genome.fa.s6.2.7.7.80.10.50.1000.36.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  36  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)
10786435--10786477	19	2.3	19	95	0	77	72	16	11	0	1.13
10792977--10793004	12	2.3	12	100	0	56	14	0	0	85	0.59
10792988--10793088	20	4.8	21	73	17	59	21	4	2	70	1.20
10792974--10793081	43	2.5	42	82	11	137	21	4	1	72	1.13
10792988--10793069	22	3.8	21	78	10	76	21	6	2	69	1.22
10802328--10802360	15	2.1	16	88	5	50	81	0	9	9	0.87
10809230--10809297	23	2.8	26	80	13	81	29	20	30	19	1.97
10809228--10809345	26	4.7	26	71	14	95	34	20	27	17	1.95
10816396--10816458	32	2.0	32	87	0	90	46	14	3	36	1.61
10829830--10829889	13	4.5	13	85	2	84	40	1	21	36	1.64
10834587--10834627	18	2.3	18	83	8	57	24	2	0	73	0.96
10836646--10836736	37	2.5	37	88	0	137	45	10	21	21	1.83
10838394--10838467	37	2.0	37	86	0	103	32	6	4	56	1.44
10838492--10838534	22	2.0	22	85	0	59	34	11	13	39	1.82
10838554--10838578	13	1.9	13	100	0	50	56	0	4	40	1.18
10839083--10839388	84	3.6	84	80	0	333	31	34	11	22	1.89
10841226--10841255	15	2.0	15	93	0	51	36	0	3	60	1.14
10841261--10843244	992	2.0	992	100	0	3968	36	13	14	36	1.85
10854743--10854855	55	2.1	55	91	0	181	43	17	20	18	1.88
10856489--10856633	74	2.0	74	80	5	168	33	15	19	31	1.93
10858841--10858972	71	1.9	71	85	3	185	28	16	16	37	1.91
10858787--10859104	170	1.9	170	85	0	447	30	17	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10858957--10859585	134	4.7	134	81	2	636	32	16	13	37	1.88
10858957--10859585	268	2.4	268	83	1	758	32	16	13	37	1.88
10859492--10859705	99	2.2	99	86	1	295	32	14	12	41	1.83
10859374--10859818	233	1.9	232	85	0	620	31	15	13	39	1.86
10859591--10859905	134	2.4	134	85	1	416	32	16	13	37	1.87
10860151--10861162	510	2.0	511	92	1	1670	27	24	16	31	1.96
10861203--10861233	7	4.4	7	100	0	62	16	12	0	70	1.16
10872367--10872410	21	2.1	21	100	0	88	22	9	22	45	1.80
10877881--10877980	20	5.2	20	73	9	57	61	2	5	32	1.29
10877966--10877990	12	2.1	12	100	0	50	76	0	0	24	0.80
10878919--10879012	42	2.3	40	80	10	102	23	29	30	15	1.96
10879163--10879196	15	2.3	15	90	5	52	26	0	5	67	1.13
10882217--10882754	23	20.9	23	76	17	376	44	21	0	32	1.59
10882200--10882761	28	21.4	28	78	14	506	44	21	1	32	1.59
10882209--10882761	51	10.6	51	80	7	423	44	21	0	32	1.59
10883105--10883334	124	1.9	123	91	2	381	30	24	16	28	1.96
10895168--10895268	3	33.3	3	70	9	53	54	2	4	37	1.37
10895186--10895243	12	4.9	12	85	2	64	51	3	0	44	1.18
10895186--10895233	18	2.6	17	83	6	60	50	2	0	47	1.12
10901367--10901405	20	2.0	20	89	0	60	56	0	0	43	0.99
10902826--10902871	23	2.0	24	82	4	58	32	26	0	41	1.56
10903016--10903062	3	15.7	3	100	0	94	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10903802--10903837	16	2.2	16	90	0	54	55	0	2	41	1.14
10904581--10904643	28	2.3	26	81	7	72	65	9	3	22	1.37
10919886--10920136	125	2.0	122	90	2	394	29	12	19	38	1.88
10921460--10921519	29	2.0	31	87	6	88	26	5	3	65	1.29
10921528--10921575	22	2.2	22	81	7	53	58	0	10	31	1.32
10923006--10923071	11	6.4	11	72	22	54	39	4	0	56	1.20
10922989--10923063	29	2.6	28	83	4	87	40	2	0	57	1.13
10922988--10923081	40	2.3	39	89	7	143	36	3	0	60	1.13
10922977--10923062	17	4.7	17	70	16	64	40	2	0	56	1.12
10923055--10923094	21	1.9	21	89	0	62	37	2	0	60	1.11
10923054--10923112	22	2.8	21	80	14	59	40	1	3	54	1.27
10923616--10923680	27	2.4	27	84	5	78	27	30	35	6	1.81
10923715--10923739	13	1.9	13	100	0	50	64	0	36	0	0.94
10923712--10923795	44	1.9	43	85	7	116	66	0	33	0	0.92
10923810--10923849	21	2.0	20	90	9	64	20	0	10	70	1.16
10924094--10924627	153	3.5	147	87	6	698	50	7	11	29	1.66
10929816--10929902	37	2.3	37	80	9	95	52	6	4	35	1.49
10929877--10929902	13	2.0	13	100	0	52	69	7	0	23	1.14
10929823--10930027	39	5.3	39	70	16	126	49	10	5	34	1.59
10933902--10933983	29	2.8	29	83	3	85	25	18	10	45	1.82
10937247--10937310	13	4.9	13	73	7	67	31	6	26	35	1.81
10937247--10937310	26	2.5	26	80	10	85	31	6	26	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10937497--10937557	24	2.6	23	76	7	61	44	3	1	50	1.28
10939539--10939606	27	2.4	28	87	4	102	61	4	25	8	1.44
10948703--10948787	35	2.4	35	94	0	143	18	5	12	62	1.50
10957389--10957432	20	2.1	21	91	4	72	25	27	4	43	1.74
10957565--10957661	33	2.8	35	72	20	89	45	2	1	51	1.19
10963600--10963800	100	2.0	100	99	0	393	13	18	21	46	1.84
10963986--10964012	12	2.2	12	100	0	54	44	0	7	48	1.31
10964331--10964382	20	2.5	21	81	3	61	30	34	7	26	1.85
10969223--10969306	30	2.8	29	82	7	96	63	1	2	33	1.15
10970251--10970463	24	9.0	24	78	10	192	28	11	17	42	1.85
10970237--10970449	47	4.6	47	80	5	245	29	11	17	40	1.85
10970237--10970455	23	9.3	23	73	15	137	29	11	18	40	1.86
10970237--10970463	92	2.4	94	88	4	334	29	12	17	40	1.86
10971808--10971837	2	14.5	2	93	6	51	46	0	3	50	1.18
10976361--10976403	14	3.2	13	75	12	50	48	9	2	39	1.48
10979277--10979323	20	2.3	20	88	3	67	57	17	4	21	1.56
10979411--10979480	27	2.6	28	80	8	83	74	0	1	24	0.90
10979417--10979480	9	6.7	9	73	19	58	73	0	1	25	0.92
10979441--10979480	19	2.1	19	90	9	64	80	0	0	20	0.72
10982521--10982558	15	2.4	16	86	8	60	73	0	26	0	0.83
10991277--10991313	18	2.1	18	89	0	56	16	10	0	72	1.10
10997344--10997413	31	2.2	32	80	7	90	58	1	1	38	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10997417--10997452	7	4.9	7	87	12	54	88	0	0	11	0.50
10997416--10997454	8	5.0	8	82	17	55	87	0	0	12	0.55
10997414--10997453	16	2.5	16	100	0	80	87	0	0	12	0.54
11004921--11004959	6	6.3	6	88	5	60	64	0	20	15	1.30
11007706--11007739	2	17.0	2	100	0	68	0	50	0	50	1.00
11010471--11010497	14	1.9	14	100	0	54	22	14	25	37	1.93
11010512--11010593	42	2.0	42	92	0	137	36	10	14	37	1.82
11019258--11019689	104	4.2	104	82	4	471	28	19	23	28	1.98
11019249--11019693	206	2.1	208	83	3	540	29	19	23	27	1.98
11021479--11021517	14	2.7	14	84	4	51	58	2	2	35	1.25
11021958--11022019	31	2.0	31	81	6	72	58	4	9	27	1.50
11023163--11023199	7	5.6	7	81	12	51	32	0	0	67	0.91
11023163--11023212	20	2.6	20	79	17	61	34	0	0	66	0.92
11024778--11024819	19	2.2	19	83	8	50	38	4	0	57	1.20
11034506--11034895	196	2.0	195	97	0	744	33	14	22	29	1.93
11035050--11035101	6	8.3	6	81	14	61	19	3	0	76	0.93
11035042--11035101	19	3.2	19	77	11	61	18	6	0	75	1.02
11038558--11038614	16	3.6	16	79	9	62	19	29	3	47	1.66
11048864--11048957	30	3.2	30	69	18	79	40	10	3	45	1.55
11048856--11048988	60	2.2	60	87	2	187	39	12	2	45	1.55
11072632--11072669	19	2.0	19	89	0	58	44	44	0	10	1.38
11074404--11074454	23	2.2	24	82	3	59	41	23	1	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11075098--11075214	58	2.0	60	88	5	175	46	17	9	27	1.78
11075580--11075642	30	2.1	30	90	0	99	25	1	15	57	1.48
11076299--11076331	14	2.3	15	94	5	59	30	0	33	36	1.58
11076405--11076579	88	2.0	89	88	1	262	24	1	29	44	1.63
11076561--11076607	14	3.3	15	79	8	53	10	0	48	40	1.38
11076993--11077017	4	6.2	4	100	0	50	72	0	0	28	0.86
11077089--11077120	14	2.3	14	100	0	64	71	12	0	15	1.14
11087540--11087596	29	2.0	29	89	0	87	52	14	7	26	1.66
11096800--11096838	14	2.8	14	92	0	60	66	10	2	20	1.33
11097551--11097594	21	2.1	21	83	8	54	43	0	4	52	1.22

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