genome.fa.s20.2.7.7.80.10.50.1000.104.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  104  of  199  ( 23844 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)
29424955--29424996	9	4.7	9	82	5	50	66	0	0	33	0.92
29424957--29424996	17	2.3	18	86	4	55	67	0	0	32	0.91
29426095--29426160	7	8.9	7	75	11	51	74	1	1	22	0.99
29426095--29426160	15	4.4	15	72	12	55	74	1	1	22	0.99
29426095--29426160	22	3.0	20	75	16	51	74	1	1	22	0.99
29426449--29426487	19	2.0	20	90	5	62	53	7	0	38	1.30
29426613--29426696	44	1.9	44	90	0	132	22	11	14	51	1.75
29429295--29429337	18	2.4	16	82	17	50	41	13	0	44	1.44
29429295--29429339	19	2.5	17	80	20	56	42	13	0	44	1.43
29431715--29431749	17	2.0	18	88	5	54	14	45	28	11	1.79
29434205--29434527	161	2.0	161	94	1	567	33	19	8	38	1.82
29434527--29434886	41	9.1	40	80	10	269	34	28	19	16	1.94
29434593--29434935	38	8.8	38	87	2	337	33	29	20	16	1.94
29434545--29434917	82	4.7	78	84	5	353	34	28	20	16	1.94
29434593--29434935	114	2.9	115	83	3	382	33	29	20	16	1.94
29437034--29437073	21	1.9	21	89	0	62	32	12	22	32	1.91
29437032--29437243	96	2.2	96	87	0	307	34	14	24	26	1.94
29445440--29445507	27	2.6	27	85	2	84	33	17	17	30	1.94
29447391--29447464	34	2.2	34	92	2	123	36	17	18	27	1.94
29456450--29456479	14	2.1	14	93	0	51	20	20	20	40	1.92
29457911--29457948	20	1.9	20	88	0	58	50	5	7	36	1.54
29459822--29460039	117	1.9	117	92	0	364	15	33	18	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29459812--29460041	39	5.9	39	87	0	307	14	33	18	33	1.92
29468257--29468299	22	2.0	22	100	0	86	46	13	18	20	1.83
29469585--29469812	39	5.9	39	83	1	235	16	31	18	33	1.93
29469712--29469772	19	3.2	19	69	17	63	14	29	18	37	1.90
29469721--29469783	19	3.3	18	70	16	56	12	31	19	36	1.89
29469627--29469837	38	5.5	39	78	9	200	17	29	17	35	1.93
29469627--29469811	77	2.4	77	85	3	194	16	30	17	35	1.92
29476361--29476486	27	4.7	27	74	5	121	47	15	11	24	1.79
29476361--29476482	53	2.3	52	84	7	147	49	13	12	24	1.77
29476411--29476513	54	1.9	54	81	0	125	44	17	13	24	1.85
29476693--29476791	26	3.8	26	82	1	101	16	18	26	39	1.91
29483519--29483630	27	4.2	27	83	2	136	47	20	12	19	1.82
29483519--29483630	53	2.1	54	86	1	154	47	20	12	19	1.82
29483753--29483879	26	5.1	26	75	12	115	18	22	25	34	1.96
29483812--29483856	20	2.2	20	92	0	72	13	17	28	40	1.88
29483983--29484090	30	3.7	27	80	11	108	24	20	22	33	1.97
29483996--29484127	30	4.5	30	80	6	137	23	25	23	28	2.00
29484926--29484962	18	2.0	19	85	15	51	43	5	18	32	1.73
29489511--29489544	16	2.1	16	100	0	68	20	5	26	47	1.73
29491701--29492016	40	7.9	40	79	7	293	19	28	17	34	1.94
29491701--29492016	120	2.6	119	82	4	348	19	28	17	34	1.94
29495419--29495484	23	2.9	23	74	17	64	16	18	19	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29498501--29498550	25	2.0	25	88	0	73	32	18	20	30	1.96
29506426--29506457	13	2.5	13	100	0	64	46	6	0	46	1.27
29512157--29512335	27	6.6	27	81	6	168	40	17	7	34	1.79
29512157--29512335	54	3.3	53	78	4	189	40	17	7	34	1.79
29512338--29512426	27	3.3	27	88	0	142	34	20	21	23	1.96
29512746--29512805	22	2.7	22	78	0	66	21	21	21	35	1.96
29514807--29514853	17	2.7	18	83	9	62	51	8	14	25	1.71
29520712--29520769	20	3.0	20	80	16	68	39	8	12	39	1.73
29523209--29523347	23	6.0	23	80	5	145	33	5	5	56	1.45
29523209--29523347	47	3.0	46	79	3	161	33	5	5	56	1.45
29523607--29523636	12	2.5	12	94	0	51	36	3	0	60	1.14
29530828--29531065	51	4.7	51	82	6	257	29	18	23	27	1.98
29530828--29531065	102	2.3	102	85	2	309	29	18	23	27	1.98
29530969--29531532	193	2.9	191	85	1	752	28	18	22	29	1.98
29531275--29531373	44	2.2	44	78	3	101	28	24	18	29	1.98
29532958--29533049	23	4.0	22	75	15	71	38	4	3	54	1.37
29532966--29533072	46	2.3	47	82	3	119	35	4	4	55	1.42
29532984--29533085	23	4.4	24	82	4	120	34	2	4	57	1.35
29532963--29533085	47	2.7	46	80	6	126	34	4	4	56	1.39
29533374--29533403	12	2.5	12	94	0	51	36	3	0	60	1.14
29533559--29533617	27	2.1	28	84	3	75	35	6	0	57	1.25
29539671--29539719	18	2.7	17	77	22	55	40	12	0	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29549955--29549996	22	2.0	22	86	9	61	40	9	21	28	1.84
29550159--29550229	20	3.5	20	79	11	67	42	8	12	36	1.73
29554067--29554161	49	1.9	49	89	4	147	34	10	22	32	1.88
29555640--29555679	21	1.9	21	84	0	53	47	15	25	12	1.80
29569123--29569148	3	8.7	3	100	0	52	34	0	34	30	1.58
29569905--29569939	3	11.7	3	100	0	70	34	31	34	0	1.58
29569938--29569981	3	14.7	3	100	0	88	34	0	34	31	1.58
29576151--29576190	20	2.0	20	100	0	80	30	40	0	30	1.57
29582497--29582547	24	2.2	24	89	6	79	21	0	5	72	1.05
29585984--29586035	16	3.2	16	86	0	77	38	5	32	23	1.78
29586017--29586109	44	2.1	46	91	4	154	30	4	29	36	1.77
29586017--29586122	39	2.5	44	82	11	132	31	3	30	34	1.75
29586268--29586320	17	3.1	17	91	2	79	60	1	1	35	1.19
29586268--29586358	17	5.1	18	71	23	68	59	3	1	36	1.21
29605865--29605925	19	3.2	20	88	4	90	68	0	0	31	0.89
29609192--29609224	13	2.5	13	95	5	57	81	0	15	3	0.80
29612265--29612301	14	2.6	14	100	0	74	35	0	0	64	0.94
29624793--29624855	20	3.3	19	89	8	92	31	0	0	68	0.90
29626043--29626098	16	3.5	16	82	0	67	41	5	25	28	1.77
29626331--29626365	18	2.0	17	94	5	61	57	0	0	42	0.99
29626441--29626465	10	2.5	10	100	0	50	52	8	0	40	1.31
29631134--29631676	140	4.0	138	83	7	623	26	20	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29631423--29631676	126	2.0	126	88	1	375	27	19	20	32	1.97
29633792--29633828	13	2.9	13	96	4	67	40	8	0	51	1.32
29633939--29634388	35	12.4	35	79	8	370	24	21	15	39	1.92
29633931--29634385	74	6.3	73	79	9	441	25	21	15	38	1.92
29634363--29634410	22	2.2	22	100	0	96	33	29	8	29	1.86
29634325--29634445	58	2.0	60	84	3	156	28	25	11	33	1.91
29639987--29640042	26	2.2	26	96	0	103	28	7	21	42	1.79
29643055--29643136	36	2.2	37	85	8	114	25	24	13	36	1.92
29649430--29650110	339	2.0	339	100	0	1362	31	9	23	35	1.87
29651621--29651849	40	5.7	40	93	0	368	31	20	26	21	1.98
29655296--29655326	3	10.3	3	100	0	62	35	0	0	64	0.94
29660140--29660236	12	7.8	12	70	11	52	74	8	7	10	1.23
29660138--29660190	18	2.9	18	74	2	52	75	9	5	9	1.18
29663400--29663511	44	2.5	44	78	8	120	26	24	19	29	1.98
29663632--29663727	44	2.2	44	88	3	149	31	22	18	27	1.97
29663750--29663833	44	1.9	44	82	4	107	32	21	15	30	1.94
29663902--29664742	88	9.6	88	89	0	1252	20	24	27	27	1.99
29666344--29666385	17	2.6	16	92	7	75	4	21	11	61	1.48
29673019--29673070	19	2.6	19	74	17	52	65	1	7	25	1.30
29674074--29674100	13	2.1	13	100	0	54	66	0	18	14	1.25
29675464--29676385	128	7.2	128	90	0	1400	30	19	23	25	1.98
29675464--29676402	255	3.7	256	90	0	1409	30	19	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29675464--29676385	383	2.4	383	91	1	1472	30	19	23	25	1.98
29676573--29676692	44	2.7	45	75	6	129	30	20	24	25	1.99
29678358--29678382	3	8.3	3	100	0	50	36	0	0	64	0.94
29679764--29679807	23	2.0	22	90	4	70	22	0	4	72	1.02
29694791--29694889	23	4.3	23	89	0	153	23	21	24	31	1.98
29700579--29701391	44	18.7	43	71	14	384	29	19	23	27	1.98
29700451--29701391	217	4.3	217	93	0	1542	29	19	23	28	1.98
29700553--29701391	89	9.7	85	68	15	319	29	19	23	27	1.98
29700449--29701402	44	22.0	44	70	14	367	29	19	23	28	1.98
29708293--29708470	27	6.6	27	83	3	205	26	15	28	29	1.96

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