genome.fa.s5.2.7.7.80.10.50.1000.24.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  24  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)
6810612--6810704	27	3.4	27	85	2	116	22	22	32	22	1.98
6810763--6810816	22	2.4	23	84	12	76	64	1	31	1	1.14
6810763--6810823	24	2.7	22	77	7	61	63	1	31	3	1.20
6811970--6812011	16	2.7	15	85	7	57	57	2	2	38	1.25
6812048--6812129	38	2.2	38	95	0	146	40	1	3	54	1.26
6812368--6812550	8	22.6	8	64	20	69	54	12	0	32	1.42
6812370--6812774	49	8.4	49	81	11	482	54	13	0	31	1.45
6812370--6812774	96	4.2	97	83	10	469	54	13	0	31	1.45
6812368--6812661	27	12.2	26	76	22	222	54	13	0	31	1.44
6812610--6812791	101	1.8	101	91	4	305	53	13	0	32	1.45
6812841--6812866	12	2.2	12	100	0	52	46	15	0	38	1.46
6812942--6812982	3	14.3	3	85	10	59	0	36	0	63	0.95
6812938--6812982	14	3.3	14	90	9	67	0	35	0	64	0.94
6812938--6812994	14	3.9	14	75	22	55	0	36	0	63	0.95
6812944--6812986	20	2.2	20	91	0	68	0	39	0	60	0.97
6820791--6820836	16	2.8	17	83	12	60	56	0	0	43	0.99
6823122--6823156	18	1.9	18	88	11	54	37	0	2	60	1.12
6823145--6823179	11	3.2	11	87	0	52	31	0	0	68	0.90
6823206--6823230	5	5.0	5	100	0	50	0	20	60	20	1.37
6823245--6823306	27	2.3	27	97	0	115	29	22	33	14	1.94
6823467--6823515	21	2.3	21	76	13	64	69	2	2	26	1.10
6823775--6823812	19	2.0	19	89	0	58	50	7	5	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6823911--6823992	27	3.0	27	87	3	119	51	12	1	35	1.47
6824255--6824292	19	2.0	19	89	0	58	36	5	7	50	1.54
6824506--6824582	27	2.9	28	90	3	115	19	38	24	16	1.92
6841622--6841660	3	13.0	3	100	0	78	66	0	33	0	0.92
6842653--6842747	48	2.0	48	93	0	163	41	22	17	18	1.91
6842952--6843020	36	1.9	36	93	0	120	47	14	10	27	1.76
6842951--6843014	17	3.6	17	72	15	58	48	12	10	28	1.75
6844760--6844804	2	22.5	2	100	0	90	0	51	0	48	1.00
6850600--6850671	23	3.3	23	66	15	71	45	2	4	47	1.36
6851114--6851243	66	1.9	69	87	4	194	30	8	10	50	1.65
6854129--6854210	26	3.0	27	75	12	87	43	1	2	52	1.22
6854264--6854298	18	2.0	17	88	5	52	45	0	0	54	0.99
6854572--6854606	18	2.0	17	88	5	52	45	0	0	54	0.99
6854771--6854861	45	2.0	45	85	2	121	37	28	6	27	1.82
6854842--6854877	16	2.2	16	100	0	72	38	36	0	25	1.56
6855623--6855694	26	2.8	26	83	6	94	37	8	20	33	1.83
6862820--6862862	5	8.8	5	97	2	79	41	0	0	58	0.98
6862905--6862951	12	3.8	12	86	11	60	68	0	29	2	1.02
6862885--6862953	19	3.6	19	74	16	54	66	2	27	2	1.20
6863164--6863210	24	2.0	24	84	16	62	31	0	17	51	1.46
6863369--6863508	40	3.5	40	72	10	110	26	19	24	30	1.98
6864238--6864267	13	2.3	13	94	0	51	30	0	20	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6871762--6871810	20	2.4	20	86	3	62	24	2	4	69	1.17
6878211--6878239	13	2.1	14	93	6	51	37	0	0	62	0.96
6884952--6885586	89	7.2	89	91	1	945	26	22	17	33	1.96
6884952--6885586	177	3.6	177	89	0	941	26	22	17	33	1.96
6893589--6893628	20	2.0	20	85	0	53	32	15	20	32	1.93
6893880--6893917	20	2.0	20	85	10	53	15	34	10	39	1.82
6897473--6897516	2	22.5	2	95	4	81	50	0	0	50	1.00
6905190--6905233	2	22.0	2	100	0	88	50	0	0	50	1.00
6907111--6907232	42	2.9	42	86	2	172	23	18	27	31	1.97
6910904--6911007	32	3.5	28	89	6	102	25	2	18	52	1.59
6910917--6911009	32	2.9	32	95	0	168	27	3	17	51	1.60
6912357--6912394	19	2.0	19	94	0	67	52	13	5	28	1.61
6913692--6913719	3	9.3	3	100	0	56	67	0	32	0	0.91
6913820--6913858	20	2.0	20	100	0	78	43	0	0	56	0.99
6913820--6913868	19	2.6	19	87	6	64	42	0	0	57	0.99
6913859--6913895	19	2.0	19	89	5	58	35	0	8	56	1.29
6913859--6913912	18	2.9	19	83	10	67	38	1	7	51	1.41
6914194--6914262	37	1.9	34	82	8	84	40	0	1	57	1.07
6914231--6914291	26	2.3	27	78	18	67	37	0	1	60	1.07
6921802--6921835	13	2.4	14	90	9	52	61	0	8	29	1.26
6922216--6922330	42	2.7	42	82	2	133	27	17	26	28	1.97
6923228--6923283	18	3.0	18	75	19	53	75	0	16	8	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6923883--6924003	41	2.9	41	71	9	102	57	0	0	42	1.04
6923921--6923971	19	2.7	19	79	11	59	66	0	0	33	0.92
6929581--6929618	18	2.1	19	85	5	51	44	0	0	55	0.99
6929931--6930059	61	2.1	61	97	0	240	34	13	9	41	1.77
6935915--6935958	21	2.2	20	83	4	52	68	0	2	29	1.02
6935931--6935978	18	2.6	19	86	6	71	64	0	2	33	1.05
6940414--6940447	17	2.0	17	94	0	59	38	17	5	38	1.74
6948129--6948169	2	21.5	2	90	9	68	46	0	0	53	1.00
6949294--6949318	3	8.3	3	100	0	50	32	0	0	68	0.90
6958458--6958491	16	2.1	16	100	0	68	17	0	11	70	1.16
6958612--6958656	18	2.5	18	96	0	81	55	6	6	31	1.52
6958720--6958761	16	2.6	16	92	0	66	42	7	2	47	1.43
6958735--6958785	23	2.3	23	82	3	59	43	3	1	50	1.31
6959619--6959761	58	2.5	58	87	0	205	27	19	13	39	1.90
6962040--6962085	17	2.6	17	82	3	56	30	4	0	65	1.12
6962960--6962988	10	2.9	10	100	0	58	48	0	0	51	1.00
6963622--6963678	22	2.6	22	76	20	57	42	1	0	56	1.10
6963926--6964098	85	2.0	85	97	0	328	33	8	7	50	1.60
6965812--6965862	23	2.2	23	86	6	68	45	1	3	49	1.32
6966729--6966789	22	2.6	22	82	7	68	36	18	24	21	1.95
6966730--6966834	25	4.3	25	81	3	126	36	18	22	22	1.95
6967349--6967380	13	2.5	13	94	0	55	56	0	3	40	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6967851--6967916	6	9.7	7	70	17	50	31	0	0	68	0.90
6967866--6967912	14	3.3	14	85	11	60	29	0	0	70	0.88
6970463--6970517	25	2.2	25	86	3	74	67	5	0	27	1.12
6970474--6970549	37	2.0	39	90	7	122	64	0	0	35	0.94
6970500--6970527	11	2.5	11	100	0	56	60	0	0	39	0.97
6977798--6977847	24	2.2	24	82	13	61	30	32	4	34	1.76
6978919--6978957	21	1.9	20	89	5	60	10	2	2	84	0.81
6978922--6978973	27	1.9	27	85	14	72	9	3	3	82	0.91
6978922--6978975	13	4.1	13	83	7	56	9	5	3	81	0.97
6982613--6982674	25	2.5	25	80	14	67	29	1	0	69	0.98
6982621--6982672	14	3.8	14	76	20	56	28	1	0	69	0.99
6987845--6987999	42	3.7	42	94	0	256	14	25	19	40	1.90
6987822--6987991	21	8.1	21	70	0	108	17	24	17	40	1.91
6989479--6989523	4	11.0	4	97	2	81	48	0	0	51	1.00
6989706--6989737	17	2.0	17	88	11	50	62	15	21	0	1.32
6990841--6990889	12	3.9	12	78	7	53	18	18	12	51	1.76
6990755--6990861	46	2.4	45	87	4	153	21	18	17	42	1.90
6990841--6990889	18	2.6	19	80	6	64	18	18	12	51	1.76
6990841--6990884	6	7.2	6	84	5	61	18	18	13	50	1.79
6995602--6995631	11	2.8	11	95	5	53	50	23	20	6	1.71
6996833--6996961	67	1.9	67	95	0	231	27	31	19	21	1.97
6997091--6997199	57	1.9	57	86	3	157	23	27	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7000177--7000207	14	2.2	14	94	0	53	38	0	12	48	1.42
7026120--7026167	3	16.3	3	95	4	89	0	0	31	68	0.90
7033320--7033387	21	3.2	20	73	8	64	11	17	19	51	1.75
7033315--7033498	42	4.4	42	81	1	181	15	20	19	45	1.85
7033418--7033486	21	3.3	21	70	8	59	13	23	21	42	1.88
7034319--7034369	17	3.0	17	82	5	68	17	7	43	31	1.78
7066232--7066271	21	2.0	20	85	5	53	60	5	2	32	1.32
7068815--7068848	12	2.8	12	86	0	50	41	0	5	52	1.25
7069732--7069765	4	8.5	4	93	0	59	73	0	26	0	0.83
7078725--7078808	22	3.8	22	90	0	114	29	28	14	27	1.95

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