genome.fa.s5.2.7.7.80.10.50.1000.31.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  56894857

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   

This is table  31  of  185  ( 22150 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)
9254514--9254813	27	11.2	27	83	1	343	18	16	22	43	1.87
9256913--9256957	22	2.0	24	91	8	76	53	0	22	24	1.46
9257456--9257557	37	2.6	38	72	6	89	23	21	24	30	1.99
9259487--9259522	15	2.4	16	86	13	51	19	0	0	80	0.71
9263910--9264237	180	1.8	180	91	0	548	28	18	21	31	1.97
9275885--9275998	57	2.0	57	100	0	228	24	15	21	38	1.92
9278179--9278241	30	2.1	30	94	5	110	30	25	9	34	1.88
9278226--9278389	30	5.5	30	73	4	152	19	28	14	37	1.91
9278226--9278387	60	2.7	60	80	4	193	19	29	14	37	1.91
9278196--9278416	90	2.5	89	81	1	264	22	27	14	36	1.92
9278375--9278437	29	2.2	29	85	0	81	26	26	14	31	1.95
9285100--9285162	29	2.2	29	97	0	117	36	23	7	31	1.84
9285860--9286019	30	5.4	30	73	5	146	23	28	10	37	1.88
9285826--9286019	90	2.2	89	83	2	237	25	27	9	37	1.87
9285860--9286017	60	2.7	60	80	6	196	23	28	10	37	1.88
9286010--9286066	29	2.0	29	82	0	69	26	21	15	36	1.93
9287203--9287250	21	2.4	20	93	6	80	29	14	16	39	1.88
9288256--9288296	20	2.0	20	95	0	73	60	0	31	7	1.24
9291435--9291493	29	2.0	30	90	3	93	49	11	6	32	1.66
9293171--9293195	6	4.2	6	100	0	50	32	0	16	52	1.44
9300302--9300326	7	3.6	7	100	0	50	40	0	0	60	0.97
9300754--9300786	3	11.0	3	100	0	66	33	33	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9305090--9305582	114	4.3	114	73	9	333	29	18	23	28	1.98
9306071--9306103	15	2.2	15	94	0	57	21	0	51	27	1.48
9307923--9307978	21	2.6	22	83	5	62	16	0	46	37	1.47
9307919--9307979	29	2.1	28	88	8	88	16	0	42	40	1.48
9310360--9310388	15	1.9	15	100	0	58	13	20	20	44	1.85
9311465--9311514	17	3.2	17	72	21	63	38	6	4	52	1.45
9311506--9311544	16	2.5	15	88	8	60	41	0	5	53	1.23
9311476--9311624	62	2.4	61	80	4	165	36	5	9	48	1.58
9311666--9311726	21	3.0	21	80	7	72	42	11	3	42	1.57
9311661--9311854	101	2.0	99	89	6	306	46	11	3	38	1.56
9311761--9311823	9	6.7	9	78	7	63	44	15	4	34	1.68
9311802--9311845	22	2.0	23	86	4	63	54	13	0	31	1.39
9311823--9311898	20	3.8	20	72	10	64	55	10	0	34	1.34
9311802--9311898	32	3.2	29	81	11	104	53	12	0	34	1.38
9311802--9312695	18	46.7	20	61	28	137	50	15	2	32	1.55
9311936--9312619	37	18.5	37	99	0	1316	49	16	2	32	1.58
9312598--9312694	32	3.2	29	81	11	104	53	12	0	34	1.38
9311936--9312880	37	25.3	37	87	7	1008	50	15	2	32	1.56
9328515--9328565	21	2.4	21	90	0	75	35	15	43	5	1.71
9328945--9329090	42	3.5	42	95	0	256	39	20	22	17	1.93
9329071--9329108	20	1.9	20	94	0	67	52	21	21	5	1.66
9331377--9331418	16	2.4	18	80	7	52	26	30	0	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9333558--9333612	24	2.3	23	78	9	65	45	7	32	14	1.72
9334185--9334741	281	2.0	281	83	2	706	27	22	19	31	1.97
9335070--9335121	26	2.0	26	92	0	86	19	17	21	42	1.89
9338088--9338358	102	2.6	103	78	6	244	29	18	18	33	1.95
9358115--9358206	25	3.6	25	79	4	87	35	22	20	20	1.96
9358825--9358866	21	2.0	21	85	0	57	38	23	0	38	1.55
9358836--9358866	10	2.9	11	90	9	55	35	29	0	35	1.58
9366567--9366706	46	3.0	46	93	0	235	27	26	8	37	1.86
9374812--9374860	24	2.0	24	100	0	98	24	8	16	51	1.71
9374818--9374874	24	2.4	24	88	2	80	26	8	19	45	1.79
9380357--9380396	12	3.6	11	80	12	55	82	0	17	0	0.67
9380365--9380397	6	5.5	6	100	0	66	84	0	15	0	0.61
9380796--9380885	45	2.0	46	88	2	137	11	46	14	27	1.78
9381976--9382048	37	2.0	37	91	2	121	19	6	6	67	1.37
9382508--9382695	94	2.0	94	97	0	358	25	11	25	37	1.90
9395933--9396005	37	2.0	37	91	2	121	20	6	6	65	1.40
9403264--9403309	11	4.2	11	78	10	58	52	8	0	39	1.33
9408471--9408894	125	3.4	125	85	2	627	29	18	22	29	1.97
9412561--9412600	18	2.2	18	90	0	62	37	7	32	22	1.82
9414469--9414521	11	4.7	12	82	15	60	45	0	28	26	1.54
9414410--9414507	51	1.9	51	83	4	126	45	2	24	27	1.64
9415534--9415577	21	2.0	22	83	12	56	9	6	15	68	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9417996--9418132	26	5.3	26	77	0	139	25	11	25	37	1.90
9417995--9418132	52	2.7	52	80	2	170	26	11	25	36	1.90
9420121--9420173	19	2.8	19	77	11	65	71	1	0	26	0.96
9420121--9420166	18	2.5	19	85	3	58	71	2	0	26	0.97
9421846--9421946	49	2.1	49	84	0	130	30	27	13	27	1.94
9424626--9424664	4	10.0	4	94	5	71	74	0	0	25	0.82
9424969--9425817	63	13.5	63	99	0	1689	44	14	9	31	1.77
9429030--9429092	23	2.8	23	73	2	65	4	12	7	74	1.19
9429639--9429734	31	3.1	31	95	3	174	45	13	9	31	1.75
9432342--9432454	43	2.6	43	78	13	133	23	22	26	27	1.99
9433149--9433183	10	3.4	10	96	4	61	8	51	31	8	1.63
9433201--9433260	28	2.2	28	85	5	88	70	0	1	28	0.97
9433571--9433610	22	2.0	20	85	14	55	25	2	17	55	1.55
9437400--9437439	20	2.0	21	85	5	55	20	7	5	67	1.34
9438131--9438425	147	2.0	147	100	0	590	48	9	14	27	1.74
9439441--9439488	23	2.1	23	84	0	60	18	27	20	33	1.96
9439428--9439567	73	1.9	73	88	5	212	19	25	21	34	1.96
9439427--9439580	25	6.3	25	71	17	96	18	25	21	34	1.96
9439571--9439637	25	2.7	25	81	4	73	28	26	13	31	1.94
9442372--9442423	9	5.8	9	77	8	52	28	7	3	59	1.43
9442369--9442411	15	2.9	15	82	0	50	32	6	0	60	1.23
9445396--9445442	22	2.1	22	96	0	85	38	4	23	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9466045--9466382	44	7.7	44	72	4	200	28	19	23	28	1.98
9467103--9467146	23	2.0	22	82	13	54	11	13	2	72	1.21
9469558--9469594	19	2.0	18	94	5	65	48	5	16	29	1.68
9471635--9471663	15	1.9	15	100	0	58	68	3	0	27	1.05
9473899--9473978	42	1.9	42	89	0	124	35	27	21	16	1.94
9473860--9474002	43	3.4	42	76	5	128	31	27	20	20	1.98
9474462--9474512	21	2.4	21	86	0	66	3	41	17	37	1.68
9480110--9480169	30	2.0	30	87	3	86	43	3	23	30	1.70
9480481--9480692	43	5.0	43	80	8	247	22	17	25	34	1.96
9480477--9480692	85	2.6	85	94	0	380	22	18	25	33	1.96
9482336--9482445	7	14.0	7	80	16	94	27	0	21	50	1.49
9482343--9483069	9	84.2	9	78	9	716	33	0	19	47	1.54
9483243--9483311	9	7.9	9	80	6	79	31	0	18	49	1.48
9483457--9483490	17	1.9	18	88	5	52	55	0	5	38	1.24
9483465--9483507	15	2.9	15	89	0	59	58	0	4	37	1.19
9483562--9483652	23	4.0	23	81	7	116	52	1	2	43	1.20
9483565--9483651	24	4.0	21	80	15	88	54	1	2	42	1.20
9483563--9483651	43	2.0	47	86	8	132	53	1	2	42	1.20
9485226--9485250	13	1.9	13	100	0	50	24	12	24	40	1.88
9502123--9502163	15	2.7	15	100	0	82	29	34	19	17	1.94
9504994--9505177	42	4.2	43	73	15	133	30	19	22	27	1.98
9510960--9511198	25	8.9	25	71	20	119	38	1	18	42	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9510960--9511323	9	40.6	9	67	17	177	35	1	17	44	1.60
9511029--9511080	19	2.8	19	85	2	70	32	1	19	46	1.61
9511013--9511248	16	14.8	16	71	16	109	36	1	17	44	1.57
9511107--9511232	25	4.8	25	69	13	74	37	1	16	44	1.58
9513035--9513654	314	2.0	314	97	0	1177	31	9	32	26	1.87
9513749--9514279	261	2.0	261	94	0	918	34	20	17	27	1.95
9514145--9514380	115	2.1	115	93	0	400	32	19	17	30	1.95
9515037--9515086	20	2.5	21	83	6	68	48	38	0	14	1.44
9515897--9516046	72	2.1	72	81	2	167	30	25	21	23	1.99
9519214--9519273	25	2.4	25	85	0	84	20	40	28	11	1.87

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