genome.fa.s17.2.7.7.80.10.50.1000.24.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  24  of  185  ( 22116 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)
6759891--6760008	57	2.1	57	82	6	141	50	25	0	23	1.49
6759941--6759995	21	2.6	23	75	19	64	50	23	0	25	1.49
6760023--6760060	20	1.9	20	94	0	67	55	23	0	21	1.44
6760139--6760172	7	4.7	7	89	7	50	47	35	0	17	1.48
6760243--6760281	20	2.0	20	89	0	60	56	23	2	17	1.53
6761211--6761273	13	4.8	13	75	16	51	52	30	0	17	1.45
6761122--6761432	159	2.0	159	90	2	500	53	24	1	20	1.53
6761416--6761447	14	2.3	14	94	0	55	46	31	0	21	1.52
6761443--6761508	20	3.3	20	66	8	53	51	16	0	31	1.45
6761540--6761583	20	2.2	20	91	0	70	54	27	2	15	1.53
6761593--6761671	7	11.4	7	76	8	54	46	32	0	20	1.51
6761666--6761708	21	2.2	19	84	16	52	48	18	2	30	1.60
6761756--6761820	7	9.6	7	80	6	62	46	32	3	18	1.65
6761810--6761899	20	4.5	20	75	5	83	50	22	1	26	1.56
6761810--6761899	40	2.3	39	86	5	135	50	22	1	26	1.56
6761986--6762024	14	2.8	14	92	0	60	51	17	0	30	1.46
6762000--6762083	19	4.2	20	80	8	91	57	21	0	21	1.41
6762207--6762298	7	13.4	7	77	7	64	50	30	0	19	1.48
6762207--6762448	14	17.7	14	66	19	66	48	30	0	19	1.55
6762352--6762448	7	14.3	7	76	4	74	48	32	1	17	1.54
6762352--6762443	27	3.4	27	71	4	69	48	32	1	17	1.54
6762337--6762507	67	2.5	67	77	5	155	49	30	1	18	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6762496--6762563	21	3.2	21	77	10	66	54	19	0	26	1.44
6762693--6762717	7	3.6	7	100	0	50	60	0	0	40	0.97
6762686--6762724	14	2.8	14	80	0	51	56	12	0	30	1.37
6762714--6762757	19	2.2	21	88	8	56	54	29	0	15	1.42
6762901--6762942	21	2.0	22	95	4	77	57	19	0	23	1.41
6762957--6763036	20	4.0	20	79	12	83	53	25	0	21	1.46
6762964--6763048	7	12.4	7	72	5	57	52	27	0	20	1.46
6762897--6763042	21	7.1	21	71	18	69	55	21	0	22	1.48
6762964--6763180	14	15.2	14	69	15	70	51	26	0	21	1.51
6763135--6763218	14	5.7	14	73	15	53	54	26	1	17	1.50
6763134--6763229	20	4.8	20	73	8	70	53	27	2	17	1.55
6763334--6763384	20	2.5	20	75	12	59	52	25	0	21	1.47
6763646--6763670	7	3.6	7	100	0	50	60	0	0	40	0.97
6770142--6770171	13	2.3	13	94	0	51	36	6	20	36	1.79
6778008--6778104	49	2.0	49	91	0	158	37	12	14	36	1.84
6781015--6781039	6	4.2	6	100	0	50	84	0	16	0	0.63
6782118--6782265	63	2.3	63	78	8	142	29	5	33	31	1.80
6784042--6784115	28	2.7	28	81	6	89	51	4	17	27	1.63
6786146--6786211	33	2.1	32	83	10	84	63	0	0	36	0.95
6790987--6791021	6	5.8	6	96	0	61	17	28	34	20	1.95
6794166--6794195	13	2.3	13	100	0	60	53	16	0	30	1.44
6794798--6794831	10	3.4	10	84	15	52	70	0	2	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6796266--6796327	7	8.6	7	73	19	56	54	1	1	41	1.19
6796260--6796305	14	3.2	14	87	9	58	54	0	2	43	1.12
6800262--6800314	3	17.7	3	100	0	106	33	0	0	66	0.92
6801896--6801931	17	2.1	17	94	0	63	22	5	25	47	1.73
6810680--6810990	43	7.1	42	70	13	171	20	13	19	47	1.82
6810720--6810871	44	3.5	43	73	7	130	22	13	19	44	1.86
6810680--6810886	86	2.4	85	85	1	261	21	13	18	45	1.84
6812390--6812765	200	1.9	200	93	2	657	23	19	16	39	1.91
6814218--6814723	251	2.0	251	88	4	745	28	5	13	51	1.64
6817401--6817499	51	1.9	51	89	4	155	28	27	20	24	1.99
6817820--6817889	21	3.3	20	80	7	77	8	38	17	35	1.80
6822791--6823164	9	44.7	9	64	23	124	32	2	20	44	1.63
6822804--6823132	25	13.0	25	68	18	155	33	2	19	44	1.63
6822792--6822923	50	2.6	50	85	3	174	34	3	20	42	1.68
6822910--6822952	22	1.9	23	90	4	70	46	0	13	39	1.44
6823003--6823045	16	2.7	16	88	0	59	30	0	23	46	1.52
6822994--6823106	41	2.8	41	81	7	126	30	2	22	45	1.66
6823082--6823152	20	3.3	22	82	11	85	35	0	19	45	1.51
6823033--6823301	96	2.9	94	83	8	266	33	1	17	47	1.55
6823157--6823228	36	2.0	36	89	5	110	37	0	12	50	1.41
6822904--6823287	198	1.9	195	80	11	429	34	1	17	47	1.55
6827288--6827400	43	2.6	42	84	4	145	27	25	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6827321--6827418	43	2.3	43	83	0	115	32	26	16	24	1.96
6827706--6827765	21	2.9	21	80	9	77	1	43	21	33	1.63
6833316--6833366	25	2.0	26	84	7	68	31	0	21	47	1.51
6833398--6833659	9	29.1	9	68	18	102	32	1	20	45	1.59
6833396--6833709	27	11.3	27	64	20	96	33	0	19	45	1.57
6833356--6833505	76	2.1	73	85	8	200	31	0	20	48	1.55
6833451--6833687	56	4.4	53	74	19	204	35	1	19	43	1.60
6833473--6833699	102	2.1	107	88	5	329	34	1	20	43	1.60
6836621--6836646	5	5.2	5	100	0	52	19	0	0	80	0.71
6839444--6839770	43	7.7	43	88	1	417	30	32	16	20	1.95
6839444--6839770	85	3.8	85	86	2	408	30	32	16	20	1.95
6843851--6843889	12	3.5	11	86	10	53	28	0	0	71	0.86
6843849--6843884	12	3.2	12	88	11	58	25	0	0	75	0.81
6844255--6844326	33	2.2	33	89	0	108	34	41	4	19	1.71
6844623--6844649	13	2.1	13	100	0	54	51	7	0	40	1.30
6845147--6845343	41	4.8	42	92	2	303	30	26	21	20	1.98
6845383--6845516	40	3.4	40	80	8	150	20	21	21	35	1.96
6845523--6845548	12	2.2	12	100	0	52	46	30	15	7	1.74
6862081--6862116	6	6.0	6	96	0	63	66	2	0	30	1.06
6862652--6862690	20	2.0	20	90	10	62	71	5	0	23	1.05
6862774--6862848	20	3.5	21	74	7	62	61	6	0	32	1.22
6862794--6862852	20	3.0	19	80	7	64	66	3	0	30	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6863176--6863237	28	2.2	29	82	8	74	37	4	1	56	1.30
6863202--6863228	10	2.7	10	100	0	54	44	0	0	55	0.99
6872267--6872291	12	2.1	12	100	0	50	48	0	0	52	1.00
6872362--6872416	12	4.3	13	75	17	53	50	3	3	41	1.37
6873142--6873175	16	2.2	16	89	5	52	50	2	0	47	1.16
6873911--6873948	11	3.5	11	80	20	53	5	5	10	78	1.06
6873905--6873948	21	2.1	21	100	0	88	4	4	13	77	1.08
6876929--6877020	23	3.9	23	80	15	98	30	22	26	20	1.98
6880180--6880229	18	2.8	18	90	0	82	12	34	6	48	1.65
6883971--6884032	29	2.2	29	82	2	72	20	1	12	64	1.36
6889178--6889209	16	1.9	17	93	6	57	37	0	15	46	1.46
6892499--6892754	126	2.0	126	91	1	415	37	12	8	41	1.74
6895464--6895497	12	2.7	13	90	4	52	73	14	11	0	1.10
6897486--6897546	31	2.0	31	83	3	79	39	11	9	39	1.75
6899544--6899610	23	3.0	22	70	14	64	50	4	4	40	1.43
6899722--6899791	3	23.3	3	100	0	140	67	0	0	32	0.91
6902414--6902458	11	4.3	11	78	16	51	42	0	0	57	0.98
6902423--6902467	20	2.2	20	92	0	72	33	0	0	66	0.92
6907119--6907253	12	10.8	12	71	13	67	26	14	8	51	1.70
6907131--6907249	25	4.8	24	74	13	89	26	14	8	51	1.70
6907167--6907249	24	3.4	23	77	11	76	27	14	9	48	1.75
6914003--6914041	19	2.2	19	90	9	64	17	2	0	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6913986--6914042	6	9.2	6	83	14	62	22	1	0	75	0.90
6913991--6914042	13	4.1	13	76	14	54	21	1	0	76	0.87
6915386--6915510	12	9.8	12	68	14	63	27	14	7	51	1.68
6915386--6915506	25	4.8	24	73	16	77	26	14	7	52	1.67
6915872--6915987	45	2.8	41	74	14	112	30	5	30	34	1.79
6916133--6916167	18	2.0	17	88	5	52	54	0	0	45	0.99
6916020--6916304	157	1.8	157	94	0	507	43	2	5	48	1.40
6916270--6916304	15	2.2	16	90	5	54	51	0	0	48	1.00
6916683--6916744	31	2.0	32	87	3	90	45	17	11	25	1.82
6932022--6932084	3	21.7	3	78	18	71	30	3	0	66	1.07

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