genome.fa.s6.2.7.7.80.10.50.1000.20.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: 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  20  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)
6109130--6109181	16	3.1	16	88	5	68	67	13	0	19	1.23
6110444--6110484	9	4.6	9	90	0	64	56	7	2	34	1.40
6123479--6123514	17	2.1	18	89	5	56	72	0	8	19	1.10
6127611--6127940	40	8.3	40	94	1	502	24	20	27	26	1.99
6127558--6127940	80	4.8	80	89	2	504	25	20	27	26	1.99
6127558--6127940	120	3.2	120	87	2	504	25	20	27	26	1.99
6134085--6134308	40	5.6	40	91	1	308	24	20	28	26	1.99
6134046--6134308	80	3.3	80	85	3	318	23	20	28	26	1.99
6134046--6134308	120	2.2	120	82	4	318	23	20	28	26	1.99
6140523--6140762	42	5.7	42	77	6	209	21	18	20	39	1.93
6140557--6140718	83	1.9	84	88	5	247	23	18	20	37	1.94
6140512--6140718	84	2.5	84	84	3	247	22	17	20	39	1.93
6143340--6143429	35	2.8	33	75	18	91	53	3	1	42	1.24
6162704--6162745	21	2.0	21	100	0	84	19	19	19	42	1.89
6166909--6167285	184	2.1	183	92	0	619	33	13	17	36	1.89
6169027--6169124	44	2.2	45	96	3	182	53	16	0	30	1.43
6170253--6170318	33	2.0	33	93	0	114	31	16	22	28	1.96
6173227--6173288	23	2.5	27	80	15	71	32	17	22	27	1.97
6173925--6174072	43	3.5	42	78	4	154	31	24	15	28	1.95
6178130--6178180	26	1.9	27	84	4	68	39	1	3	54	1.30
6178169--6178232	19	3.4	18	78	8	65	35	1	4	57	1.29
6178779--6178834	27	2.1	27	86	0	76	46	0	5	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6178804--6178846	19	2.3	19	88	4	61	41	0	4	53	1.21
6185749--6185783	14	2.5	14	90	9	54	57	2	2	37	1.29
6193894--6193995	22	4.7	21	74	7	80	10	21	24	43	1.84
6199832--6199902	35	2.0	35	100	0	142	66	2	5	25	1.27
6200778--6200835	22	2.6	22	81	7	64	41	17	5	36	1.72
6200807--6200858	19	2.9	17	84	15	70	32	19	9	38	1.84
6201298--6201685	131	2.9	132	84	3	521	25	26	19	28	1.98
6201677--6201948	89	3.1	89	82	2	305	26	23	21	28	1.99
6202036--6202149	44	2.6	44	79	6	124	32	19	19	28	1.96
6202254--6202374	44	2.8	43	81	2	136	27	24	19	28	1.98
6202507--6202545	19	2.1	19	85	4	53	33	15	10	41	1.81
6202526--6202978	44	10.2	43	74	9	313	28	22	17	31	1.97
6202549--6202977	178	2.4	178	86	0	590	28	22	17	31	1.97
6202627--6202979	134	2.6	133	80	3	361	27	22	17	31	1.97
6212517--6212809	50	5.7	50	83	4	320	25	22	27	23	1.99
6212517--6212752	101	2.3	103	85	5	298	25	23	29	22	1.99
6217018--6217043	6	4.3	6	100	0	52	80	0	0	19	0.71
6232558--6232600	22	2.0	21	82	13	52	34	32	0	32	1.58
6246397--6246426	10	3.0	10	90	0	51	20	3	20	56	1.56
6246399--6246446	24	1.9	25	91	8	80	25	4	16	54	1.60
6246409--6246439	15	2.0	16	93	6	55	25	3	12	58	1.50
6246392--6246446	9	6.2	9	76	19	53	25	5	18	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6253608--6253702	48	2.0	47	81	8	111	36	18	20	24	1.95
6253557--6253746	102	1.9	102	89	0	299	38	19	17	24	1.93
6253412--6253746	27	12.6	27	78	7	319	38	18	16	26	1.92
6253656--6253758	27	3.8	28	81	11	126	38	21	18	21	1.93
6253421--6253758	129	2.6	129	82	7	326	38	18	17	25	1.92
6259528--6259565	17	2.1	19	85	9	53	42	0	2	55	1.14
6261951--6261992	15	2.7	16	85	14	61	71	0	28	0	0.86
6261953--6261994	21	2.0	21	86	13	61	73	0	26	0	0.83
6264302--6264332	14	2.2	14	100	0	62	22	16	41	19	1.89
6281073--6281254	45	4.1	45	90	1	260	23	18	26	32	1.97
6281548--6281593	21	2.1	22	88	4	67	43	0	10	45	1.39
6290050--6290089	22	1.9	22	90	10	66	20	10	15	55	1.68
6298166--6298350	51	3.7	50	80	6	185	25	18	26	29	1.98
6298166--6298350	101	1.8	102	88	3	284	25	18	26	29	1.98
6305057--6305237	88	2.1	88	97	0	344	44	6	24	24	1.76
6308083--6308264	51	3.6	49	74	12	147	22	14	29	33	1.94
6312901--6312995	49	1.9	50	91	2	156	26	21	31	21	1.98
6312979--6313012	17	2.0	17	88	0	50	23	23	35	17	1.95
6312929--6313062	67	2.0	67	89	0	205	24	23	32	19	1.97
6312996--6313161	50	3.3	50	88	0	224	27	24	29	18	1.98
6312901--6313112	117	1.8	116	89	1	334	25	23	32	18	1.97
6313700--6313737	16	2.4	16	100	0	76	47	10	21	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6323579--6323621	21	2.2	20	83	8	52	13	32	6	46	1.71
6326859--6326905	23	2.0	23	91	0	76	19	21	12	46	1.82
6326939--6327199	130	2.0	130	87	0	378	27	24	14	33	1.94
6329897--6329943	17	2.6	18	76	6	51	65	4	2	27	1.22
6329924--6329975	14	3.9	13	77	18	54	67	1	1	28	1.12
6330510--6330574	23	2.8	23	86	9	80	40	3	0	56	1.15
6330510--6330577	11	6.1	11	75	16	68	38	2	0	58	1.13
6332854--6332878	3	8.3	3	100	0	50	36	0	0	64	0.94
6339149--6339193	22	2.0	22	91	0	72	48	15	2	33	1.57
6342925--6342970	22	2.0	23	87	4	67	47	17	2	32	1.60
6344547--6344571	13	1.9	13	100	0	50	16	16	24	44	1.86
6345641--6345682	21	2.0	21	100	0	84	19	19	19	42	1.89
6347049--6347096	6	7.8	6	83	2	51	47	4	29	18	1.67
6347096--6347196	50	2.0	50	94	0	175	43	10	18	26	1.83
6354479--6354555	13	5.4	13	71	19	55	37	2	41	18	1.64
6356680--6356714	18	2.0	18	88	5	54	31	11	5	51	1.61
6358488--6358640	40	3.8	40	87	0	225	18	28	16	35	1.94
6358488--6358631	20	7.2	20	67	6	94	18	29	18	33	1.95
6363320--6363398	27	2.9	27	94	1	140	21	21	30	26	1.98
6365426--6365525	50	2.0	50	98	0	191	28	13	34	25	1.93
6367241--6367579	165	2.0	165	99	0	669	27	10	28	34	1.89
6372461--6372726	137	1.9	137	86	3	374	33	29	19	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6383698--6383724	10	2.7	10	100	0	54	33	7	7	51	1.58
6388799--6388839	21	2.0	21	90	0	64	29	14	14	41	1.86
6390863--6390937	15	5.2	15	67	19	52	44	1	0	54	1.08
6390863--6390975	58	2.0	57	92	5	192	42	3	0	53	1.18
6390882--6390995	58	2.0	58	85	3	158	41	4	3	50	1.39
6391302--6391367	15	4.4	14	76	12	60	36	34	1	27	1.66
6391302--6391367	30	2.2	29	84	7	87	36	34	1	27	1.66
6391575--6391615	21	2.0	21	85	0	55	29	43	0	26	1.55
6391635--6391667	14	2.3	15	94	5	59	36	33	0	30	1.58
6392070--6392419	41	8.7	40	78	7	327	29	28	19	22	1.98
6392284--6392332	17	2.9	17	90	0	80	44	28	10	16	1.80
6392070--6392419	157	2.2	159	83	6	422	29	28	19	22	1.98
6394972--6395017	23	2.0	23	91	0	74	28	4	23	43	1.73
6397425--6397662	23	10.3	23	73	8	189	18	4	34	42	1.71
6397427--6397649	48	4.8	48	79	10	216	17	4	33	43	1.71
6397425--6397649	93	2.4	92	87	5	319	17	4	34	43	1.71
6399837--6399875	14	2.7	15	84	8	53	35	0	25	38	1.56
6401505--6401541	19	1.9	19	88	0	56	18	24	40	16	1.90
6408947--6408983	20	1.9	18	89	10	56	24	21	16	37	1.93
6409768--6409829	26	2.4	26	77	0	70	37	9	14	38	1.79
6417482--6417545	30	2.2	30	91	2	103	32	0	43	23	1.54
6417482--6417537	16	3.7	16	72	18	57	30	0	46	23	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6425984--6426168	101	1.8	102	84	3	257	24	15	28	31	1.96
6425980--6426170	51	3.8	50	78	4	204	24	15	28	31	1.95
6426172--6426262	45	2.0	45	89	0	137	26	16	23	34	1.95
6435206--6435769	44	12.7	45	71	11	254	30	19	23	26	1.98
6435107--6435781	178	3.8	176	83	3	712	30	19	23	26	1.98
6435247--6435755	222	2.3	222	88	1	734	30	20	22	26	1.98
6435871--6436218	44	7.8	43	67	15	127	31	18	22	28	1.97
6435639--6436217	225	2.6	225	82	3	621	32	18	20	28	1.97
6435915--6436014	42	2.3	45	82	5	116	28	17	26	29	1.97
6436096--6436261	44	3.8	44	83	1	181	30	19	22	27	1.98

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