genome.fa.s12.2.7.7.80.10.50.1000.78.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  78  of  120  ( 14336 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)
23419710--23419832	61	2.0	61	96	0	228	37	26	8	28	1.85
23424791--23424821	10	3.1	10	95	0	53	45	0	9	45	1.36
23429036--23429099	28	2.3	26	79	15	67	50	6	0	43	1.27
23429131--23429180	14	3.4	14	79	17	57	40	0	0	60	0.97
23429131--23429184	16	3.7	15	80	11	58	40	0	0	59	0.98
23429343--23429817	243	1.9	246	84	8	644	41	8	17	32	1.80
23436764--23436794	16	1.9	16	100	0	62	38	22	12	25	1.90
23444003--23444047	2	22.5	2	100	0	90	48	0	0	51	1.00
23444999--23445028	8	3.8	8	95	0	51	10	3	0	86	0.67
23457277--23457305	13	2.1	14	93	6	51	20	0	0	79	0.74
23457290--23457342	17	2.9	17	78	13	61	30	0	1	67	1.01
23458209--23458242	10	3.4	10	87	0	50	88	2	5	2	0.70
23460015--23460263	23	10.7	23	72	9	139	39	18	13	28	1.88
23460029--23460260	70	3.3	70	87	3	306	41	18	12	27	1.87
23460039--23460262	47	4.8	47	67	12	127	40	18	13	27	1.88
23461261--23461386	43	2.9	45	77	17	140	30	28	17	23	1.97
23464501--23464527	6	4.5	6	100	0	54	62	0	0	37	0.95
23466760--23467156	41	9.7	41	92	1	627	16	21	30	32	1.95
23467502--23467580	22	3.6	22	76	10	65	24	2	27	45	1.66
23467527--23467615	7	12.6	7	71	2	52	22	2	30	44	1.65
23467613--23467690	14	5.6	14	72	10	54	25	0	41	33	1.56
23467814--23467855	16	2.5	17	88	7	59	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23468048--23468088	21	1.9	22	85	5	57	21	0	39	39	1.54
23472582--23472890	43	7.3	41	75	11	225	22	18	30	28	1.97
23472730--23472885	82	1.9	83	87	1	233	21	19	33	25	1.97
23482874--23482928	25	2.2	25	100	0	110	21	34	32	10	1.89
23485742--23485775	17	1.9	18	88	5	52	61	0	14	23	1.33
23485866--23485908	21	2.0	21	86	8	61	37	2	6	53	1.41
23486148--23486210	21	3.0	21	71	8	58	26	3	0	69	1.03
23486184--23486218	16	2.2	16	90	5	54	34	0	0	65	0.93
23486448--23486523	35	2.1	36	85	7	102	47	5	3	43	1.44
23488373--23488430	22	2.7	21	81	7	71	34	3	18	43	1.68
23493529--23493573	23	2.0	23	91	4	74	31	4	17	46	1.68
23498335--23498392	22	2.7	21	81	7	71	34	3	18	43	1.68
23500400--23500469	24	3.0	24	85	2	88	64	8	1	25	1.30
23500400--23500469	3	23.7	3	75	8	63	64	8	1	25	1.30
23500405--23500489	24	3.6	24	80	4	75	62	8	2	27	1.36
23501109--23501141	13	2.6	13	90	4	50	69	0	9	21	1.15
23504822--23504870	25	2.0	25	95	0	89	46	14	12	26	1.79
23507289--23507322	17	2.1	16	88	5	50	70	0	14	14	1.17
23508520--23508563	17	2.5	18	77	3	54	4	6	9	79	1.04
23508791--23508828	12	3.0	13	84	7	51	63	0	0	36	0.95
23508792--23508832	13	3.2	13	86	6	57	65	0	0	34	0.93
23517731--23517803	36	2.0	37	83	2	94	54	1	0	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23517759--23517827	23	2.9	23	71	4	66	52	0	0	47	1.00
23528091--23528246	42	3.7	42	85	0	177	39	18	10	32	1.84
23530290--23530707	126	3.3	126	95	0	737	31	19	22	26	1.98
23533955--23534002	23	2.1	23	84	0	60	41	35	4	18	1.70
23535110--23535158	3	16.3	3	100	0	98	32	0	0	67	0.91
23535236--23535266	15	2.1	14	94	5	53	35	0	0	64	0.94
23536708--23536747	21	1.9	21	84	0	53	5	22	45	27	1.73
23537604--23537628	7	3.6	7	100	0	50	56	16	0	28	1.41
23538770--23538817	11	4.4	11	80	17	55	41	0	35	22	1.54
23538778--23538820	10	4.0	10	82	14	50	44	0	32	23	1.54
23539209--23539304	33	3.1	33	62	25	82	46	5	4	43	1.45
23551023--23551066	18	2.2	20	84	11	56	38	0	4	56	1.20
23551853--23551891	12	3.4	11	86	10	51	30	0	0	69	0.89
23553615--23553737	5	25.2	5	90	4	171	39	0	4	56	1.18
23554375--23554514	69	2.0	69	91	0	226	25	13	25	35	1.93
23559708--23559749	16	2.5	17	77	18	52	30	0	0	69	0.89
23574582--23574642	18	3.4	18	68	8	52	19	26	29	24	1.99
23574583--23574665	36	2.3	36	89	0	130	21	28	26	22	1.99
23574601--23574662	18	3.5	17	75	16	63	24	27	25	22	2.00
23574806--23574858	24	2.2	24	86	0	70	33	7	7	50	1.59
23584734--23584921	95	1.9	95	84	10	247	36	17	7	38	1.79
23585091--23585121	16	1.9	16	93	0	53	54	9	0	35	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23585174--23585220	20	2.4	19	80	16	51	44	6	2	46	1.40
23587201--23587407	103	2.0	103	95	0	369	29	15	14	40	1.86
23599541--23599596	29	2.0	29	82	10	71	57	1	1	39	1.20
23600403--23600432	3	10.0	3	92	0	51	3	0	63	33	1.11
23600645--23600693	20	2.5	20	83	6	64	59	6	0	34	1.22
23604076--23604120	22	2.0	22	83	8	56	57	8	0	33	1.30
23604097--23604122	12	2.2	12	100	0	52	46	7	0	46	1.31
23604162--23604228	20	3.4	20	80	8	75	58	5	2	32	1.38
23608542--23608579	15	2.4	17	86	8	53	47	5	23	23	1.72
23609747--23609781	2	17.5	2	100	0	70	48	0	0	51	1.00
23613498--23613549	10	5.3	9	82	11	50	23	1	3	71	1.13
23613506--23613541	10	3.5	10	96	3	63	25	2	0	72	0.98
23616488--23616634	25	5.9	25	75	3	125	33	19	27	19	1.96
23616504--23616659	75	2.1	75	83	4	190	34	17	28	18	1.94
23616618--23616666	25	2.0	25	91	0	80	34	16	30	18	1.93
23617154--23617185	2	16.0	2	100	0	64	50	0	0	50	1.00
23619257--23619297	21	2.0	20	85	4	55	53	2	0	43	1.13
23621819--23621868	20	2.7	19	80	20	61	44	2	0	54	1.11
23623150--23623268	34	3.5	34	82	0	139	32	11	15	40	1.83
23623419--23623525	44	2.4	44	75	3	108	23	14	22	39	1.91
23624673--23624714	21	1.9	22	85	9	59	64	0	2	33	1.07
23636106--23636160	24	2.3	24	84	6	67	21	20	29	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23645349--23645621	133	2.1	133	85	0	357	22	23	25	28	1.99
23654863--23655538	307	2.2	299	80	11	764	37	14	8	39	1.77
23657746--23657781	9	3.9	9	88	3	54	66	11	0	22	1.22
23660689--23660908	115	1.9	115	87	9	327	48	17	8	26	1.75
23661836--23661880	23	2.0	23	82	8	56	51	6	4	37	1.49
23667531--23667567	19	1.9	19	94	0	65	5	32	0	62	1.18
23670035--23670069	16	2.1	17	89	5	54	42	11	0	45	1.40
23679090--23679239	42	3.5	42	80	6	160	22	16	29	32	1.95
23679090--23679248	43	3.7	42	80	7	178	22	15	29	32	1.95
23685987--23686034	2	24.0	2	95	0	87	47	0	2	50	1.12
23689776--23689818	18	2.3	19	84	8	52	39	6	6	46	1.58
23699144--23699224	40	2.0	41	85	7	112	25	19	23	30	1.98
23702198--23702264	33	2.0	33	91	0	107	38	10	8	41	1.71
23705984--23706072	26	3.6	25	75	15	78	24	25	19	30	1.98
23710616--23710669	28	1.9	28	92	0	90	35	16	31	16	1.92
23711308--23711360	20	2.7	20	87	0	79	43	13	11	32	1.79
23712624--23712724	52	2.0	51	90	3	159	29	12	16	40	1.86
23715820--23715923	40	2.6	40	82	0	109	21	25	28	25	1.99
23715966--23716030	27	2.3	29	89	7	100	36	0	23	40	1.55
23715978--23716037	27	2.2	27	81	0	84	38	0	16	45	1.48
23717342--23717508	59	2.8	59	84	3	203	50	8	5	35	1.57
23717869--23717909	17	2.4	17	83	4	55	43	4	24	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23718823--23718922	49	2.0	49	92	0	164	24	23	16	37	1.94
23719482--23719554	32	2.2	32	79	13	78	65	1	1	31	1.09
23719860--23719936	40	1.9	41	86	2	111	24	31	22	22	1.98
23720376--23720432	27	2.1	27	87	3	80	68	1	0	29	1.00
23720415--23720440	11	2.4	11	100	0	52	61	0	0	38	0.96
23724749--23724800	24	2.2	24	89	0	77	55	9	1	32	1.43
23726684--23726735	24	2.2	24	86	6	70	57	9	1	30	1.42
23727498--23727540	19	2.3	19	84	8	52	41	0	0	58	0.98
23727455--23727555	45	2.1	48	82	10	120	40	2	1	54	1.27
23727507--23727540	17	1.9	18	88	5	52	44	0	0	55	0.99

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