genome.fa.s6.2.7.7.80.10.50.1000.53.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  53  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)
15963690--15963719	13	2.3	13	94	0	51	50	13	3	33	1.58
15966786--15966950	69	2.4	69	79	4	163	27	20	15	37	1.92
15974223--15974258	18	2.0	18	94	0	63	13	16	30	38	1.88
15976862--15976942	41	2.0	41	95	0	144	46	14	8	29	1.75
15976980--15977020	19	2.2	19	95	0	73	41	14	4	39	1.67
15980712--15980790	41	1.9	41	97	0	149	48	13	6	31	1.68
15982747--15982970	30	7.4	30	87	1	286	34	6	16	42	1.74
15982747--15982967	90	2.4	90	88	1	316	34	6	15	42	1.74
15982735--15982999	30	8.7	30	85	2	233	35	6	15	43	1.73
15992520--15992556	12	3.2	12	77	14	51	40	16	0	43	1.48
15993094--15993336	50	4.8	50	89	0	351	19	31	23	25	1.98
15993431--15993460	13	2.3	13	94	0	51	50	13	3	33	1.58
16002377--16002411	18	1.9	18	94	0	61	65	2	17	14	1.38
16002379--16002420	18	2.3	18	84	8	50	69	2	19	9	1.28
16006816--16006842	13	2.1	13	100	0	54	62	0	14	22	1.31
16007329--16007377	5	9.6	5	77	4	53	40	0	16	42	1.48
16007331--16007385	21	2.7	20	80	5	56	41	0	14	43	1.45
16007331--16007385	10	5.4	10	84	4	56	41	0	14	43	1.45
16007822--16007908	26	3.4	25	73	9	77	17	26	20	35	1.95
16010360--16010511	21	7.1	21	71	3	106	45	17	21	15	1.85
16010358--16010516	42	3.7	42	80	3	138	45	16	22	15	1.85
16018303--16018367	32	2.1	32	97	2	123	47	12	9	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16032183--16032211	12	2.3	13	94	5	51	65	6	6	20	1.40
16039136--16039174	6	6.5	6	100	0	78	0	51	15	33	1.44
16052025--16052127	41	2.5	41	82	3	109	28	24	18	29	1.98
16052051--16052131	41	2.0	41	87	0	117	29	23	19	27	1.98
16055237--16055304	14	4.8	14	69	16	50	11	0	35	52	1.38
16055496--16055788	126	2.3	126	83	2	372	34	17	20	27	1.95
16058905--16059066	34	4.7	33	70	19	107	45	7	6	40	1.59
16058905--16059096	105	1.8	104	93	2	323	45	7	7	39	1.61
16061272--16061319	11	4.4	11	80	17	55	41	0	35	22	1.54
16061280--16061322	10	4.0	10	82	14	50	44	0	32	23	1.54
16067237--16067279	16	2.6	16	79	13	52	41	6	11	39	1.68
16069229--16069311	38	2.2	37	76	6	87	43	16	16	22	1.88
16072786--16072882	46	2.1	47	86	7	137	23	24	13	38	1.91
16073231--16073274	14	2.9	15	80	10	54	20	15	31	31	1.94
16074667--16074710	24	1.9	23	90	9	72	72	2	2	22	1.07
16076861--16076904	17	2.3	18	81	18	54	70	4	2	22	1.17
16077447--16077496	13	3.7	13	81	5	55	64	4	2	30	1.23
16081038--16081096	19	2.9	20	75	10	57	22	13	38	25	1.90
16098497--16098658	40	4.1	40	87	1	227	30	19	31	19	1.96
16098538--16098602	20	3.3	20	68	10	62	30	16	35	16	1.92
16098497--16098658	79	2.0	80	86	1	227	30	19	31	19	1.96
16099739--16099981	40	6.1	40	82	5	278	34	19	25	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16099774--16099981	79	2.6	79	84	7	278	33	20	26	19	1.96
16107432--16107675	63	4.0	63	85	6	320	33	5	16	44	1.71
16107449--16107675	123	1.8	124	87	2	341	33	5	16	44	1.70
16124105--16124188	22	3.9	21	73	17	73	26	13	15	45	1.82
16124074--16124200	44	2.9	44	81	8	150	25	14	16	43	1.86
16124073--16124225	45	3.4	45	78	10	145	25	16	16	41	1.88
16128342--16128369	4	7.0	4	100	0	56	25	0	0	75	0.81
16129641--16129670	14	2.2	13	94	5	51	40	0	3	56	1.16
16135343--16135387	23	2.0	23	82	8	56	42	8	20	28	1.82
16136545--16136638	22	4.3	22	71	15	86	19	23	11	45	1.83
16136538--16136663	44	2.9	44	78	10	125	18	23	11	46	1.81
16136603--16136663	22	2.8	22	79	18	65	16	22	11	49	1.78
16136649--16136753	20	5.2	20	83	0	129	11	27	21	39	1.88
16136649--16136750	40	2.5	40	92	3	170	11	27	21	39	1.88
16142558--16142608	22	2.4	21	72	18	52	47	15	0	37	1.46
16143363--16143429	35	1.9	34	82	8	82	5	23	4	65	1.34
16143452--16143502	24	2.0	24	88	7	75	56	0	1	41	1.10
16143450--16143540	10	9.0	10	67	26	50	56	2	2	39	1.24
16148140--16148363	68	3.3	66	80	9	215	24	25	16	33	1.96
16151522--16151576	28	2.0	28	85	3	76	41	9	0	49	1.34
16154080--16154193	59	1.9	59	92	0	192	30	8	30	29	1.87
16165557--16165600	21	2.1	20	84	16	54	25	4	13	56	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16165806--16165831	6	4.3	6	100	0	52	53	15	0	30	1.42
16175186--16175217	3	10.7	3	100	0	64	68	0	0	31	0.90
16189461--16189538	39	2.0	39	84	0	102	24	12	7	55	1.63
16189396--16189600	108	1.9	109	87	3	306	21	11	15	51	1.74
16189646--16189890	69	3.6	69	75	6	264	23	11	14	50	1.75
16189622--16189884	136	1.9	136	88	1	393	25	12	14	48	1.77
16195723--16195753	9	3.4	9	90	0	53	25	12	22	38	1.90
16195809--16195833	9	2.8	9	100	0	50	44	20	12	24	1.85
16197403--16197440	15	2.5	15	80	16	51	39	2	2	55	1.28
16202281--16202364	5	16.8	5	85	8	100	83	1	14	1	0.77
16203794--16203941	44	3.4	43	78	5	136	29	18	21	30	1.97
16204059--16204144	45	1.9	45	90	0	136	30	20	22	26	1.98
16206247--16206283	19	1.9	19	89	10	58	8	0	8	83	0.80
16209410--16209446	16	2.4	17	82	17	53	5	27	0	67	1.12
16211883--16211975	30	3.1	30	95	0	159	26	3	13	55	1.54
16217575--16217636	28	2.3	27	76	15	65	30	0	6	62	1.20
16219521--16219582	28	2.3	27	76	15	65	30	0	6	62	1.20
16222494--16222564	33	2.2	33	87	5	99	23	11	40	23	1.87
16225136--16225162	2	13.5	2	100	0	54	0	48	0	51	1.00
16229882--16230021	55	2.6	53	82	4	163	43	11	14	30	1.80
16229936--16229994	18	3.3	18	78	4	66	38	10	13	37	1.79
16229822--16230021	17	11.2	17	70	11	114	43	10	13	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16229863--16230021	36	4.4	35	74	11	133	44	11	14	30	1.80
16230327--16230371	5	8.4	5	83	9	54	77	2	0	20	0.87
16230486--16230549	18	3.6	17	79	18	69	0	18	1	79	0.81
16230487--16230545	6	9.7	6	77	17	59	0	16	1	81	0.78
16230495--16230539	20	2.3	19	88	7	72	0	17	0	82	0.68
16230493--16230548	25	2.2	25	87	9	87	0	16	0	83	0.64
16230496--16230546	7	7.9	7	78	12	56	0	17	0	82	0.67
16230486--16230547	20	3.0	19	81	13	70	0	17	1	80	0.79
16230726--16230767	18	2.3	18	87	0	57	0	16	45	38	1.48
16230865--16230892	10	2.8	10	100	0	56	0	35	0	64	0.94
16230891--16230920	10	3.0	10	95	0	51	0	13	0	86	0.57
16231007--16231050	16	2.8	16	86	3	54	0	25	2	72	0.96
16231422--16232682	74	16.6	73	86	6	1302	35	20	17	27	1.95
16231422--16232682	151	8.3	148	86	6	1344	35	20	17	27	1.95
16233558--16233624	1	67.0	1	72	0	53	0	4	8	86	0.69
16233558--16233624	16	4.3	15	81	10	80	0	4	8	86	0.69
16233564--16233624	8	7.6	8	82	14	72	0	3	9	86	0.67
16237184--16237214	4	8.0	4	92	7	55	48	0	25	25	1.52
16239518--16239566	9	5.4	9	77	0	53	55	4	0	40	1.19
16239518--16239566	18	2.7	18	87	0	62	55	4	0	40	1.19
16240380--16240422	5	8.6	5	100	0	86	60	0	0	39	0.97
16246338--16246378	3	13.7	3	84	0	55	63	2	0	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16246322--16246381	21	2.9	20	77	2	57	60	3	0	36	1.14
16247193--16247237	5	9.0	5	95	0	81	60	2	0	37	1.09
16248120--16248319	17	11.2	17	70	11	123	43	10	13	33	1.77
16248122--16248319	36	5.5	35	73	12	143	43	9	13	33	1.77
16248625--16248663	5	7.4	5	85	5	51	79	2	0	17	0.84
16248788--16248842	6	9.0	6	77	18	60	0	18	0	81	0.68
16248788--16248842	20	2.9	19	89	5	76	0	18	0	81	0.68
16248778--16248842	20	3.3	19	81	10	69	0	20	0	80	0.72
16248779--16248842	11	5.5	11	80	10	65	0	18	0	81	0.70
16249113--16249152	13	3.2	12	86	10	53	5	10	0	85	0.75

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