genome.fa.s6.2.7.7.80.10.50.1000.101.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

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   

This is table  101  of  141  ( 16820 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)
28721522--28721647	25	5.2	25	71	12	75	49	16	1	32	1.56
28721620--28721655	16	2.2	16	95	0	63	52	16	0	30	1.44
28729135--28729174	21	1.9	21	89	0	62	35	20	40	5	1.74
28729146--28729187	21	2.0	21	85	0	57	33	19	40	7	1.78
28729789--28729959	66	2.6	65	87	4	227	40	19	27	12	1.88
28729930--28730042	21	5.4	21	83	0	82	35	17	41	5	1.72
28729950--28730042	42	2.2	42	84	0	114	34	17	43	5	1.72
28730394--28730579	43	4.3	43	80	4	196	21	17	31	30	1.96
28730414--28730593	86	2.1	86	85	2	245	23	17	32	26	1.97
28730593--28730698	43	2.5	43	81	3	133	30	31	16	21	1.96
28731389--28731433	18	2.6	18	83	13	58	66	2	2	28	1.15
28732833--28732899	3	22.3	3	87	0	98	32	2	1	62	1.19
28735308--28735421	27	4.2	27	84	7	133	42	21	10	26	1.85
28735308--28735401	9	10.6	9	93	2	136	42	20	10	26	1.84
28736572--28736630	29	2.0	29	83	0	73	22	8	32	37	1.84
28743822--28743859	13	2.8	14	80	19	53	65	7	5	21	1.38
28743822--28743874	27	2.0	26	85	3	70	67	9	3	18	1.33
28744267--28744321	28	2.0	28	89	7	85	61	3	0	34	1.13
28747221--28747272	24	2.2	24	85	0	68	51	9	3	34	1.53
28751966--28752043	31	2.6	29	77	4	75	50	7	20	21	1.73
28758054--28758358	152	2.0	152	99	0	601	29	19	12	39	1.88
28762890--28763186	50	5.8	50	82	5	321	28	22	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28765895--28765919	3	8.3	3	100	0	50	64	0	0	36	0.94
28765918--28765955	3	12.7	3	100	0	76	34	31	0	34	1.58
28768302--28768505	101	2.0	101	98	0	390	20	16	15	48	1.81
28768715--28769409	288	2.4	287	89	2	1037	22	18	19	39	1.92
28769877--28769919	18	2.4	18	80	3	52	25	18	2	53	1.56
28789330--28789373	24	1.9	22	86	9	61	0	13	27	59	1.35
28791304--28791332	5	5.8	5	100	0	58	79	0	0	20	0.74
28793031--28793058	5	5.6	5	100	0	56	78	0	0	21	0.75
28794120--28794256	50	2.8	50	82	5	163	38	2	6	52	1.40
28794103--28794254	50	3.0	49	78	10	157	36	1	7	54	1.39
28794384--28794726	81	4.2	82	84	1	422	28	11	12	47	1.76
28798003--28798107	51	2.2	50	83	8	128	33	0	8	57	1.36
28802155--28802244	43	2.1	43	95	0	162	26	30	25	17	1.98
28803171--28803332	25	6.6	24	78	7	121	33	22	25	18	1.97
28803204--28803334	49	2.7	48	76	7	129	35	21	25	16	1.94
28803188--28803396	74	2.8	74	78	6	181	34	20	25	19	1.96
28803252--28803429	25	7.2	25	74	12	125	35	17	25	20	1.95
28803315--28803429	50	2.3	50	80	5	142	36	15	26	21	1.93
28803229--28803414	75	2.5	74	77	6	189	36	18	25	19	1.94
28816224--28816260	18	2.1	18	100	0	74	51	16	16	16	1.77
28818029--28818072	13	3.3	13	87	6	54	47	11	20	20	1.80
28818717--28818746	12	2.5	12	100	0	60	33	50	16	0	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28823133--28823195	26	2.4	26	89	0	90	34	14	12	38	1.84
28828555--28829065	22	23.2	22	86	0	655	27	12	18	41	1.86
28828552--28829065	88	5.8	88	92	0	778	28	12	18	41	1.86
28831671--28831825	53	2.9	53	88	1	231	33	12	25	28	1.93
28833855--28833971	61	2.0	60	84	5	157	50	5	2	41	1.40
28835709--28835766	21	2.8	21	100	0	116	39	29	6	24	1.81
28838301--28838809	30	16.9	30	87	1	667	29	9	18	42	1.81
28838290--28838809	121	4.3	121	88	0	720	29	9	18	42	1.81
28838306--28838809	151	3.3	150	85	4	719	29	9	18	42	1.82
28845820--28846278	30	15.2	30	84	2	580	30	8	17	43	1.80
28845809--28846299	91	5.4	91	88	1	705	30	8	17	43	1.79
28853149--28853216	21	3.2	21	70	0	64	42	17	23	16	1.88
28853146--28853262	42	2.8	41	83	5	135	41	17	23	17	1.91
28853339--28853425	24	3.6	24	82	3	111	24	25	5	44	1.75
28853339--28853447	49	2.2	49	85	6	141	23	26	4	44	1.72
28857274--28857321	24	2.0	24	100	0	96	54	25	8	12	1.65
28857948--28857977	15	2.0	15	100	0	60	26	33	20	20	1.97
28864359--28864402	16	2.8	16	75	3	54	31	0	0	68	0.90
28870678--28870721	15	2.9	15	93	0	70	75	0	22	2	0.92
28870679--28870721	7	5.9	7	81	10	50	76	0	20	2	0.89
28870679--28870723	8	5.9	8	84	10	58	75	0	22	2	0.91
28871894--28871929	6	5.7	6	87	12	54	69	0	16	13	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28871894--28871929	13	2.8	12	88	12	54	69	0	16	13	1.19
28871893--28871939	7	7.0	7	83	11	55	68	0	17	14	1.22
28872001--28872246	87	2.8	87	90	0	357	32	22	22	23	1.98
28872343--28872697	88	4.1	88	82	3	403	28	25	23	23	1.99
28872531--28872665	44	3.1	43	66	19	107	25	22	24	27	2.00
28872343--28872751	88	4.7	87	81	5	389	29	24	22	23	1.99
28872353--28872751	176	2.3	175	82	3	464	28	24	23	23	1.99
28873039--28873146	41	2.6	41	75	10	101	32	19	19	28	1.96
28873375--28873784	134	3.1	131	72	9	339	30	19	21	29	1.97
28873507--28873664	46	3.5	46	75	6	187	31	20	18	30	1.96
28873300--28873712	90	4.6	90	80	6	505	31	18	21	28	1.97
28873371--28873745	44	8.4	44	67	13	149	31	18	20	29	1.96
28873300--28873712	178	2.3	180	81	5	539	31	18	21	28	1.97
28875494--28875537	16	2.8	16	75	3	54	31	0	0	68	0.90
28875581--28875668	25	3.4	27	82	13	96	31	7	2	57	1.40
28877643--28877681	19	2.1	19	85	9	53	71	0	17	10	1.12
28877686--28877741	27	2.1	26	83	9	69	69	3	26	0	1.04
28878604--28878705	22	4.3	23	82	6	100	15	24	20	39	1.92
28878607--28878655	25	2.0	24	91	0	71	18	22	22	36	1.95
28878616--28878703	47	1.9	44	86	6	122	15	25	20	38	1.92
28888424--28888459	19	1.9	19	88	5	56	36	2	8	52	1.46
28888424--28888472	19	2.7	18	84	9	55	38	2	6	53	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28888678--28888732	14	3.6	14	73	21	56	43	16	5	34	1.71
28888667--28888735	33	2.1	33	100	0	138	46	14	5	33	1.68
28888667--28888718	19	3.0	19	73	21	60	48	15	5	30	1.68
28890680--28890741	21	3.1	21	84	6	76	80	8	6	4	1.01
28896309--28896342	17	1.9	17	88	5	50	11	23	44	20	1.84
28896567--28896633	27	2.5	27	80	0	80	31	16	17	34	1.93
28898885--28898952	27	2.5	27	97	0	127	30	16	16	36	1.90
28899154--28899198	22	2.0	22	83	8	56	17	4	51	26	1.65
28899216--28899290	34	2.3	32	93	6	132	30	22	24	22	1.99
28906239--28906279	18	2.3	18	83	8	57	14	26	41	17	1.88
28906396--28906477	27	3.1	27	87	3	114	29	10	14	45	1.79
28909489--28909527	21	1.9	21	89	5	62	25	2	33	38	1.70
28912469--28912540	11	6.8	11	73	20	57	40	2	1	55	1.23
28912526--28912576	25	2.0	25	82	14	61	39	5	1	52	1.37
28916500--28916544	14	2.9	16	72	27	51	48	11	0	40	1.39
28920561--28920585	3	8.3	3	100	0	50	0	32	0	68	0.90
28923736--28923773	19	2.0	19	94	0	67	28	5	39	26	1.78
28930148--28930179	7	4.6	7	100	0	64	43	0	0	56	0.99
28930105--28930179	14	5.3	14	74	16	66	46	1	2	49	1.24
28930218--28930249	4	7.8	4	93	6	55	75	0	25	0	0.81
28930219--28930246	13	2.2	13	100	0	56	78	0	21	0	0.75
28930182--28930246	17	3.6	17	76	17	69	72	7	20	0	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28931139--28931276	40	3.5	40	74	6	129	25	15	26	31	1.96
28934824--28934861	15	2.4	16	82	13	51	52	0	0	47	1.00
28934873--28934937	32	2.0	32	82	5	78	35	20	13	30	1.91
28934987--28935050	20	3.3	19	71	20	60	51	1	3	43	1.26
28934977--28935080	10	10.4	10	70	13	54	57	1	2	37	1.25
28937350--28937395	17	2.7	17	82	0	56	39	0	0	60	0.97
28937379--28937448	11	6.6	11	76	15	67	38	1	0	60	1.06
28937358--28937459	51	2.0	50	86	7	143	34	1	0	63	1.05
28937362--28937471	41	2.7	40	86	8	145	36	1	0	61	1.06
28937362--28937456	10	9.5	10	69	19	56	34	2	0	63	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