genome.fa.s21.2.7.7.80.10.50.1000.16.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: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  55873576

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   

This is table  16  of  182  ( 21791 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)
5465978--5466010	17	2.1	16	88	11	50	24	12	27	36	1.91
5475168--5475206	20	1.9	21	89	5	62	23	28	12	35	1.91
5480864--5481001	39	3.9	32	81	12	107	45	21	3	29	1.68
5480887--5481012	39	3.3	39	86	5	186	48	21	3	26	1.65
5480895--5481008	37	3.0	37	88	5	183	46	21	3	28	1.68
5481618--5481653	18	2.0	18	94	0	63	41	27	11	19	1.85
5504493--5504536	17	2.6	17	100	0	88	18	25	9	47	1.77
5514873--5514898	13	2.0	13	100	0	52	46	0	0	53	1.00
5515015--5515048	16	2.2	15	89	5	50	47	8	0	44	1.34
5519613--5519668	28	2.0	28	100	0	112	35	21	7	35	1.81
5519289--5519961	352	1.9	352	99	0	1328	32	20	7	39	1.81
5523269--5523537	46	5.8	46	75	14	275	21	19	29	30	1.97
5523266--5523530	93	2.8	93	97	0	485	21	19	29	29	1.98
5529405--5529473	32	2.2	31	92	5	120	27	14	8	47	1.73
5538881--5539236	49	7.5	49	76	10	253	27	20	27	24	1.99
5538881--5539231	92	3.7	94	79	10	337	27	20	27	24	1.99
5547912--5548067	40	3.6	43	80	11	185	32	28	16	23	1.95
5548762--5549038	143	1.9	143	97	0	527	29	23	12	34	1.91
5550285--5550317	2	16.5	2	93	0	57	0	0	48	51	1.00
5558350--5558520	87	2.0	86	92	1	288	28	7	22	42	1.80
5564763--5564935	48	3.6	48	82	6	199	27	19	25	27	1.99
5567274--5567320	23	2.0	23	100	0	94	29	4	21	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5568797--5568837	21	2.0	20	95	0	64	31	19	26	19	1.95
5571106--5571213	54	2.0	54	98	0	207	32	7	36	24	1.83
5572138--5572184	22	2.1	22	84	7	60	12	27	27	31	1.93
5575109--5575149	11	3.9	10	87	9	55	82	2	14	0	0.76
5575109--5575174	18	3.4	18	79	12	69	78	1	15	4	0.98
5575109--5575187	18	4.3	19	78	9	65	78	2	15	3	1.00
5575894--5575975	43	1.9	42	90	2	128	51	1	23	24	1.56
5581157--5581201	20	2.2	20	92	0	72	35	11	2	51	1.50
5591154--5591225	36	2.0	36	91	0	117	40	18	19	22	1.92
5593005--5593064	24	2.5	24	94	0	102	28	21	28	21	1.99
5595484--5595547	32	2.0	32	100	0	128	37	12	6	43	1.68
5612000--5612113	48	2.4	48	82	8	144	35	14	22	28	1.93
5613983--5614043	18	3.4	18	100	0	122	31	18	11	39	1.86
5615168--5615255	29	3.1	29	88	1	133	27	26	15	30	1.96
5615467--5615509	16	2.7	16	79	13	52	9	23	20	46	1.79
5617490--5617534	22	2.0	22	91	0	72	37	6	20	35	1.79
5628568--5628607	19	2.1	19	90	0	62	30	7	22	40	1.81
5634430--5634483	27	2.0	27	92	0	90	37	11	14	37	1.82
5648138--5648214	13	5.9	13	85	0	91	31	7	25	35	1.85
5648140--5648214	39	1.9	39	88	0	114	32	8	25	34	1.85
5665976--5666074	45	2.2	45	87	0	135	22	19	18	40	1.91
5666228--5666294	18	3.7	18	81	0	89	35	10	14	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5675849--5676132	96	3.0	96	84	2	356	27	19	28	25	1.98
5675862--5676134	48	5.7	48	75	9	225	27	19	28	24	1.99
5676620--5676717	24	4.0	24	93	1	160	35	5	38	20	1.75
5678336--5678417	32	2.4	34	78	8	96	25	18	24	31	1.97
5684567--5684755	101	1.9	101	96	0	351	38	17	17	25	1.92
5684838--5685659	40	20.6	40	94	0	1423	29	26	22	21	1.99
5684838--5685659	80	10.3	80	98	0	1576	29	26	22	21	1.99
5686656--5686858	101	2.0	101	97	0	379	32	22	11	33	1.90
5693989--5694890	40	22.6	40	92	0	1493	28	23	22	24	1.99
5693989--5694890	80	11.3	80	98	0	1718	28	23	22	24	1.99
5698535--5698686	40	3.8	40	89	1	216	21	28	25	24	1.99
5703074--5703142	34	2.0	34	91	0	111	28	26	20	24	1.99
5713801--5713837	17	2.1	19	85	10	51	18	43	27	10	1.83
5716203--5716316	43	2.7	42	78	6	122	30	26	18	24	1.98
5718930--5719058	48	2.7	47	84	3	168	30	20	28	20	1.98
5719340--5719384	17	2.6	17	96	3	81	31	0	15	53	1.43
5721949--5722369	48	8.8	48	89	0	635	31	27	6	35	1.82
5721949--5722369	96	4.4	96	99	0	815	31	27	6	35	1.82
5725181--5725402	46	4.8	46	78	6	225	30	26	19	23	1.98
5725190--5725358	93	1.8	93	90	2	277	30	26	19	23	1.98
5727557--5727690	40	3.4	40	87	1	189	26	23	26	23	2.00
5733925--5734862	28	33.5	28	99	0	1842	25	14	28	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5735714--5736288	287	2.0	287	98	0	1123	32	18	21	28	1.96
5743472--5743497	7	3.7	7	100	0	52	42	0	26	30	1.56
5746244--5746268	11	2.3	11	100	0	50	32	24	12	32	1.91
5749344--5749381	12	3.1	12	85	14	51	7	39	0	52	1.31
5759351--5759382	11	2.8	11	95	4	55	18	9	0	71	1.12
5761650--5761677	5	5.6	5	100	0	56	17	0	21	60	1.36
5762217--5762267	21	2.4	20	78	12	57	37	3	1	56	1.29
5770283--5770692	138	3.0	135	83	5	489	34	24	18	22	1.96
5776912--5777297	137	2.8	139	80	3	456	32	26	19	21	1.97
5780797--5780863	30	2.2	31	84	7	93	20	28	14	35	1.93
5780809--5781045	30	7.9	30	73	7	153	20	23	15	40	1.90
5780836--5780953	60	2.0	60	89	0	182	19	24	14	41	1.89
5780969--5781045	31	2.5	31	89	2	111	22	23	12	41	1.88
5782401--5782446	20	2.3	20	100	0	92	45	4	19	30	1.70
5784828--5784872	20	2.1	22	88	8	67	20	4	6	68	1.29
5784826--5784877	20	2.3	23	81	15	65	21	3	5	69	1.26
5793323--5793374	15	3.5	15	86	2	70	48	32	1	17	1.58
5793323--5793378	22	2.5	22	77	5	60	46	32	1	19	1.61
5794880--5794924	16	2.9	15	83	9	56	51	0	6	42	1.28
5800834--5801123	161	1.8	161	98	0	562	30	17	14	37	1.89
5802430--5802495	32	2.1	32	100	0	132	37	24	9	28	1.86
5807591--5807706	25	4.6	25	70	16	96	29	24	23	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5807591--5807706	50	2.3	50	80	5	144	29	24	23	23	1.99
5811156--5811281	29	4.3	29	87	4	166	26	14	22	37	1.92
5811144--5811324	58	3.2	58	83	6	185	24	14	24	36	1.93
5811243--5811324	28	2.9	28	80	7	94	25	15	23	35	1.94
5811318--5811381	28	2.3	28	72	5	67	28	15	28	28	1.96
5813993--5814028	12	2.9	12	88	8	54	16	5	0	77	0.94
5824659--5824694	18	1.9	18	88	5	54	47	5	25	22	1.73
5838823--5838888	26	2.5	26	92	0	105	24	24	30	21	1.99
5844348--5844535	68	2.8	66	74	8	175	28	19	15	36	1.93
5846052--5846101	26	1.9	26	83	0	64	32	18	10	40	1.83
5858896--5858929	18	1.9	18	88	5	52	38	8	5	47	1.59
5861776--5861823	15	3.1	15	77	13	53	29	0	2	68	1.01
5864829--5864863	18	2.0	17	88	5	52	45	0	0	54	0.99
5865011--5865115	44	2.5	40	76	15	113	31	29	4	34	1.78
5865009--5865118	45	2.6	44	81	8	131	31	29	5	33	1.80
5865097--5865161	16	4.1	16	95	0	103	30	36	0	32	1.58
5865333--5865372	20	2.1	20	86	9	57	37	0	2	60	1.11
5867362--5867453	39	2.4	38	87	3	130	29	3	21	45	1.68
5867360--5867436	23	3.7	21	70	29	58	28	2	20	48	1.63
5872179--5872232	26	2.1	26	92	0	90	33	11	14	40	1.82
5872182--5872240	26	2.3	26	87	0	82	37	10	13	38	1.79
5877214--5877277	30	2.1	31	88	5	96	32	0	1	65	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5881282--5881320	19	2.1	19	90	0	60	38	0	20	41	1.53
5890067--5890250	40	4.6	40	81	6	187	24	20	27	28	1.99
5890067--5890247	80	2.3	81	83	9	221	24	20	27	27	1.99
5890068--5890287	40	5.6	38	76	10	156	25	20	27	27	1.99
5894827--5894854	12	2.3	12	100	0	56	28	42	21	7	1.79
5897516--5897553	20	1.9	20	94	0	67	68	0	7	23	1.16
5898310--5898517	29	7.1	29	76	5	170	37	13	25	23	1.92
5898310--5898503	87	2.2	88	89	0	291	37	12	26	23	1.90
5930383--5930419	19	1.9	19	88	0	56	35	0	0	64	0.94
5936011--5936058	23	2.1	23	85	11	64	56	16	2	25	1.51

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