genome.fa.s9.2.7.7.80.10.50.1000.152.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  152  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)
49673679--49673826	4	37.0	4	77	16	96	69	0	30	0	0.89
49673680--49673855	41	4.3	42	83	9	193	69	0	30	0	0.89
49673701--49673835	5	28.2	5	70	19	58	67	0	32	0	0.91
49673670--49673885	40	5.6	40	79	15	206	68	0	31	0	0.90
49673679--49673889	62	3.4	60	74	17	173	69	0	30	0	0.89
49673680--49673781	21	4.7	23	67	16	65	69	0	30	0	0.89
49673670--49673891	83	2.9	81	83	11	254	68	0	31	0	0.90
49679476--49679520	18	2.5	18	88	0	72	15	48	6	28	1.70
49680200--49680319	63	1.9	63	87	3	179	45	11	4	38	1.60
49680369--49680400	3	10.7	3	100	0	64	68	31	0	0	0.90
49680743--49680806	24	2.5	24	87	7	92	45	0	10	43	1.39
49681547--49681601	3	19.0	3	78	14	62	65	0	34	0	0.93
49681547--49681601	23	2.4	23	85	11	69	65	0	34	0	0.93
49681736--49681793	24	2.4	25	83	16	77	18	0	12	68	1.19
49681757--49681805	25	2.0	24	84	4	62	20	0	14	65	1.27
49683541--49683602	26	2.4	26	81	5	72	61	9	6	22	1.50
49691386--49691471	42	2.0	42	90	0	136	31	20	23	24	1.98
49691332--49691540	111	1.9	111	83	2	276	32	23	22	22	1.98
49691428--49691748	138	2.3	138	81	3	360	33	23	21	21	1.98
49691428--49691748	69	4.7	69	79	0	302	33	23	21	21	1.98
49692148--49692310	68	2.4	68	80	3	175	30	26	16	26	1.97
49694155--49694203	25	2.0	25	91	0	80	24	24	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49696338--49696378	22	1.9	22	95	5	75	36	2	0	60	1.10
49699717--49699777	25	2.7	21	72	20	52	60	3	3	32	1.29
49700408--49700453	19	2.3	19	88	7	65	60	2	0	36	1.09
49704265--49704364	25	4.0	25	82	2	94	20	36	18	26	1.95
49706330--49706390	21	2.9	21	69	11	61	22	1	6	68	1.21
49707763--49707795	6	5.5	6	92	0	57	45	0	36	18	1.49
49711869--49711904	13	2.7	14	87	12	58	83	0	16	0	0.65
49713820--49713907	20	4.4	19	80	8	86	13	28	21	36	1.92
49713837--49713941	40	2.6	40	90	4	158	11	29	20	39	1.87
49713853--49713917	20	3.2	20	80	0	85	10	29	21	38	1.87
49716631--49716677	24	2.0	24	83	8	60	29	6	21	42	1.77
49716833--49716885	16	3.2	16	78	5	61	30	11	26	32	1.91
49716827--49717062	50	4.7	50	81	6	237	28	6	22	42	1.78
49716878--49717052	17	10.4	17	77	4	149	29	5	20	45	1.73
49716878--49717052	34	5.2	34	78	8	169	29	5	20	45	1.73
49716826--49717052	33	6.8	34	77	7	171	29	6	22	42	1.77
49716821--49717053	117	2.0	117	82	1	279	28	6	21	43	1.76
49717168--49717222	26	2.1	26	89	0	83	25	16	25	32	1.96
49717303--49717375	36	2.0	36	97	0	137	34	21	19	24	1.96
49728982--49729009	3	9.3	3	100	0	56	0	0	32	67	0.91
49743504--49743545	22	2.0	21	85	4	57	21	7	2	69	1.25
49743502--49743553	22	2.6	18	72	21	50	21	7	1	69	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49743517--49743569	27	2.0	27	82	10	65	18	3	1	75	1.05
49743994--49744039	7	6.4	7	87	9	58	82	2	0	15	0.76
49744003--49744032	8	3.9	8	95	4	53	80	0	0	20	0.72
49750659--49750911	126	2.0	126	100	0	506	45	17	7	30	1.76
49751056--49751103	22	2.2	21	85	7	69	39	2	2	56	1.23
49767475--49767529	22	2.6	21	83	11	60	45	3	5	45	1.44
49782145--49782189	23	2.0	23	86	8	65	20	4	6	68	1.29
49782428--49782468	19	2.2	19	90	0	64	29	0	14	56	1.39
49782435--49782473	18	2.1	19	85	4	53	30	0	23	46	1.53
49787025--49787051	13	2.1	13	100	0	54	66	25	0	7	1.17
49795983--49796008	9	2.9	9	100	0	52	42	0	0	57	0.98
49797916--49797951	16	2.1	16	90	10	54	55	0	0	44	0.99
49803716--49803843	62	2.1	62	100	0	256	28	11	9	50	1.70
49805223--49805272	20	2.4	21	80	16	59	14	20	26	40	1.90
49810861--49810949	44	2.0	43	80	6	99	24	23	23	28	2.00
49811040--49811200	44	3.7	44	90	3	252	27	26	15	30	1.96
49811189--49811222	10	3.4	10	100	0	68	11	41	17	29	1.85
49816548--49816586	20	2.0	20	89	0	60	71	2	2	23	1.10
49822157--49822214	19	2.7	22	84	10	68	36	8	17	37	1.80
49822311--49822343	15	2.2	15	100	0	66	36	21	6	36	1.78
49823267--49823425	59	2.7	57	78	11	162	31	18	5	45	1.71
49823267--49823457	29	6.5	28	74	11	150	30	18	6	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49823267--49823425	29	5.5	28	77	10	158	31	18	5	45	1.71
49823267--49823457	88	2.2	89	82	4	226	30	18	6	43	1.76
49823750--49823797	3	16.0	3	87	8	62	72	0	27	0	0.84
49823991--49824101	17	6.4	17	69	19	61	75	1	22	0	0.89
49824026--49824090	9	7.1	9	77	17	55	76	3	20	0	0.91
49824027--49824091	19	3.7	18	78	10	71	76	3	20	0	0.91
49824010--49824094	36	2.4	35	76	7	91	77	2	20	0	0.88
49824009--49824043	13	2.7	13	90	0	61	82	0	17	0	0.66
49824039--49824101	25	2.5	26	78	2	74	76	3	20	0	0.93
49824222--49824286	33	1.9	34	96	3	123	20	6	10	63	1.48
49824572--49824651	36	2.2	36	80	6	90	27	8	8	55	1.60
49824580--49824650	18	4.0	17	78	8	70	28	7	9	54	1.59
49824593--49824734	63	2.3	63	87	2	205	27	11	8	52	1.65
49824655--49824711	19	3.1	18	82	9	62	28	14	10	47	1.76
49824536--49824711	81	2.2	82	80	11	200	26	10	9	53	1.64
49824608--49824818	107	2.0	108	84	6	277	26	12	9	52	1.68
49824719--49824755	17	2.2	17	90	0	56	27	10	8	54	1.63
49824692--49824747	26	2.2	26	81	12	62	28	10	7	53	1.62
49824753--49824898	17	8.0	18	76	12	129	30	12	8	47	1.71
49824753--49824871	35	3.3	35	82	8	116	26	12	9	51	1.70
49824857--49824918	21	3.0	19	84	15	79	40	8	9	41	1.67
49825992--49826040	16	3.1	16	84	0	71	26	18	16	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49831203--49831724	132	4.0	132	84	1	679	30	18	24	27	1.98
49831202--49831724	263	2.0	264	85	1	719	30	18	24	27	1.98
49831889--49831988	44	2.3	44	84	3	121	31	23	18	28	1.97
49832368--49832791	44	9.7	44	71	9	237	31	19	21	27	1.97
49832534--49832853	173	1.8	173	87	0	469	31	18	21	28	1.97
49832553--49832797	129	1.9	129	83	1	321	28	19	22	29	1.98
49832539--49832944	173	2.3	173	81	2	456	32	17	20	29	1.96
49833346--49833390	23	2.0	23	86	4	65	37	6	17	37	1.76
49833333--49833393	19	2.9	21	81	11	72	36	6	18	39	1.76
49834515--49834575	16	4.0	15	75	10	61	49	1	0	49	1.10
49836642--49836666	12	2.1	12	100	0	50	36	0	24	40	1.55
49837812--49837853	19	2.3	19	88	8	61	40	0	0	59	0.97
49838274--49838409	68	2.0	68	95	0	245	36	19	14	30	1.92
49840232--49840820	44	13.2	44	76	5	484	34	18	18	28	1.94
49840232--49840839	89	6.8	88	75	6	483	34	18	18	28	1.95
49842469--49842513	18	2.6	18	82	3	65	20	6	2	71	1.20
49842617--49842643	6	4.5	6	100	0	54	48	0	0	51	1.00
49843719--49843756	3	12.7	3	88	0	58	31	2	2	63	1.22
49843719--49843767	15	3.3	15	82	5	64	30	4	4	61	1.33
49844050--49844085	2	18.0	2	100	0	72	50	0	0	50	1.00
49847251--49847295	8	5.6	8	94	0	81	13	0	0	86	0.57
49847677--49847701	3	8.3	3	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49847791--49847820	2	15.0	2	92	0	51	46	0	3	50	1.18
49851438--49851895	107	4.3	107	91	1	724	34	16	15	32	1.91
49852211--49852258	18	2.6	19	83	6	62	54	0	6	39	1.26
49852484--49852516	3	11.0	3	100	0	66	66	0	0	33	0.92
49854054--49854644	44	13.8	44	70	11	325	25	20	22	30	1.99
49854173--49854649	254	1.9	256	89	1	742	25	19	23	30	1.98
49854667--49855262	50	11.9	50	74	3	385	26	21	20	31	1.98
49854732--49855064	100	3.3	100	93	0	522	25	22	21	30	1.99
49854682--49855366	100	6.9	99	80	3	337	25	21	20	31	1.98
49855967--49856068	45	2.2	45	76	8	107	53	7	11	26	1.64

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