genome.fa.s4.2.7.7.80.10.50.1000.134.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  134  of  198  ( 23681 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)
42753498--42753661	75	2.2	75	85	2	222	39	19	18	22	1.93
42756801--42757217	36	11.4	36	81	4	428	35	20	15	29	1.93
42756801--42757217	73	5.7	74	80	4	463	35	20	15	29	1.93
42756801--42757208	109	3.7	109	87	1	566	35	20	15	29	1.93
42757175--42757288	39	2.9	39	77	2	113	35	16	14	33	1.89
42757909--42757935	10	2.7	10	100	0	54	25	0	18	55	1.43
42759450--42759498	23	2.1	23	100	0	98	36	8	28	26	1.85
42759803--42759945	25	5.7	25	79	0	133	32	13	19	34	1.90
42768772--42768811	18	2.2	18	90	0	62	62	5	25	7	1.42
42779786--42779815	2	15.0	2	100	0	60	50	0	0	50	1.00
42784134--42784177	21	2.0	22	91	4	72	29	11	27	31	1.91
42785009--42785042	16	2.1	16	88	5	50	23	2	0	73	0.97
42795899--42795934	3	12.0	3	100	0	72	0	33	0	66	0.92
42797115--42797146	13	2.5	13	94	0	55	18	9	12	59	1.59
42810482--42810515	7	4.7	7	85	7	50	14	0	38	47	1.45
42817772--42817878	38	2.8	38	89	0	142	31	13	22	32	1.92
42819285--42819313	2	14.5	2	100	0	58	0	51	0	48	1.00
42825064--42825121	29	2.0	29	100	0	116	31	6	31	31	1.84
42827062--42827126	34	1.9	34	83	0	85	52	23	0	24	1.48
42831547--42831796	24	10.7	24	71	16	150	55	4	6	34	1.46
42831569--42831830	69	3.8	69	77	8	203	53	5	6	34	1.49
42831636--42831829	70	2.8	68	76	8	176	54	5	6	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42832619--42832663	23	2.0	23	83	8	58	44	13	4	37	1.64
42832948--42833047	44	2.2	44	78	5	112	30	25	21	24	1.99
42833148--42833326	44	4.1	44	66	8	112	23	25	22	28	1.99
42833168--42833369	44	4.6	44	69	7	113	25	26	21	26	2.00
42833142--42833430	132	2.2	132	88	0	434	25	25	20	28	1.99
42833432--42833506	35	2.1	35	95	0	132	29	24	18	28	1.98
42833521--42833630	35	3.1	35	89	0	166	30	23	19	26	1.98
42833432--42833595	89	1.8	89	93	0	283	29	24	18	28	1.98
42833591--42834712	45	24.6	45	81	4	1286	30	24	17	28	1.97
42833591--42834712	135	8.2	135	85	4	1431	30	24	17	28	1.97
42834419--42834452	17	2.0	17	94	0	59	38	23	14	23	1.92
42834374--42834497	62	2.0	62	90	3	196	32	25	16	25	1.96
42834333--42834542	107	2.0	107	88	1	314	31	26	15	26	1.95
42834284--42834587	152	2.0	152	90	1	475	31	25	16	27	1.96
42834194--42834677	242	2.0	242	90	1	756	30	25	16	27	1.97
42836285--42837059	45	17.2	45	86	1	1027	30	23	16	28	1.96
42839259--42839307	18	2.8	18	93	3	82	0	24	0	75	0.80
42839259--42839308	6	8.5	6	88	4	66	0	24	0	76	0.80
42839262--42839328	6	11.7	6	84	9	50	5	20	0	73	1.04
42841854--42841888	16	2.2	16	89	0	52	42	20	20	17	1.89
42843712--42843906	23	8.4	23	70	11	85	54	4	6	34	1.46
42843661--42843906	70	3.6	69	75	8	205	52	5	7	34	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42844219--42844266	25	1.9	25	83	8	62	62	2	16	18	1.42
42844719--42844772	19	2.8	19	97	0	99	33	16	11	38	1.84
42850869--42850928	31	1.9	31	83	6	77	26	20	26	26	1.99
42852667--42852779	49	2.3	49	76	0	136	28	13	17	40	1.87
42857510--42857597	42	2.1	42	91	0	140	30	29	10	29	1.90
42860796--42860853	24	2.4	24	100	0	116	58	0	29	12	1.34
42864877--42864934	29	2.0	29	100	0	116	44	24	0	31	1.54
42865135--42865167	17	1.9	17	93	0	57	54	12	15	18	1.71
42875377--42875409	15	2.1	16	94	5	59	33	0	0	66	0.92
42893709--42893745	18	2.2	18	85	9	51	37	16	8	37	1.78
42905159--42905302	76	1.9	76	86	2	209	33	20	13	32	1.91
42906624--42907048	39	11.2	38	85	1	372	32	16	17	33	1.92
42906843--42907048	75	2.8	74	84	0	259	32	16	14	36	1.88
42911931--42912195	39	6.9	39	80	5	272	30	15	20	33	1.93
42912111--42912258	37	3.9	38	76	6	149	30	17	16	35	1.92
42912106--42912311	75	2.8	74	82	3	245	29	17	17	34	1.93
42916666--42916715	14	3.6	14	78	2	57	26	10	26	38	1.87
42918516--42918560	23	2.0	23	82	8	56	35	0	2	62	1.08
42918699--42918748	26	2.0	25	84	4	64	52	0	2	46	1.12
42926840--42926946	36	3.0	36	80	0	115	40	6	21	31	1.79
42933315--42933426	55	2.0	55	96	0	206	55	9	8	26	1.60
42944014--42944063	18	2.8	18	85	14	68	72	0	6	22	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42944010--42944058	14	3.6	14	78	15	57	73	0	4	22	1.00
42946078--42946136	27	2.2	27	96	3	111	35	6	15	42	1.73
42946397--42946462	29	2.2	28	79	12	69	50	4	12	33	1.60
42955944--42956089	49	3.0	49	74	4	141	32	26	18	22	1.97
42966523--42966549	2	13.5	2	100	0	54	51	0	0	48	1.00
42973916--42973967	18	2.9	18	91	0	77	32	5	17	44	1.72
42977314--42977344	13	2.4	13	94	0	53	54	6	32	6	1.51
42977862--42978060	41	4.8	41	87	7	260	36	2	0	61	1.10
42977864--42978023	84	1.9	83	92	3	268	34	2	0	63	1.08
42977913--42978060	52	3.0	52	83	11	181	38	2	0	59	1.09
42977957--42978060	11	9.9	11	71	17	78	39	1	0	58	1.09
42977864--42978060	84	2.4	83	87	5	265	36	2	0	61	1.10
42980948--42980973	13	2.0	13	100	0	52	30	7	23	38	1.83
42987541--42987640	41	2.5	41	88	1	139	25	25	12	38	1.90
42994323--42994355	2	16.5	2	100	0	66	48	0	0	51	1.00
42995482--42995580	41	2.4	41	89	1	146	23	25	13	38	1.91
42996850--42996919	27	2.6	27	83	0	95	21	27	15	35	1.94
42999319--42999350	16	2.0	16	100	0	64	43	18	6	31	1.75
43000400--43000508	23	4.7	23	76	8	96	42	35	2	19	1.66
43002156--43002205	6	8.2	6	93	2	73	62	0	22	16	1.33
43006810--43006943	28	4.8	28	77	4	128	20	26	17	36	1.94
43008834--43008870	19	2.0	19	89	5	58	27	2	21	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43019068--43019140	23	3.2	23	80	0	74	35	13	26	24	1.93
43020480--43020518	20	1.9	21	94	5	71	53	15	5	25	1.62
43023588--43023644	23	2.5	24	80	5	64	43	22	1	31	1.64
43031337--43031372	14	2.5	15	91	8	58	41	2	0	55	1.14
43035049--43035115	27	2.5	27	79	18	93	22	20	14	41	1.89
43037534--43037585	18	2.9	18	91	0	77	44	17	5	32	1.72
43054951--43055056	54	2.0	54	90	0	167	33	18	14	33	1.91
43065767--43065807	19	2.2	19	100	0	82	36	4	14	43	1.67
43065846--43065924	41	1.9	41	97	0	149	29	3	16	50	1.62
43074337--43074398	27	2.3	27	94	0	106	29	20	33	16	1.94
43074542--43074585	21	2.1	21	91	4	72	70	0	2	27	0.99
43074816--43074853	19	2.0	19	89	0	58	50	7	5	36	1.54
43074975--43075023	19	2.6	19	93	0	80	48	12	2	36	1.52
43074952--43075004	27	2.0	27	96	0	97	50	13	0	35	1.41
43074901--43075023	46	2.7	45	82	8	151	50	13	1	34	1.52
43075055--43075226	27	7.1	24	72	24	148	32	1	13	52	1.48
43075058--43075229	49	3.6	49	85	6	235	31	1	13	53	1.47
43075272--43075309	19	2.0	19	89	0	58	36	5	7	50	1.54
43077099--43077134	6	6.0	6	93	0	63	66	2	0	30	1.06
43083245--43083288	18	2.6	16	80	16	52	47	0	2	50	1.13
43084054--43084290	122	2.0	121	90	0	375	35	17	8	38	1.79
43084441--43084498	24	2.4	25	78	18	70	39	0	5	55	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43088142--43088178	9	4.1	9	86	13	58	45	10	10	32	1.74
43090912--43090968	15	3.6	15	72	11	51	50	1	3	43	1.29
43094533--43094755	101	2.2	101	80	7	256	25	15	28	30	1.96
43094572--43094759	51	3.7	49	81	6	216	24	17	27	30	1.97
43094673--43094753	26	3.2	26	62	22	62	24	14	27	33	1.95
43094755--43094853	46	2.2	43	82	12	119	24	19	24	32	1.97
43094978--43095008	16	1.9	16	93	0	53	61	3	16	19	1.48
43099585--43099712	22	5.8	22	89	0	184	27	25	14	32	1.94
43106660--43106687	11	2.5	11	100	0	56	7	39	10	42	1.67
43109841--43109882	15	2.7	16	82	14	52	45	0	2	52	1.13

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