genome.fa.s5.2.7.7.80.10.50.1000.45.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  45  of  208  ( 24913 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)
12407413--12409096	910	1.9	902	91	1	2503	38	22	10	28	1.87
12413363--12413409	24	1.9	25	82	4	60	36	25	14	23	1.93
12413661--12414231	191	3.0	189	98	1	1115	30	20	9	39	1.85
12416504--12416601	43	2.3	43	82	3	117	42	19	14	23	1.87
12418461--12418499	20	2.0	20	85	5	53	64	0	5	30	1.15
12421642--12421680	14	2.8	14	88	0	60	38	12	25	23	1.90
12422563--12422867	156	2.0	156	90	1	486	35	21	14	29	1.92
12428502--12428566	6	11.3	6	73	15	57	75	1	0	23	0.89
12430696--12430720	3	8.3	3	100	0	50	0	68	0	32	0.90
12437728--12437915	50	3.6	50	76	4	151	23	28	20	27	1.99
12442208--12442238	16	1.9	16	93	0	53	29	0	45	25	1.54
12442589--12442619	14	2.2	14	100	0	62	29	32	12	25	1.93
12445697--12445753	24	2.3	24	84	3	69	14	43	3	38	1.62
12446471--12446577	19	5.8	18	70	18	60	53	2	2	41	1.30
12446484--12446578	37	2.5	37	81	11	104	53	3	3	40	1.33
12451181--12451274	49	1.9	49	91	0	152	25	22	8	43	1.81
12456256--12456295	19	2.0	20	90	4	64	65	12	7	15	1.47
12469910--12470034	40	3.1	41	81	8	125	34	21	20	23	1.97
12470086--12470359	41	6.6	42	88	2	385	22	21	25	30	1.99
12470763--12470795	14	2.3	15	94	5	59	30	0	33	36	1.58
12473517--12473575	18	3.3	18	63	13	50	42	6	10	40	1.65
12473777--12474166	43	9.1	43	91	0	629	18	17	33	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12474690--12474714	12	2.1	12	100	0	50	36	0	24	40	1.55
12475341--12475365	5	5.0	5	100	0	50	20	0	0	80	0.72
12476844--12476875	17	1.9	16	93	6	55	28	28	18	25	1.98
12479447--12479484	19	2.0	20	90	10	62	18	0	13	68	1.21
12481269--12481314	21	2.2	21	88	0	65	26	19	32	21	1.97
12481501--12481547	19	2.4	19	85	3	58	31	10	4	53	1.55
12485408--12485506	34	3.2	33	62	26	79	37	8	17	37	1.79
12485400--12485521	60	2.0	60	98	0	235	36	7	18	38	1.78
12492268--12492305	20	1.9	20	89	10	60	26	0	13	60	1.33
12493605--12493680	39	2.0	38	86	2	107	35	6	13	44	1.69
12493613--12493697	39	2.2	39	84	0	107	38	5	15	40	1.71
12497146--12497188	22	2.0	22	100	0	86	37	13	25	23	1.92
12500429--12500507	30	2.5	32	83	8	99	34	3	17	44	1.67
12500429--12500508	32	2.5	30	81	15	90	33	3	17	45	1.66
12500449--12500509	32	1.9	32	90	6	97	29	3	21	45	1.67
12503243--12503291	25	2.0	24	84	4	62	12	10	4	73	1.22
12510171--12510225	21	2.6	21	82	5	67	9	16	12	61	1.55
12510824--12510923	31	3.2	30	72	13	87	35	12	11	42	1.77
12511388--12511439	26	2.0	26	88	3	79	53	11	0	34	1.37
12515404--12515872	243	1.9	243	93	1	807	33	24	19	23	1.97
12517206--12517256	3	17.0	3	100	0	102	33	0	0	66	0.92
12519844--12519889	16	2.6	17	80	19	51	45	0	32	21	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12520244--12520280	9	4.1	9	92	0	65	29	10	13	45	1.77
12528855--12528924	37	2.0	34	83	13	88	54	2	2	40	1.30
12529183--12529214	9	3.4	10	87	12	50	40	0	0	59	0.97
12530092--12530144	24	2.2	24	93	0	88	33	24	5	35	1.79
12530440--12530465	4	6.5	4	100	0	52	26	0	0	73	0.84
12534016--12534047	12	2.6	13	85	14	50	37	0	6	56	1.25
12537910--12538169	25	10.6	25	86	4	302	38	19	22	19	1.93
12539147--12539205	5	11.8	5	100	0	118	59	0	0	40	0.97
12539997--12540043	16	2.8	17	81	9	53	72	2	0	25	0.96
12540523--12540583	19	3.3	19	77	13	72	59	3	1	36	1.24
12541533--12541564	3	10.7	3	100	0	64	68	0	0	31	0.90
12562084--12562500	138	3.0	136	92	2	690	41	7	6	44	1.59
12565083--12565131	3	16.7	3	79	12	57	38	0	2	59	1.09
12565086--12565131	13	3.6	13	82	2	58	39	0	2	58	1.10
12565082--12565129	16	3.1	16	74	20	57	39	0	2	58	1.10
12565582--12565615	18	1.9	18	88	5	52	38	0	23	38	1.55
12568862--12568896	7	5.0	7	92	0	61	28	11	31	28	1.92
12579188--12579212	2	12.5	2	100	0	50	48	0	0	52	1.00
12580940--12580981	22	1.9	22	85	9	59	69	2	14	14	1.30
12594950--12595176	45	5.1	44	76	10	201	30	14	24	29	1.95
12594950--12595176	90	2.5	88	83	7	271	30	14	24	29	1.95
12595833--12595894	21	3.2	21	68	25	64	17	54	14	12	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12595825--12595894	36	1.9	36	97	0	131	17	54	17	11	1.71
12595969--12596001	16	2.1	16	94	5	59	18	0	0	81	0.68
12595969--12596001	5	6.4	5	93	6	57	18	0	0	81	0.68
12596125--12596153	9	3.0	10	90	10	51	0	17	0	82	0.66
12599122--12599190	25	2.8	25	86	4	95	21	33	14	30	1.93
12599149--12599204	25	2.2	25	83	0	67	21	30	17	30	1.96
12602555--12602645	41	2.2	41	86	0	128	27	17	25	29	1.97
12602555--12602674	41	2.9	41	81	7	120	27	18	24	30	1.98
12612504--12612628	20	6.2	20	67	10	67	12	24	19	44	1.84
12619152--12619330	51	3.2	58	84	11	257	29	24	13	33	1.93
12621038--12621070	16	2.1	16	94	0	57	36	6	33	24	1.80
12621050--12621139	45	2.0	44	87	6	128	32	5	27	34	1.80
12621283--12621324	15	2.7	16	82	14	52	52	2	0	45	1.13
12621292--12621333	15	2.9	15	82	10	52	52	0	0	47	1.00
12625838--12625877	21	1.9	21	90	10	64	30	0	0	70	0.88
12625835--12625919	25	3.3	25	68	27	70	29	0	3	67	1.08
12625844--12625887	22	2.0	23	82	13	56	34	0	2	63	1.07
12625837--12625898	22	2.8	21	76	16	54	30	0	3	66	1.08
12626985--12627037	22	2.3	23	84	12	74	62	3	0	33	1.13
12627452--12627498	2	23.5	2	100	0	94	48	0	0	51	1.00
12628330--12628363	16	2.1	16	88	0	50	61	0	0	38	0.96
12632908--12633151	50	4.9	50	87	0	335	26	20	31	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12639095--12639156	9	7.4	8	84	15	65	25	3	0	70	1.02
12639091--12639156	25	2.6	25	83	11	89	28	3	0	68	1.05
12639104--12639157	16	3.3	16	85	12	74	27	1	0	70	0.98
12640136--12640173	19	2.0	19	94	0	67	44	13	5	36	1.66
12643549--12643573	13	1.9	13	100	0	50	36	0	16	48	1.46
12646806--12646831	2	13.0	2	100	0	52	50	50	0	0	1.00
12650788--12650817	2	15.0	2	92	0	51	46	0	3	50	1.18
12654627--12654662	18	2.0	18	94	0	63	44	13	16	25	1.85
12655021--12655240	111	2.0	109	94	1	386	30	15	14	40	1.87
12669848--12669888	4	10.2	4	80	19	50	0	24	0	75	0.80
12675050--12675092	22	2.0	21	86	13	61	74	0	4	20	1.00
12675206--12675254	26	1.9	26	87	4	73	57	0	2	40	1.10
12676469--12676505	2	18.5	2	100	0	74	48	0	0	51	1.00
12676528--12676593	17	3.7	17	74	20	55	30	1	0	68	0.99
12676693--12676738	22	2.1	21	84	11	58	23	4	2	69	1.17
12682816--12682905	45	2.0	45	100	0	180	35	13	11	40	1.80
12686774--12686807	13	2.6	13	100	0	68	17	32	29	20	1.96
12687727--12687918	36	5.3	36	88	4	228	38	30	13	17	1.88
12696939--12697002	26	2.5	26	79	5	67	34	20	6	39	1.78
12704403--12704446	12	3.6	12	78	6	52	36	4	18	40	1.71
12704396--12704450	25	2.2	25	96	0	101	34	7	14	43	1.73
12704396--12704434	13	3.1	13	77	7	53	38	5	15	41	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12712266--12712300	18	1.9	18	88	0	52	22	8	25	42	1.82
12712920--12712961	20	2.1	20	86	0	57	47	0	7	45	1.30
12719891--12719977	39	2.3	38	86	5	115	32	14	14	37	1.88
12724397--12724483	39	2.3	38	86	5	115	32	14	14	37	1.88
12724492--12724568	32	2.4	32	80	4	93	24	22	6	46	1.75
12725945--12725992	14	3.4	14	77	5	60	33	4	2	60	1.27
12725990--12726047	2	29.0	2	100	0	116	50	0	0	50	1.00
12725936--12726004	29	2.3	30	87	9	106	40	2	1	55	1.24
12726332--12726389	26	2.2	26	90	0	89	34	6	8	50	1.60
12738197--12738250	7	7.7	7	95	0	99	70	0	29	0	0.88

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   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208