.0	15	93	0	51	43	20	6	30	1.77
43949681--43949709	14	2.1	14	100	0	58	20	6	13	58	1.58
43951515--43951550	18	2.0	18	89	10	56	33	0	2	63	1.08
43958749--43958806	20	3.1	20	71	19	61	51	0	3	44	1.18
43964233--43964273	17	2.6	16	82	14	50	14	9	0	75	1.04
43967084--43967168	9	9.4	9	81	10	102	37	23	12	25	1.91
43967084--43967168	18	4.7	18	92	0	125	37	23	12	25	1.91
43967208--43967236	6	4.8	6	100	0	58	17	0	17	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43967192--43967249	18	3.0	20	82	12	66	22	3	12	62	1.45
43967278--43967333	29	2.0	28	82	10	69	14	1	42	41	1.56
43970376--43970444	19	3.7	20	79	12	67	75	8	0	15	1.04
43970379--43970444	6	10.7	6	76	16	55	75	7	0	16	1.02
43970379--43970444	13	5.3	12	75	15	55	75	7	0	16	1.02
43972982--43973013	15	2.1	15	94	0	55	68	9	6	15	1.36
43975125--43975156	16	1.9	17	93	6	57	37	0	0	62	0.95
43977064--43977131	33	2.0	34	83	8	86	29	7	16	47	1.73
43979622--43979682	3	20.3	3	100	0	122	67	0	0	32	0.91
43981061--43981377	44	7.4	43	72	12	192	26	21	21	29	1.99

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