genome.fa.s14.2.7.7.80.10.50.1000.20.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  39383930

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   

This is table  20  of  126  ( 15042 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)
5940060--5940127	24	3.0	23	77	14	63	42	0	0	57	0.98
5942337--5942388	27	1.9	27	84	0	68	51	11	9	26	1.68
5951878--5951951	37	2.0	37	94	0	130	39	17	25	17	1.91
5954299--5954324	5	5.2	5	100	0	52	19	0	0	80	0.71
5964100--5964167	21	3.3	21	66	22	63	41	7	2	48	1.46
5964080--5964202	40	3.1	40	98	0	237	41	9	2	46	1.50
5964373--5964405	16	2.1	16	94	0	57	33	3	0	63	1.10
5965149--5965235	44	2.0	44	93	0	147	27	12	18	41	1.87
5968323--5968461	37	3.8	37	97	0	251	39	14	20	25	1.90
5968424--5968547	46	2.8	46	91	3	200	33	16	22	27	1.96
5972556--5972765	56	4.0	54	72	16	179	32	10	12	43	1.78
5972627--5972800	44	3.7	44	74	15	168	32	13	12	41	1.82
5972573--5972805	99	2.3	100	88	0	342	32	12	13	41	1.82
5972728--5972814	44	2.0	44	88	0	129	33	14	13	37	1.86
5981571--5981598	7	4.0	7	100	0	56	42	0	0	57	0.99
5983190--5983565	186	2.0	186	97	0	707	21	23	15	39	1.91
6005249--6005275	13	2.1	13	100	0	54	62	7	22	7	1.46
6010230--6010256	2	13.5	2	100	0	54	0	48	0	51	1.00
6012101--6012167	25	2.8	24	81	4	89	41	1	0	56	1.08
6012149--6012179	11	2.8	11	95	0	53	58	0	0	41	0.98
6017814--6017853	13	3.5	12	80	19	50	50	0	0	50	1.00
6024148--6024183	16	2.2	16	100	0	72	38	16	0	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6024384--6024410	11	2.5	11	100	0	54	40	0	0	59	0.98
6024919--6024959	21	1.9	22	90	5	66	34	0	19	46	1.50
6025613--6025692	25	3.2	25	92	5	128	21	27	20	31	1.98
6030799--6030875	25	3.2	25	83	5	79	19	27	15	37	1.92
6032473--6032507	18	1.9	18	88	11	54	37	5	0	57	1.23
6032858--6032915	20	2.9	19	78	14	64	74	3	3	18	1.11
6037605--6037645	21	2.0	21	90	0	64	21	9	4	63	1.44
6037750--6037797	22	2.3	20	79	10	51	72	4	0	22	1.01
6038536--6038566	14	2.1	15	94	5	55	22	12	3	61	1.46
6041209--6041239	15	2.1	15	93	0	53	41	0	3	54	1.16
6041424--6041507	29	2.9	28	77	10	80	71	4	21	2	1.16
6041833--6041877	23	1.9	24	86	13	67	55	2	22	20	1.54
6042131--6042175	24	1.9	23	82	13	56	51	0	15	33	1.44
6046040--6046082	23	2.0	23	90	9	72	65	4	20	9	1.40
6046405--6046468	30	2.2	29	88	8	94	53	4	4	37	1.43
6046414--6046472	29	2.0	30	96	3	111	54	5	3	37	1.39
6049431--6049572	72	2.0	72	95	0	257	26	23	16	33	1.95
6052629--6052672	19	2.3	19	84	7	54	59	0	4	36	1.18
6053456--6053493	21	2.0	20	85	15	53	36	0	7	55	1.29
6055509--6055578	31	2.3	31	92	5	115	47	8	18	25	1.77
6061079--6061450	185	2.0	185	100	0	744	47	2	17	33	1.62
6061595--6061628	16	2.1	16	100	0	68	47	0	23	29	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6064876--6064915	20	2.0	20	100	0	80	30	15	15	40	1.87
6070245--6070319	31	2.4	32	93	2	125	28	10	16	45	1.80
6082097--6082139	5	8.2	5	82	17	52	76	0	20	2	0.89
6082087--6082139	16	3.2	16	80	17	56	73	0	22	3	0.99
6084935--6084980	19	2.5	19	80	16	60	30	2	0	67	1.03
6086364--6086397	6	5.7	6	100	0	68	52	0	47	0	1.00
6090305--6090348	3	14.7	3	100	0	88	65	0	0	34	0.93
6105908--6105941	17	2.0	17	100	0	68	11	17	17	52	1.73
6108187--6108223	4	9.2	4	100	0	74	24	0	0	75	0.80
6110926--6110959	15	2.1	17	89	10	54	47	0	0	52	1.00
6111803--6111854	18	3.0	18	81	10	56	63	3	0	32	1.12
6116272--6116313	17	2.3	18	80	12	50	64	2	0	33	1.07
6119722--6119802	32	2.5	32	91	0	135	24	25	35	13	1.92
6119788--6119832	18	2.6	18	92	3	74	20	31	35	13	1.91
6120520--6120553	18	1.9	18	88	5	52	26	0	11	61	1.30
6123414--6123480	21	3.2	21	76	0	71	41	13	25	19	1.88
6123413--6123524	42	2.7	42	84	2	136	42	16	22	17	1.88
6123462--6123529	21	3.2	21	72	0	64	48	19	17	14	1.81
6135326--6135403	22	3.6	21	79	5	66	58	16	10	14	1.62
6135351--6135401	21	2.4	22	86	3	68	58	19	9	11	1.60
6138488--6138527	21	1.9	21	85	10	55	55	22	0	22	1.44
6139645--6139678	18	1.9	17	88	5	50	64	2	0	32	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6139715--6139837	43	2.9	43	95	2	212	49	1	7	41	1.40
6140911--6140993	40	2.0	42	88	6	125	59	2	16	21	1.49
6141969--6142049	22	3.7	22	88	0	99	33	20	28	17	1.95
6142045--6142093	20	2.3	22	86	6	66	36	18	26	18	1.94
6142989--6143025	15	2.4	17	82	17	53	35	5	0	59	1.20
6146048--6146101	28	1.9	28	96	0	99	38	12	16	31	1.87
6146610--6146647	19	2.0	19	100	0	76	31	5	21	42	1.75
6146847--6146923	29	2.6	30	79	4	84	24	12	15	46	1.81
6164961--6164991	15	2.1	15	100	0	62	58	0	6	35	1.24
6164961--6164998	15	2.6	14	88	12	51	57	0	7	34	1.28
6166425--6166466	9	4.8	9	83	16	52	64	0	4	30	1.14
6166721--6166752	11	2.9	11	95	0	55	18	31	0	50	1.48
6166719--6166771	22	2.4	22	87	6	72	20	30	3	45	1.69
6168474--6168534	30	2.0	30	83	0	77	31	42	13	13	1.82
6172477--6172755	126	2.2	126	93	0	470	27	21	18	32	1.97
6173649--6173685	16	2.3	16	100	0	74	37	5	35	21	1.77
6173667--6173761	44	2.1	45	82	5	113	33	6	28	31	1.82
6177230--6177271	17	2.6	16	85	14	52	9	14	0	76	1.02
6178208--6178262	24	2.3	22	77	17	56	9	9	7	74	1.22
6178243--6178272	15	1.9	16	93	6	53	20	10	3	66	1.35
6178302--6178386	23	3.7	22	77	12	73	40	0	2	57	1.11
6178349--6178393	23	2.1	21	84	12	56	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6178538--6178587	22	2.2	22	85	3	64	52	4	0	44	1.20
6178644--6178678	7	5.0	7	100	0	70	57	0	0	42	0.99
6185413--6185677	40	6.7	40	85	5	286	26	27	21	24	1.99
6185380--6185677	80	3.7	80	79	9	263	25	27	21	25	1.99
6185609--6185686	40	1.9	41	82	10	97	26	28	20	24	1.99
6192130--6192191	31	2.0	32	87	6	92	70	4	11	12	1.30
6192146--6192206	31	2.0	31	81	12	72	73	6	9	9	1.24
6192195--6192231	11	3.3	11	92	7	65	81	8	2	8	0.97
6192195--6192232	12	3.2	12	85	7	60	81	7	2	7	0.96
6193023--6193080	17	3.4	17	74	25	59	46	1	1	50	1.22
6193101--6193180	40	2.0	41	92	2	135	53	0	1	45	1.08
6193216--6193299	18	4.6	18	69	15	64	38	2	0	59	1.10
6193211--6193314	19	5.5	19	71	17	74	35	2	0	60	1.18
6200317--6200382	29	2.2	30	83	5	80	56	10	12	21	1.65
6201053--6201080	13	2.2	13	100	0	56	60	0	0	39	0.97
6211866--6211894	14	2.1	14	100	0	58	20	27	6	44	1.77
6220468--6222407	970	2.0	970	100	0	3880	34	11	12	41	1.79
6231518--6232062	108	5.0	108	93	0	901	37	26	5	29	1.80
6233019--6233561	205	2.6	211	77	12	537	26	12	18	42	1.86
6242033--6242111	29	2.8	30	77	12	69	25	25	11	37	1.89
6242043--6242111	28	2.5	27	86	11	95	26	27	13	33	1.93
6246922--6247060	46	3.0	46	91	2	208	30	25	8	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6250262--6250304	21	2.0	21	100	0	86	23	13	20	41	1.88
6252586--6252643	20	2.8	20	89	7	73	65	0	5	29	1.14
6252593--6252643	20	2.5	20	93	6	84	60	0	5	33	1.21
6253897--6253932	3	12.0	3	100	0	72	33	66	0	0	0.92
6255363--6255443	31	2.6	31	84	7	85	43	3	6	46	1.46
6258432--6258491	31	1.9	31	89	0	93	43	5	13	38	1.66
6259518--6259571	25	2.2	25	89	0	81	57	0	1	40	1.09
6259910--6260001	10	9.1	10	76	14	75	59	0	2	38	1.09
6259915--6260057	21	7.2	20	68	21	72	63	0	2	33	1.09
6259915--6260010	11	9.2	11	72	20	64	62	0	2	35	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