genome.fa.s5.2.7.7.80.10.50.1000.168.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  168  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)
51327151--51327196	17	2.7	17	93	0	74	41	13	15	30	1.85
51329091--51329148	30	1.9	30	100	0	116	37	17	17	27	1.92
51343264--51343314	22	2.4	22	81	15	63	49	0	0	50	1.00
51343273--51343315	22	2.0	22	90	9	70	48	0	0	51	1.00
51345182--51345242	30	2.0	30	83	3	77	44	0	36	19	1.51
51345518--51345548	9	3.4	9	90	0	53	38	22	12	25	1.90
51353870--51354122	87	2.9	86	90	2	382	28	31	18	22	1.97
51353890--51354127	130	1.8	130	83	5	320	28	31	17	22	1.97
51353724--51354127	43	9.4	43	74	6	282	26	28	21	23	1.99
51354505--51354597	21	4.4	21	80	0	105	5	44	16	34	1.70
51354545--51354617	21	3.5	21	81	3	76	6	41	17	34	1.76
51354588--51354734	66	2.2	66	86	4	199	12	29	17	40	1.87
51354627--51354750	66	1.9	66	88	3	187	12	27	18	41	1.87
51361037--51361277	9	27.8	9	68	12	130	31	3	20	45	1.67
51361029--51361123	24	3.8	24	72	21	70	31	3	20	45	1.66
51361422--51361557	53	2.6	53	83	4	193	45	5	11	38	1.62
51361525--51361576	13	4.0	13	92	0	77	42	1	9	46	1.47
51361646--51362255	100	6.1	100	93	1	1044	49	4	7	39	1.50
51362233--51362316	43	1.9	43	87	4	123	47	2	4	45	1.36
51362673--51362740	35	1.9	35	90	0	109	72	11	11	4	1.27
51362656--51362742	7	12.3	7	79	2	93	72	11	11	4	1.26
51362746--51362789	18	2.4	19	84	3	54	56	13	15	13	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51365267--51365377	7	15.9	7	83	3	116	30	48	0	19	1.55
51365476--51365526	14	3.8	14	89	5	79	33	50	0	15	1.44
51365454--51365521	33	2.1	33	83	5	84	33	47	0	19	1.50
51365476--51365533	21	2.8	20	92	5	91	34	48	0	17	1.47
51366234--51366817	114	5.1	112	74	9	504	29	20	16	33	1.94
51366216--51366812	227	2.6	227	89	4	875	29	20	16	33	1.95
51389139--51389179	21	2.0	21	90	0	64	24	19	34	21	1.97
51392799--51392924	6	21.0	6	98	0	243	33	0	16	49	1.52
51393973--51394010	20	1.9	20	84	10	51	55	21	0	23	1.44
51394738--51394766	9	3.2	9	100	0	58	41	34	0	24	1.55
51399416--51399485	34	2.1	34	97	0	131	35	2	11	50	1.53
51400644--51400698	25	2.2	25	90	0	83	12	23	21	41	1.88
51400652--51400770	25	4.8	24	69	18	75	17	23	22	36	1.95
51400661--51400839	50	3.6	50	74	13	136	20	22	20	35	1.96
51403947--51404238	111	2.6	112	90	3	448	33	21	17	28	1.96
51404732--51404781	21	2.4	22	80	16	61	66	6	6	22	1.36
51405840--51405878	15	2.6	15	100	0	78	46	23	25	5	1.73
51407648--51407699	3	17.3	3	100	0	104	32	0	0	67	0.91
51408848--51408973	25	5.2	24	66	29	65	34	3	2	60	1.26
51409063--51409262	48	4.0	48	78	11	215	26	16	14	43	1.86
51409159--51409275	55	2.1	55	85	0	162	32	13	10	43	1.78
51409817--51409910	49	1.9	49	89	2	145	40	13	17	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51415174--51415227	20	2.9	19	81	8	58	46	12	12	27	1.79
51423792--51423866	19	3.8	19	89	6	123	36	17	10	36	1.84
51424411--51424515	45	2.3	45	85	3	140	21	24	25	27	2.00
51424635--51425163	88	6.0	88	90	0	752	23	26	23	26	2.00
51426474--51426527	26	2.0	26	82	10	65	1	18	7	72	1.17
51426485--51426524	16	2.6	14	82	17	53	0	15	5	80	0.88
51431984--51432058	19	3.8	19	86	6	114	36	18	10	34	1.86
51434584--51434680	41	2.4	41	87	5	142	31	19	14	34	1.92
51434915--51435143	41	5.7	41	84	8	310	21	22	23	31	1.98
51435112--51435168	25	2.3	25	93	0	105	26	24	28	21	1.99
51435515--51435561	21	2.2	21	92	0	76	2	46	21	29	1.63
51438576--51438661	43	2.0	43	95	0	154	33	24	17	24	1.96
51441110--51441292	9	20.9	9	75	9	173	32	1	19	46	1.60
51441074--51441292	34	6.3	34	78	9	203	32	1	19	47	1.58
51441110--51441226	62	1.9	62	84	7	157	31	1	19	47	1.60
51441271--51441436	57	2.9	57	91	0	271	40	4	9	46	1.55
51441381--51441812	37	11.6	37	75	11	317	38	5	9	46	1.58
51441324--51441530	94	2.2	94	95	0	369	41	5	8	44	1.58
51441267--51441773	151	3.4	151	93	1	806	39	4	9	46	1.57
51441418--51441587	57	3.0	57	95	0	304	40	5	8	45	1.60
51441615--51441708	18	5.1	18	71	19	68	41	1	9	47	1.43
51441572--51441744	57	3.1	55	84	7	231	38	4	9	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51444260--51444296	19	1.9	19	88	0	56	27	2	40	29	1.70
51445371--51445424	7	7.7	7	80	0	63	46	48	1	3	1.30
51446385--51446552	71	2.3	73	83	6	207	29	24	23	23	1.99
51447409--51447436	2	14.0	2	100	0	56	50	0	0	50	1.00
51473166--51473201	18	1.9	19	88	5	56	44	2	19	33	1.65
51475707--51475827	42	2.9	42	80	4	154	29	17	27	25	1.97
51481439--51481499	25	2.4	25	81	5	70	26	18	27	27	1.98
51481508--51481571	25	2.6	25	78	9	76	31	25	18	25	1.98
51481555--51481639	24	3.5	24	69	13	68	40	18	22	18	1.92
51483066--51483098	16	2.0	17	88	5	50	66	3	21	9	1.33
51486805--51486866	25	2.5	24	82	7	79	27	22	20	29	1.99
51492868--51493118	86	2.9	86	86	1	331	23	21	17	36	1.95
51492857--51493135	87	3.2	86	84	1	351	24	20	18	36	1.94
51494822--51494860	18	2.1	19	85	4	53	25	15	2	56	1.52
51498079--51498225	50	2.9	52	82	5	192	25	18	27	28	1.98
51498220--51498319	45	2.2	45	85	0	146	27	19	22	32	1.97
51510871--51510909	15	2.5	16	91	4	62	51	0	0	48	1.00
51510871--51510910	8	5.1	8	87	6	64	50	0	0	50	1.00
51517173--51517214	2	21.0	2	95	0	75	47	0	2	50	1.14
51521344--51521433	45	2.0	46	93	2	155	34	20	22	23	1.97
51521350--51521516	42	3.9	43	81	6	124	31	22	20	26	1.98
51521933--51521992	12	5.2	12	74	11	63	1	38	20	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51521930--51522025	21	4.4	21	82	7	102	2	41	18	37	1.63
51522450--51522537	44	2.0	44	88	0	131	36	23	15	23	1.94
51523272--51523313	7	5.9	7	88	5	66	42	47	0	9	1.36
51523279--51523322	15	2.9	15	86	0	61	43	50	0	6	1.29
51523268--51523321	22	2.5	22	93	0	99	46	46	0	7	1.31
51523268--51523322	7	7.6	7	80	8	56	45	47	0	7	1.30
51523786--51523826	20	2.0	20	85	0	55	39	46	0	14	1.45
51524187--51524222	18	2.0	18	89	10	56	69	5	0	25	1.10
51524191--51524230	18	2.2	19	86	4	55	70	5	0	25	1.08
51524329--51524984	113	5.8	112	78	6	543	26	23	18	31	1.97
51524329--51524984	228	2.9	227	79	4	581	26	23	18	31	1.97
51529411--51529581	93	1.8	93	92	0	288	43	10	14	30	1.79
51541011--51541057	21	2.2	21	81	7	51	27	27	19	25	1.99
51541091--51541183	30	3.1	30	81	7	109	29	6	19	45	1.75
51543485--51543544	30	2.0	30	83	6	77	36	3	18	41	1.67
51546285--51546334	5	9.8	5	93	2	82	80	0	2	18	0.82
51547110--51547238	49	2.6	49	93	0	213	29	20	18	31	1.96
51559068--51559097	15	2.0	15	100	0	60	86	0	0	13	0.57
51559068--51559112	15	3.1	14	87	12	56	84	2	0	13	0.72
51559404--51559465	28	2.2	27	86	11	81	48	1	9	40	1.46
51559517--51559603	2	44.0	2	73	6	61	47	1	8	43	1.40
51568321--51568457	63	2.2	63	82	2	168	29	19	23	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51569161--51569206	22	2.1	22	91	0	74	15	15	19	50	1.79
51570327--51570357	16	1.9	16	93	0	53	45	6	29	19	1.75
51570760--51570892	61	2.2	60	85	6	173	51	3	3	42	1.35
51570805--51570893	20	4.4	20	70	23	60	51	3	1	43	1.25
51574182--51574228	24	2.0	24	95	0	85	57	4	6	31	1.43
51577459--51578021	294	1.9	295	95	1	1013	33	15	14	37	1.87
51595802--51595832	16	1.9	16	100	0	62	6	9	6	77	1.12
51596904--51596986	34	2.4	34	85	2	121	43	2	13	40	1.57
51603603--51603633	16	1.9	16	93	0	53	9	6	9	74	1.23
51606605--51606682	32	2.4	32	84	0	93	42	5	10	42	1.61

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