genome.fa.s21.2.7.7.80.10.50.1000.128.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  128  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)
39332522--39332580	31	1.9	31	85	0	82	45	22	1	30	1.62
39337942--39338133	64	3.0	64	87	0	240	23	19	21	34	1.96
39341366--39341472	26	4.1	26	85	4	144	39	25	16	18	1.92
39341635--39341936	27	11.3	26	83	5	246	17	17	23	41	1.89
39341635--39341936	54	5.7	52	82	6	309	17	17	23	41	1.89
39341634--39341936	81	3.8	80	83	6	330	17	17	23	41	1.90
39344037--39344106	34	2.1	34	97	0	131	40	27	5	27	1.79
39345322--39345381	20	3.0	20	78	4	66	23	33	30	13	1.93
39345322--39345360	21	1.9	20	89	5	60	23	35	25	15	1.94
39347067--39347144	37	2.1	37	83	4	95	41	0	29	29	1.57
39357576--39357615	19	2.2	18	86	4	53	17	52	25	5	1.64
39358623--39358664	3	14.0	3	90	9	68	30	2	0	66	1.04
39363843--39363874	15	2.1	15	94	0	55	21	6	3	68	1.26
39372726--39372888	22	7.0	23	67	21	99	39	15	12	33	1.84
39372713--39372882	24	7.2	24	68	18	99	38	16	12	32	1.86
39372726--39372888	47	3.5	47	89	3	240	39	15	12	33	1.84
39373127--39373172	14	3.1	15	87	9	60	50	19	0	30	1.48
39373819--39373942	43	2.9	43	80	11	128	31	29	20	18	1.96
39380567--39380592	11	2.4	11	100	0	52	38	7	0	53	1.30
39380546--39380652	41	2.6	40	86	7	144	33	1	0	64	1.04
39380567--39380703	49	2.7	50	89	6	215	35	2	0	62	1.13
39380608--39380686	11	7.6	11	79	17	89	40	1	0	58	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39380619--39380691	38	1.9	38	94	0	128	36	1	0	61	1.05
39382598--39382635	18	2.1	19	85	5	51	34	2	0	63	1.09
39383084--39383190	37	2.9	35	76	18	103	63	1	6	28	1.29
39383133--39383190	18	3.2	18	74	13	57	67	1	6	24	1.25
39384093--39384148	27	2.1	27	90	6	87	33	5	0	60	1.19
39386350--39386394	23	1.9	24	86	4	65	24	6	11	57	1.57
39400631--39400779	27	5.5	27	77	1	120	26	22	22	28	1.99
39400669--39400795	54	2.4	54	80	0	137	27	23	21	27	1.99
39401507--39401565	22	2.7	22	80	15	77	40	18	25	15	1.90
39401501--39401635	25	5.6	25	76	13	108	40	19	22	18	1.92
39401509--39401599	47	2.0	44	83	10	112	37	19	24	18	1.94
39406375--39406521	50	2.9	50	86	1	213	21	30	23	25	1.99
39407812--39408056	85	2.9	85	81	1	267	35	18	17	28	1.94
39408227--39408265	13	2.8	13	88	7	51	12	5	10	71	1.28
39409064--39409105	18	2.3	18	95	0	75	38	21	9	30	1.85
39412719--39412790	6	11.5	6	73	8	63	75	5	2	16	1.12
39415702--39415748	24	2.0	24	83	8	60	17	34	0	48	1.47
39422252--39422305	28	2.0	28	92	3	92	37	9	12	40	1.76
39422437--39422498	30	2.1	31	81	6	74	48	16	0	35	1.46
39429770--39429808	16	2.4	16	82	4	51	64	15	0	20	1.30
39440161--39440206	25	1.9	23	91	8	74	63	13	19	4	1.46
39441504--39441913	173	2.4	173	92	2	680	24	23	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39441497--39441913	87	4.8	86	94	0	692	24	23	22	29	1.99
39441717--39441852	43	3.1	43	64	14	116	22	22	25	29	1.99
39443138--39443205	21	3.3	20	79	18	77	11	17	0	70	1.16
39443148--39443205	7	8.4	7	81	14	68	10	17	0	72	1.11
39443608--39443673	34	1.9	34	84	6	89	4	10	6	78	1.06
39444351--39444375	4	6.2	4	100	0	50	52	0	24	24	1.48
39463132--39463199	29	2.5	27	77	15	77	39	1	1	57	1.17
39471557--39471595	18	2.2	18	86	9	53	23	15	12	48	1.79
39475497--39475552	21	2.6	21	88	2	85	32	0	3	64	1.11
39475501--39475572	21	3.1	23	81	18	80	33	1	4	61	1.24
39475946--39475979	17	2.1	16	88	5	50	23	8	8	58	1.56
39475981--39476022	19	2.2	20	82	4	50	30	7	11	50	1.66
39478117--39478159	22	2.0	22	95	0	77	44	11	4	39	1.62
39480205--39480237	9	3.6	9	92	8	57	36	0	21	42	1.53
39480204--39480234	10	3.2	10	90	9	55	41	0	19	38	1.51
39481262--39481305	18	2.4	19	82	17	58	27	22	2	47	1.63
39483999--39484222	41	5.7	38	81	6	160	34	26	17	20	1.96
39484026--39484216	41	4.8	40	83	3	197	35	27	17	20	1.95
39495934--39495976	20	2.2	20	82	0	50	30	11	6	51	1.65
39496675--39496728	26	2.0	26	82	10	65	77	1	7	12	1.05
39496915--39496961	21	2.2	22	88	3	69	65	4	4	25	1.29
39496914--39496955	11	3.8	11	78	9	50	64	4	4	26	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39499168--39499242	27	2.8	27	75	0	78	20	22	32	25	1.98
39502362--39502392	14	2.2	14	94	0	53	48	6	0	45	1.28
39502986--39503026	12	3.4	12	86	0	55	9	36	26	26	1.88
39503646--39503672	14	1.9	14	100	0	54	40	0	22	37	1.54
39507202--39507398	90	2.2	90	86	1	261	33	16	25	24	1.96
39508987--39509016	3	10.0	3	100	0	60	0	66	0	33	0.92
39509501--39509624	62	2.0	61	92	1	203	20	13	14	50	1.77
39513614--39513661	24	2.0	24	91	0	78	39	6	22	31	1.79
39516219--39516251	14	2.3	15	94	5	59	12	12	12	63	1.52
39518430--39518526	43	2.2	42	87	12	142	30	10	13	45	1.77
39522698--39522764	30	2.2	32	78	13	77	17	38	0	43	1.50
39523599--39523627	13	2.2	13	100	0	58	55	0	6	37	1.27
39528061--39528144	31	2.7	31	80	5	98	51	10	14	23	1.73
39528503--39528559	19	2.9	19	78	19	55	42	1	1	54	1.21
39528510--39528559	21	2.5	19	80	9	55	40	2	2	56	1.22
39532118--39534060	971	2.0	971	100	0	3886	32	15	17	34	1.91
39545532--39545615	42	2.0	42	85	0	114	26	25	28	20	1.99
39545561--39545615	21	2.6	21	73	0	65	25	18	34	21	1.96
39545543--39545648	42	2.5	42	81	3	115	26	25	28	19	1.99
39547908--39547958	9	5.7	9	83	0	66	37	27	11	23	1.90
39547903--39547958	27	2.1	27	86	6	78	37	25	10	26	1.88
39547908--39547958	18	2.8	18	87	0	75	37	27	11	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39547971--39548033	26	2.4	25	71	21	58	44	15	7	31	1.76
39560530--39560579	23	2.3	23	80	16	61	66	6	0	28	1.15
39563393--39563452	30	2.0	30	83	3	75	41	0	38	20	1.52
39563666--39563702	9	4.1	9	92	0	65	29	10	13	45	1.77
39564196--39564290	27	3.6	27	89	1	138	28	16	20	34	1.94
39567191--39567241	20	2.5	20	96	0	93	33	11	15	39	1.84
39568197--39568248	21	2.4	21	80	3	59	40	17	28	13	1.87
39568209--39568283	22	3.5	22	81	3	89	45	13	25	16	1.83
39576598--39576776	71	2.5	71	100	0	358	35	6	21	37	1.78
39576855--39576889	18	2.0	17	88	5	52	45	0	0	54	0.99
39576855--39576896	17	2.5	17	85	14	52	45	0	0	54	0.99
39576874--39577112	77	3.2	77	64	18	178	46	3	3	46	1.35
39576843--39577113	143	1.9	147	93	4	478	46	2	3	46	1.34
39576998--39577032	18	2.0	17	88	5	52	45	0	0	54	0.99
39577191--39577288	45	2.2	45	88	1	144	31	28	5	34	1.79
39577267--39577299	16	2.1	16	94	0	57	30	36	0	33	1.58
39577280--39577322	21	2.0	21	90	0	68	34	37	2	25	1.69
39577527--39577643	60	1.9	61	84	1	155	41	9	4	45	1.56
39577654--39577737	41	2.0	41	82	11	100	61	2	0	35	1.09
39577656--39577751	26	3.7	25	74	19	81	62	5	0	32	1.17
39579069--39579133	24	2.7	24	87	0	85	33	15	24	26	1.95
39579200--39579378	34	5.3	34	77	7	168	44	16	10	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39579200--39579378	68	2.6	68	84	2	227	44	16	10	29	1.80
39595009--39595756	374	2.0	374	100	0	1496	38	10	18	32	1.84
39601162--39601199	5	8.2	5	88	11	55	0	21	0	78	0.74
39601163--39601199	9	4.1	9	86	13	58	0	21	0	78	0.75
39601162--39601196	18	1.9	18	100	0	70	0	20	0	80	0.72
39601223--39601275	26	2.0	26	85	7	72	24	7	0	67	1.16
39613057--39613105	23	2.2	22	85	10	64	53	2	2	42	1.24
39614923--39614967	21	2.1	22	91	4	74	55	6	0	37	1.26
39614961--39615001	17	2.3	18	83	4	57	36	0	0	63	0.95
39621131--39621461	171	1.9	171	90	0	518	26	29	20	22	1.99

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