genome.fa.s12.2.7.7.80.10.50.1000.49.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  49  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)
13514767--13514793	8	3.4	8	100	0	54	11	11	0	77	0.99
13517150--13517185	7	5.1	7	100	0	72	41	0	0	58	0.98
13517150--13517194	21	2.2	21	88	7	67	42	0	0	57	0.98
13523980--13524210	43	5.3	43	85	7	277	25	30	18	25	1.98
13523993--13524168	92	1.9	92	91	0	289	22	31	19	26	1.98
13524093--13524225	42	3.1	41	82	7	151	29	27	15	27	1.96
13525484--13525523	21	1.9	21	94	0	71	40	27	5	27	1.77
13527488--13527523	3	12.3	3	88	5	56	66	0	2	30	1.06
13529283--13529529	88	2.7	89	81	7	282	25	26	16	30	1.97
13529256--13529470	44	4.8	44	72	3	144	27	25	18	29	1.98
13537554--13537593	20	2.0	20	95	0	71	30	7	25	37	1.83
13541162--13541197	3	12.3	3	88	5	56	66	0	2	30	1.06
13542830--13542885	29	1.9	29	85	0	76	44	12	14	28	1.81
13546861--13546901	21	2.0	21	85	9	57	31	0	7	60	1.24
13546867--13547272	120	3.4	120	94	1	699	42	1	4	51	1.32
13547172--13547306	18	8.0	17	69	19	86	39	0	2	57	1.19
13547463--13547559	45	2.2	45	88	5	144	34	29	5	30	1.79
13547539--13547587	16	3.1	16	96	0	89	22	36	4	36	1.73
13547746--13547899	83	1.9	81	89	5	238	28	6	11	53	1.60
13547974--13548270	106	2.9	102	90	3	456	27	11	10	50	1.72
13548890--13548962	15	5.0	15	74	12	62	34	46	0	19	1.50
13548890--13548923	8	4.6	7	86	13	50	32	50	0	17	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13550919--13551147	50	4.7	50	84	4	256	20	31	20	26	1.98
13550919--13551149	97	2.4	97	82	5	270	20	32	20	26	1.98
13552605--13553143	114	4.7	113	87	4	767	26	26	22	25	2.00
13552605--13553143	229	2.4	227	87	4	769	26	26	22	25	2.00
13553043--13553214	73	2.4	72	84	2	211	24	26	22	26	2.00
13554361--13554407	21	2.2	21	85	7	60	23	23	17	36	1.95
13555120--13555207	2	44.5	2	78	10	92	44	5	0	50	1.26
13556937--13556987	21	2.4	21	90	0	75	31	35	7	25	1.85
13557514--13557539	3	8.7	3	100	0	52	30	0	0	69	0.89
13560976--13561072	45	2.2	45	83	3	115	18	16	41	23	1.90
13565520--13565573	3	18.0	3	100	0	108	66	0	0	33	0.92
13565911--13565974	31	2.1	32	85	5	87	46	4	1	46	1.33
13566133--13566176	3	14.7	3	100	0	88	65	0	0	34	0.93
13567384--13567436	26	2.0	26	100	0	106	32	22	15	30	1.94
13572446--13572504	23	2.6	23	79	15	61	35	0	3	61	1.13
13574422--13574478	28	2.1	27	87	9	80	70	1	3	24	1.13
13578528--13578590	16	4.1	15	72	25	51	38	1	3	57	1.24
13578828--13578922	48	2.0	48	95	0	172	41	23	17	17	1.90
13579144--13579197	17	2.9	19	71	20	60	46	16	12	24	1.82
13579127--13579197	36	2.0	36	94	0	124	47	14	12	25	1.79
13579126--13579189	17	3.6	17	72	15	58	48	12	12	26	1.76
13582746--13582811	31	2.1	31	100	0	132	12	21	28	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13583930--13584023	48	2.0	48	91	0	152	41	21	17	20	1.90
13584228--13584291	17	3.6	17	72	15	58	48	12	12	26	1.76
13593023--13593142	63	1.9	63	91	0	195	24	21	28	25	1.99
13596990--13597109	61	2.0	61	81	5	143	40	15	5	37	1.72
13600841--13600880	21	1.9	21	84	0	53	42	12	12	32	1.80
13607583--13607618	15	2.4	15	85	0	54	44	2	13	38	1.59
13625284--13625317	12	2.8	12	87	12	52	61	0	23	14	1.33
13625460--13625517	25	2.3	25	87	3	80	46	13	12	27	1.79
13628277--13628322	14	3.0	14	82	17	56	8	0	13	78	0.97
13635621--13635650	11	2.7	11	100	0	60	16	20	0	63	1.31
13635900--13635976	35	2.3	34	82	8	97	51	5	6	36	1.50
13639161--13639202	20	2.0	21	86	4	59	61	0	0	38	0.96
13651455--13651515	31	2.0	31	100	0	122	32	9	14	42	1.79
13651815--13651873	3	19.7	3	100	0	118	32	0	0	67	0.91
13652103--13652146	20	2.2	20	96	4	81	68	13	13	4	1.36
13657828--13657889	31	2.0	31	96	0	115	33	9	14	41	1.79
13660594--13660898	161	1.9	160	83	4	400	32	15	12	40	1.85
13672674--13672867	96	2.0	96	100	0	388	29	4	28	37	1.77
13673431--13673460	14	2.1	14	93	0	51	46	6	10	36	1.64
13673701--13673907	84	2.5	84	90	1	319	49	15	7	27	1.70
13673984--13674455	159	3.0	157	76	7	443	31	12	17	37	1.88
13680032--13680088	27	2.2	27	81	15	75	29	24	26	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13680039--13680097	27	2.3	27	85	5	86	35	22	25	16	1.95
13680160--13680256	24	4.0	24	72	10	81	34	17	27	20	1.95
13687463--13687567	25	4.2	25	77	9	99	31	19	27	21	1.97
13687463--13687558	50	1.9	51	82	6	124	31	19	26	22	1.98
13687592--13687671	25	3.1	25	77	10	81	35	22	21	21	1.96
13687719--13687834	24	4.8	24	71	12	76	33	17	26	22	1.96
13689591--13689620	15	2.0	15	93	0	51	26	10	0	63	1.26
13690752--13690777	9	2.9	9	100	0	52	23	0	0	76	0.78
13690801--13690847	18	2.5	19	86	13	71	31	2	0	65	1.04
13692370--13692419	25	2.0	25	88	0	73	40	10	16	34	1.81
13693620--13693805	41	4.5	41	97	0	345	23	28	19	27	1.99
13693620--13693848	82	2.8	82	86	4	230	26	26	18	28	1.98
13693620--13693848	123	1.9	123	83	5	302	26	26	18	28	1.98
13696328--13696435	37	3.0	36	86	2	155	26	29	19	24	1.98
13696328--13696435	35	3.0	35	84	5	153	26	29	19	24	1.98
13696806--13696852	22	2.3	20	82	13	60	65	0	2	31	1.04
13696808--13696854	21	2.2	22	88	3	69	70	0	2	27	0.99
13697476--13697584	54	2.0	54	94	0	191	44	14	20	20	1.86
13700205--13700237	17	1.9	17	88	11	50	39	0	0	60	0.97
13716958--13716998	21	1.9	22	90	5	66	9	26	14	48	1.75
13719968--13720094	62	2.0	61	81	11	143	37	3	18	40	1.69
13722208--13722245	5	7.6	5	85	11	51	13	0	2	84	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13722207--13722245	14	2.7	14	88	11	53	12	0	2	84	0.72
13722919--13723010	3	31.0	3	77	10	91	28	3	2	66	1.19
13723456--13723506	24	2.1	25	81	3	59	23	9	3	62	1.42
13723651--13724083	109	4.0	109	90	2	638	31	16	18	33	1.94
13724552--13724581	10	3.0	10	95	0	51	46	3	0	50	1.18
13727411--13727476	28	2.4	27	80	12	73	21	24	19	34	1.96
13733055--13733183	68	1.9	68	95	3	233	51	5	17	26	1.67
13734254--13734338	24	3.5	24	76	9	66	16	25	23	34	1.95
13734305--13734359	23	2.3	24	84	9	69	21	27	23	27	1.99
13740155--13740179	4	6.2	4	100	0	50	76	0	0	24	0.80
13740664--13740790	3	42.7	3	84	7	170	62	1	2	33	1.17
13743590--13743616	14	1.9	14	100	0	54	66	0	3	29	1.09
13745752--13745865	42	2.7	42	83	0	138	12	34	28	24	1.92
13746900--13746983	28	3.0	28	100	0	168	35	14	3	46	1.62
13749594--13749635	18	2.4	18	92	4	68	16	23	40	19	1.91
13754613--13754640	13	2.2	13	100	0	56	85	0	0	14	0.59
13758543--13758579	18	2.1	18	90	5	58	40	5	24	29	1.77
13767325--13767366	20	2.1	20	100	0	84	9	9	28	52	1.65
13774766--13774854	41	2.2	41	86	6	119	29	15	30	24	1.96
13783570--13783608	20	2.0	20	85	5	53	48	2	7	41	1.45
13787611--13787647	11	3.4	11	92	0	56	29	43	5	21	1.75
13794279--13794502	29	7.7	29	80	3	245	20	26	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13794279--13794502	58	3.9	58	84	2	279	20	26	14	37	1.91
13815944--13816040	38	2.6	38	91	0	158	39	34	10	16	1.83
13815944--13816058	38	3.0	38	85	2	124	41	31	11	15	1.82
13818571--13818603	3	11.0	3	100	0	66	66	0	0	33	0.92
13836828--13836900	19	3.8	19	92	0	128	38	12	15	34	1.84
13837968--13838165	98	2.0	98	96	1	362	28	11	24	35	1.90
13844011--13844183	50	3.5	50	69	0	139	30	19	22	27	1.98
13844223--13844508	44	6.7	43	76	11	239	27	21	23	27	1.99
13844221--13844505	89	3.3	83	76	11	238	28	21	22	27	1.99
13844529--13844710	44	4.1	45	66	9	97	28	20	23	28	1.99

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