genome.fa.s17.2.7.7.80.10.50.1000.20.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  20  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)
5665750--5665888	73	1.9	73	80	5	165	34	23	23	18	1.96
5666948--5666975	13	2.2	13	100	0	56	21	14	0	64	1.29
5684654--5684694	21	1.9	22	90	5	66	12	21	26	39	1.89
5684740--5684974	43	5.5	43	82	7	248	30	32	15	20	1.94
5686165--5686192	3	9.3	3	100	0	56	35	32	0	32	1.58
5688532--5688589	7	8.4	7	74	14	50	41	39	0	18	1.51
5688528--5688624	41	2.4	41	91	1	160	40	36	1	22	1.61
5688628--5688687	21	2.9	21	79	0	66	36	35	0	28	1.58
5688629--5688655	14	1.9	14	100	0	54	33	37	0	29	1.58
5688953--5689080	7	18.1	7	71	10	64	43	35	2	18	1.63
5688952--5689024	29	2.6	28	82	8	85	43	34	0	21	1.53
5689032--5689099	14	4.8	14	78	3	64	48	32	2	16	1.61
5689032--5689099	21	3.2	21	82	2	73	48	32	2	16	1.61
5688983--5689099	21	5.5	21	75	8	67	44	35	2	17	1.63
5689312--5689388	40	1.9	40	86	0	109	36	19	19	24	1.95
5689303--5689684	41	9.3	41	87	2	498	30	30	19	18	1.96
5689696--5689804	40	2.8	40	84	1	148	22	22	19	35	1.96
5695991--5696142	33	4.5	32	69	23	98	34	27	18	19	1.95
5695944--5696143	102	2.0	102	91	0	328	33	26	19	21	1.97
5697403--5697484	28	2.9	28	75	7	94	31	15	14	37	1.88
5697411--5697584	56	3.1	54	80	8	163	35	19	10	33	1.87
5697467--5697586	28	4.3	28	77	2	125	37	20	9	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5702731--5702759	14	2.1	14	93	6	51	79	6	0	13	0.93
5711844--5711905	31	2.0	32	83	3	81	30	9	14	45	1.77
5720149--5720209	27	2.2	28	82	5	72	40	3	3	52	1.34
5721081--5721118	20	1.9	20	89	10	60	34	2	5	57	1.35
5721124--5721167	16	2.6	17	78	7	54	38	2	0	59	1.10
5721666--5721702	15	2.3	17	86	9	51	37	8	0	54	1.30
5721955--5721998	20	2.1	21	84	12	56	18	6	11	63	1.48
5726125--5726170	24	1.9	24	82	8	58	43	10	17	28	1.82
5729113--5729167	11	4.8	11	82	8	56	29	0	5	65	1.15
5730700--5730827	63	2.0	65	83	4	163	20	21	24	34	1.97
5730803--5730851	26	1.9	25	91	4	80	20	26	20	32	1.97
5753894--5753928	18	2.0	17	88	5	52	45	0	0	54	0.99
5753803--5754185	120	3.2	120	99	0	757	43	2	4	48	1.37
5754014--5754048	18	2.0	17	88	5	52	45	0	0	54	0.99
5754134--5754168	18	2.0	17	88	5	52	45	0	0	54	0.99
5754404--5754471	16	4.2	16	96	0	127	38	35	0	26	1.57
5758338--5758369	16	1.9	17	93	6	57	53	0	0	46	1.00
5758324--5758616	120	2.4	120	91	3	475	43	2	4	50	1.35
5758445--5758479	18	2.0	17	88	5	52	40	0	0	60	0.97
5758384--5758571	61	3.1	61	68	15	183	40	2	6	49	1.44
5758565--5758599	18	2.0	17	88	5	52	45	0	0	54	0.99
5758553--5758827	147	1.9	149	96	1	509	47	2	3	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5758712--5758746	18	2.0	17	88	5	52	45	0	0	54	0.99
5758908--5759002	45	2.1	45	88	1	138	32	27	5	34	1.79
5758983--5759050	16	4.2	16	94	0	109	35	35	0	29	1.58
5763462--5763505	22	2.0	22	100	0	88	54	13	9	22	1.67
5767719--5767859	44	3.2	43	83	3	165	31	6	23	38	1.80
5771781--5771815	16	2.2	16	94	0	61	42	0	2	54	1.15
5784991--5786037	421	2.5	419	89	3	1579	32	17	14	35	1.90
5788417--5788464	3	16.0	3	91	0	78	62	0	37	0	0.95
5801039--5801105	9	7.4	9	84	0	80	40	23	8	26	1.84
5801039--5801105	27	2.5	27	90	0	107	40	23	8	26	1.84
5801255--5801294	18	2.2	18	90	0	62	12	5	42	40	1.64
5801255--5801302	18	2.6	18	86	3	51	12	4	43	39	1.62
5803219--5803271	24	2.2	24	82	0	61	60	0	15	24	1.35
5806102--5806145	22	2.0	22	86	0	61	43	18	4	34	1.70
5828621--5828650	3	10.0	3	100	0	60	66	0	0	33	0.92
5832362--5832504	24	6.0	24	93	0	205	20	29	31	18	1.96
5839398--5839456	29	2.0	29	100	0	118	38	3	20	37	1.69
5840329--5840356	14	2.0	14	100	0	56	50	14	14	21	1.78
5841419--5841475	17	3.1	18	73	21	55	45	0	0	54	0.99
5841426--5841469	21	2.2	20	83	4	52	43	0	0	56	0.99
5841419--5841479	20	3.2	20	78	13	67	45	0	0	54	1.00
5841483--5841524	13	2.9	14	80	13	50	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5841487--5841523	16	2.3	16	86	13	58	59	0	0	40	0.97
5843970--5844304	44	7.3	44	71	10	145	29	19	17	33	1.95
5852615--5852654	3	13.3	3	100	0	80	35	0	0	65	0.93
5852725--5852790	31	2.1	31	83	5	80	39	16	12	31	1.85
5853072--5853098	14	1.9	14	100	0	54	44	0	22	33	1.53
5853278--5853329	17	3.0	17	82	2	50	48	0	3	48	1.20
5853531--5853561	16	1.9	16	93	0	53	48	3	0	48	1.17
5856642--5856766	11	11.5	11	72	15	100	60	0	2	37	1.10
5856631--5856783	42	3.7	42	86	5	222	60	0	1	37	1.08
5856667--5856737	32	2.2	32	90	7	117	60	0	1	38	1.06
5856753--5856795	16	2.6	16	81	3	50	62	0	0	37	0.95
5862384--5862427	16	2.6	17	86	13	65	59	2	4	34	1.30
5863205--5863231	14	1.9	14	100	0	54	74	0	3	22	0.98
5864326--5864436	45	2.4	45	82	13	136	62	0	2	34	1.16
5864352--5864408	18	3.1	18	82	2	60	63	1	1	33	1.15
5864370--5864435	27	2.4	27	82	5	80	65	1	1	31	1.11
5864326--5864447	46	2.6	45	83	10	149	62	0	3	33	1.17
5868319--5868371	27	2.0	25	85	7	70	32	15	15	37	1.88
5873239--5873270	15	2.3	15	89	10	50	40	18	0	40	1.51
5873762--5873802	6	6.7	6	83	5	55	46	17	19	17	1.85
5873783--5873966	45	4.1	45	84	3	212	40	20	17	20	1.91
5873835--5873933	44	2.4	39	75	15	108	40	21	19	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5888665--5888707	21	2.0	21	95	0	77	27	0	37	34	1.57
5888688--5888720	16	2.1	16	94	0	57	33	0	36	30	1.58
5888699--5888793	45	2.1	44	88	1	136	34	5	27	32	1.79
5888955--5888989	18	2.0	17	88	5	52	54	0	0	45	0.99
5888913--5888985	27	2.7	27	76	8	76	52	2	0	45	1.15
5888874--5889144	144	1.9	147	92	3	458	46	2	3	47	1.35
5889099--5889133	18	2.0	17	88	5	52	54	0	0	45	0.99
5891454--5891508	23	2.4	23	100	0	110	21	18	32	27	1.96
5892958--5893000	22	2.0	22	81	9	52	39	27	6	25	1.81
5893993--5894020	12	2.3	12	100	0	56	50	10	7	32	1.64
5894849--5894928	31	2.6	31	95	0	142	45	21	15	18	1.86
5895830--5896258	83	5.2	83	91	0	687	28	16	13	41	1.87
5896715--5896762	20	2.3	21	85	3	62	45	37	0	16	1.48
5896883--5896924	14	3.0	14	76	13	50	42	40	0	16	1.48
5896884--5896924	21	2.0	21	90	0	64	43	41	0	14	1.45
5897056--5897251	41	4.8	41	74	12	152	34	27	17	20	1.96
5897053--5897273	83	2.7	83	80	6	211	33	28	17	20	1.96
5897149--5897298	41	3.6	41	81	9	171	31	32	15	21	1.94
5897096--5897292	82	2.4	83	79	7	204	34	28	16	20	1.94
5897350--5897425	40	1.9	39	94	2	134	22	22	21	34	1.97
5899848--5899895	25	1.9	25	83	8	62	35	2	16	45	1.59
5900552--5900673	60	2.0	60	100	0	244	27	19	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5913778--5914045	104	2.6	105	92	1	441	30	30	20	18	1.97
5914380--5914437	30	1.9	30	82	0	71	29	24	8	37	1.85
5916557--5916617	20	3.0	20	77	13	70	42	3	3	50	1.34
5916557--5916626	21	3.3	20	80	11	70	42	4	2	50	1.37
5916546--5916664	16	7.8	16	71	19	67	42	3	3	50	1.35
5916753--5916801	13	3.7	13	83	2	53	44	2	20	32	1.63
5918006--5918077	31	2.4	31	86	6	103	36	5	19	38	1.75
5924205--5924248	11	4.3	11	78	21	51	61	2	0	36	1.09
5924233--5924328	27	3.5	28	92	5	153	39	11	0	48	1.39
5924567--5924605	19	2.0	21	85	10	55	25	0	7	66	1.18

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