genome.fa.s5.2.7.7.80.10.50.1000.136.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  136  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)
41620348--41620415	8	8.8	8	75	6	59	72	13	2	11	1.24
41620381--41620411	4	7.8	4	92	0	53	77	19	0	3	0.90
41620378--41620416	12	3.2	12	88	0	60	74	15	0	10	1.07
41622436--41622886	40	10.8	40	70	14	275	23	21	23	31	1.98
41622476--41622887	87	4.9	85	70	14	278	23	20	23	31	1.98
41622383--41622937	127	4.4	127	92	0	903	23	20	23	32	1.98
41622941--41623556	100	6.2	100	88	0	851	26	22	20	29	1.99
41622947--41623561	300	2.1	299	89	1	937	26	22	21	29	1.99
41624552--41624594	5	8.6	5	80	10	52	2	16	0	81	0.79
41624536--41624594	16	3.3	18	79	18	61	1	16	1	79	0.89
41625013--41625084	19	3.9	18	78	8	74	6	9	2	80	0.99
41625013--41625083	38	1.9	36	85	5	97	7	9	2	80	1.00
41625014--41625072	27	2.2	26	88	8	84	6	10	3	79	1.03
41628439--41628506	8	8.8	8	75	6	59	72	13	2	11	1.24
41628472--41628502	4	7.8	4	92	0	53	77	19	0	3	0.90
41628469--41628507	12	3.2	12	88	0	60	74	15	0	10	1.07
41637917--41638047	69	1.9	69	85	0	181	42	4	9	42	1.58
41642284--41642337	18	3.1	17	82	10	65	74	7	18	0	1.05
41644722--41644761	12	3.3	12	83	13	55	15	22	40	22	1.91
41646933--41646974	18	2.3	18	95	0	75	9	14	11	64	1.50
41655743--41655820	38	2.1	38	92	0	129	33	34	14	17	1.90
41656299--41656338	21	1.9	21	85	10	55	22	42	0	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41666216--41666247	3	10.7	3	100	0	64	68	0	0	31	0.90
41670905--41670954	15	3.3	15	80	0	55	42	2	16	40	1.59
41673413--41673507	41	2.3	41	88	0	136	28	24	34	12	1.92
41673448--41673525	22	3.7	22	70	13	56	26	25	34	12	1.92
41675347--41675386	2	20.0	2	100	0	80	50	0	0	50	1.00
41676929--41676958	14	2.1	14	93	0	51	46	33	3	16	1.64
41677259--41677900	113	5.6	113	80	7	604	30	17	24	26	1.97
41678415--41678578	80	2.1	79	81	6	188	26	1	27	44	1.64
41679592--41679677	43	2.0	43	90	4	138	25	17	19	37	1.94
41681025--41681063	10	3.9	10	86	0	60	38	0	2	58	1.12
41681528--41681586	13	4.5	13	87	8	75	40	10	1	47	1.47
41681558--41681656	49	2.1	47	84	7	128	45	9	2	43	1.47
41681558--41681665	45	2.4	45	82	14	116	44	10	1	43	1.48
41681683--41681718	19	1.9	18	88	5	54	36	2	0	61	1.11
41681865--41681933	13	5.5	13	81	13	74	43	10	1	44	1.46
41681343--41682043	347	2.0	343	96	1	1285	41	8	2	47	1.49
41682209--41682311	38	2.7	38	87	4	136	44	14	0	39	1.52
41682248--41682327	16	4.5	16	71	20	61	45	18	1	35	1.58
41682248--41682500	9	28.8	9	67	17	140	44	20	1	33	1.63
41682306--41682377	34	2.1	34	86	0	99	48	20	4	26	1.68
41688109--41688154	21	2.2	21	92	0	74	28	21	47	2	1.62
41688495--41688696	42	4.9	41	88	3	287	33	22	21	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41689544--41689609	26	2.4	26	82	7	69	51	1	4	42	1.31
41690811--41690846	19	1.9	18	88	5	54	72	0	27	0	0.85
41690793--41690858	24	2.8	24	82	15	75	72	0	27	0	0.85
41690797--41690879	28	3.1	27	74	15	82	74	0	22	2	0.93
41691192--41691283	15	6.3	15	71	18	70	78	3	17	1	0.95
41691204--41691282	26	2.8	27	78	20	81	77	3	17	1	0.99
41691611--41691650	21	1.9	21	94	0	71	40	7	10	42	1.67
41691780--41692037	18	14.7	18	68	20	95	32	12	10	43	1.78
41691780--41692019	17	13.8	17	69	18	104	32	13	10	43	1.78
41691887--41692044	17	8.9	17	73	13	79	31	12	10	45	1.75
41691926--41691969	22	2.2	20	88	12	63	43	6	11	38	1.67
41691854--41692037	91	2.0	91	85	8	250	33	11	10	44	1.75
41691948--41692044	51	1.9	51	81	12	119	30	11	11	46	1.75
41703924--41704560	75	8.5	74	82	7	632	29	16	18	35	1.93
41704619--41704648	15	1.9	15	93	6	51	73	6	6	13	1.24
41704895--41705026	30	4.4	29	75	7	88	35	18	4	41	1.71
41704925--41705024	30	3.4	29	80	12	105	36	18	4	42	1.69
41706131--41706155	13	1.9	13	100	0	50	80	0	20	0	0.72
41706129--41706220	16	5.2	16	75	17	62	78	3	16	2	0.98
41706132--41706220	20	4.2	20	76	18	83	77	3	16	2	1.01
41706545--41706583	20	2.0	19	90	5	60	41	5	10	43	1.61
41706800--41706842	17	2.5	17	85	7	52	32	16	6	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41706703--41706860	18	9.2	17	70	17	105	34	13	9	42	1.76
41706703--41706861	35	4.7	33	71	18	89	34	13	9	42	1.76
41706839--41706886	25	2.0	25	95	4	89	43	8	10	37	1.69
41706865--41706923	17	3.6	16	76	15	57	27	15	11	45	1.81
41706878--41706934	17	3.5	16	79	9	62	29	15	8	45	1.77
41713958--41714003	23	2.0	23	91	0	74	47	13	8	30	1.72
41714121--41714162	13	3.3	13	78	18	52	38	2	0	59	1.10
41715369--41715413	17	2.8	16	78	18	56	51	0	2	46	1.13
41715409--41715464	19	2.8	20	81	13	62	42	3	3	50	1.37
41715434--41715480	20	2.3	20	78	7	51	42	4	0	53	1.20
41715680--41715835	77	2.0	77	100	0	312	32	23	10	33	1.88
41723084--41723140	29	2.0	29	96	0	105	19	24	36	19	1.94
41750771--41750856	9	9.8	10	70	27	54	62	1	1	34	1.10
41750790--41750896	18	5.8	17	72	20	81	62	2	0	33	1.16
41750788--41750865	28	2.9	27	81	16	90	61	2	1	34	1.18
41750794--41750890	10	10.0	10	76	11	53	59	3	1	36	1.20
41750794--41750920	66	1.9	64	80	10	141	62	3	0	33	1.17
41751542--41751600	24	2.5	24	81	13	68	32	1	3	62	1.21
41752004--41752038	17	2.1	17	100	0	70	37	22	5	34	1.78
41758559--41758602	22	2.0	22	95	0	79	38	0	20	40	1.53
41761976--41762028	22	2.3	24	81	12	67	11	11	1	75	1.13
41762230--41762282	21	2.5	21	80	14	56	28	3	5	62	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41762586--41762628	12	3.7	11	82	14	52	39	2	0	58	1.11
41762586--41762628	15	2.7	15	82	10	59	39	2	0	58	1.11
41765378--41765415	19	2.0	19	89	0	58	36	28	7	26	1.84
41767435--41767485	24	2.1	24	88	0	75	25	23	5	45	1.75
41767491--41767648	33	4.7	33	66	12	88	29	22	14	33	1.94
41767479--41767718	101	2.4	101	88	0	354	30	22	14	32	1.94
41769620--41769669	11	4.4	11	78	9	55	64	4	0	32	1.12
41772519--41772565	5	9.4	5	82	17	62	40	0	17	42	1.49
41775570--41775606	17	2.1	18	90	5	58	78	0	18	2	0.87
41781869--41781928	25	2.4	25	77	20	72	61	0	1	36	1.06
41783993--41784025	3	11.0	3	100	0	66	33	0	0	66	0.92
41784810--41784856	12	3.9	12	78	10	51	36	2	17	44	1.60
41785789--41785847	30	1.9	31	86	3	84	45	3	20	30	1.67
41789438--41789770	50	6.6	49	77	9	244	26	19	29	24	1.98
41791252--41791299	23	2.1	23	92	0	78	47	22	4	25	1.69
41793558--41794260	44	15.4	43	68	14	274	32	18	21	28	1.96
41793647--41794260	89	6.7	88	69	14	278	31	18	21	28	1.97
41793974--41794154	94	1.9	95	80	4	213	35	14	20	28	1.93
41793970--41794257	45	6.3	45	70	13	187	34	16	19	30	1.94
41795685--41795771	26	3.3	26	85	3	102	29	3	3	63	1.27
41795703--41795789	26	3.4	24	76	12	66	33	4	3	58	1.35
41795773--41795821	19	2.5	21	71	21	52	40	8	0	51	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41795829--41795920	25	3.7	25	77	7	89	21	2	4	71	1.14
41798189--41798236	23	2.1	23	100	0	96	25	4	27	43	1.72
41798836--41798877	21	2.1	20	82	8	50	52	2	23	21	1.59
41798931--41798975	19	2.4	19	100	0	90	40	4	24	31	1.75
41799711--41799766	28	1.9	30	82	7	71	42	1	1	53	1.21
41800718--41800746	11	2.7	11	94	5	51	37	0	0	62	0.96
41808879--41808916	12	3.5	11	82	10	51	57	0	0	42	0.98
41809210--41809254	22	2.0	22	87	8	65	40	11	4	44	1.60
41821412--41821447	13	2.8	13	91	4	56	52	11	0	36	1.37
41831023--41831165	72	2.0	72	83	5	182	25	22	16	35	1.95

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