genome.fa.s11.2.7.7.80.10.50.1000.191.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  191  of  210  ( 25152 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)
56261872--56261924	22	2.4	22	84	6	72	33	32	0	33	1.58
56261952--56262013	29	2.1	29	87	3	88	38	1	1	58	1.18
56261956--56262014	30	2.0	28	90	6	91	42	0	1	55	1.09
56261960--56262021	28	2.1	30	85	5	83	41	0	1	56	1.09
56261959--56262021	29	2.1	30	85	8	85	41	0	1	57	1.08
56263987--56264034	24	2.0	24	87	0	69	29	35	16	18	1.93
56264320--56264649	29	11.5	29	80	4	341	45	24	0	29	1.58
56264536--56264649	23	4.4	23	72	23	102	42	27	0	30	1.56
56264320--56264636	59	5.4	59	89	1	417	45	23	0	30	1.58
56264594--56264649	23	2.4	23	100	0	112	42	30	0	26	1.56
56267774--56268054	124	2.3	124	89	4	424	32	22	16	29	1.95
56270794--56270852	30	2.0	30	82	0	73	69	5	6	18	1.30
56271977--56272015	20	2.0	20	89	0	60	61	0	0	38	0.96
56273489--56273714	43	5.3	42	76	5	186	30	16	15	36	1.90
56273587--56273681	42	2.3	42	85	3	120	30	16	17	34	1.93
56273489--56273707	84	2.6	86	79	5	230	30	16	15	36	1.90
56289025--56289146	23	5.3	23	86	3	174	31	26	19	22	1.98
56289025--56289144	46	2.6	46	90	0	195	31	26	20	21	1.98
56290489--56290599	41	2.8	40	89	5	156	24	19	22	33	1.97
56290527--56290624	41	2.4	41	89	1	144	27	17	23	31	1.97
56292201--56292248	23	2.1	23	88	0	69	25	29	16	29	1.97
56294963--56295078	45	2.6	45	78	5	126	43	15	18	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56295060--56295221	45	3.6	45	83	3	191	47	12	17	22	1.81
56295098--56295270	92	1.9	92	80	2	204	45	13	20	20	1.85
56299868--56299900	14	2.3	15	89	5	50	21	9	18	51	1.73
56300927--56301052	40	3.2	40	100	0	252	10	19	17	53	1.72
56303294--56303325	2	16.0	2	100	0	64	50	0	0	50	1.00
56305941--56305967	2	13.5	2	100	0	54	51	0	0	48	1.00
56307174--56307213	17	2.2	17	86	8	53	67	2	0	30	1.04
56309331--56309433	53	1.9	53	100	0	206	25	19	14	40	1.89
56326536--56326772	119	2.0	119	99	0	465	18	18	18	43	1.88
56326826--56326859	16	2.1	16	88	0	50	67	2	14	14	1.34
56329184--56329243	25	2.4	25	88	2	86	18	1	23	56	1.50
56331006--56331195	63	3.0	63	93	3	330	32	13	23	30	1.93
56331009--56331195	61	3.0	61	94	1	320	32	13	23	29	1.94
56338583--56338612	2	15.0	2	92	0	51	46	0	3	50	1.18
56345502--56345544	17	2.4	19	85	11	56	41	2	0	55	1.12
56347719--56347763	2	22.5	2	95	0	81	48	0	0	51	1.00
56348320--56348432	60	1.9	60	86	0	163	25	13	9	51	1.71
56348636--56348667	4	7.8	4	96	3	55	75	3	0	21	0.95
56348840--56348978	31	4.5	32	76	15	141	44	11	19	24	1.83
56348785--56348978	91	2.1	92	85	4	268	43	13	20	22	1.87
56356084--56356108	12	2.1	12	100	0	50	68	0	0	32	0.90
56356748--56356824	29	2.5	31	87	4	104	46	12	14	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56357203--56357279	27	2.9	27	82	0	91	22	27	24	25	2.00
56357363--56357413	18	2.8	18	84	0	75	68	0	27	3	1.07
56361487--56361541	3	18.7	3	96	3	103	0	32	0	67	0.91
56361693--56361751	31	1.9	31	92	0	100	18	35	27	18	1.94
56368316--56368377	23	2.7	23	80	11	65	75	3	14	6	1.12
56373365--56373393	9	3.3	9	95	4	51	65	0	0	34	0.93
56377342--56377390	11	4.5	11	82	5	55	73	6	6	14	1.22
56377342--56377390	21	2.3	22	89	3	73	73	6	6	14	1.22
56377850--56378022	91	1.9	92	84	5	235	32	8	14	43	1.76
56379225--56379570	192	1.8	192	89	0	548	41	7	24	25	1.81
56390965--56392037	99	10.8	99	97	0	1975	21	19	25	33	1.97
56404286--56404314	11	2.5	12	94	5	51	58	3	0	37	1.15
56404286--56404334	23	2.1	23	81	7	55	59	2	0	38	1.09
56405871--56405935	30	2.2	31	91	5	107	43	12	0	44	1.41
56406227--56406310	35	2.4	36	86	4	109	30	34	13	21	1.91
56406377--56406452	28	2.7	28	82	8	84	28	17	27	26	1.97
56406405--56406453	14	3.5	14	72	10	55	26	18	26	28	1.98
56409448--56409714	3	87.7	3	69	12	100	58	2	9	29	1.45
56409448--56409605	66	2.4	66	93	0	262	59	1	10	29	1.38
56409580--56409641	25	2.5	25	81	5	72	59	4	1	33	1.28
56409511--56409676	28	5.9	28	71	12	99	59	3	6	30	1.40
56409778--56409816	13	2.8	13	88	7	51	79	0	7	12	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56410249--56410296	24	2.0	24	100	0	96	20	20	33	25	1.97
56411171--56411413	44	5.6	44	73	5	188	27	21	22	28	1.99
56411161--56411418	88	3.0	86	77	7	288	27	21	22	28	1.99
56411430--56411784	45	8.0	46	82	10	427	22	23	25	28	1.99
56411423--56411779	89	4.0	89	88	5	438	22	23	26	28	1.99
56414025--56414158	66	2.0	64	81	8	153	14	28	17	38	1.90
56416368--56416424	10	5.6	10	80	2	69	35	1	15	47	1.56
56423072--56423114	21	2.0	21	90	0	68	37	11	13	37	1.82
56423773--56424061	107	2.7	107	92	0	479	24	5	24	45	1.75
56423965--56424009	12	4.0	11	78	16	56	17	0	20	62	1.33
56423968--56424009	11	3.7	12	78	9	52	19	0	19	61	1.34
56423963--56424037	22	3.3	23	76	14	75	17	4	21	57	1.56
56429523--56429549	11	2.5	11	100	0	54	22	7	18	51	1.70
56430958--56431085	62	2.0	64	82	10	156	45	3	3	48	1.34
56431007--56431135	47	2.9	43	67	21	102	47	3	3	45	1.36
56431251--56431280	16	1.9	15	93	6	51	40	0	10	50	1.36
56431151--56431688	120	4.5	120	96	0	927	42	2	6	49	1.40
56431272--56431306	18	2.0	17	88	5	52	45	0	0	54	0.99
56431371--56431400	16	1.9	15	93	6	51	40	0	10	50	1.36
56431392--56431426	18	2.0	17	88	5	52	45	0	0	54	0.99
56431429--56431618	66	3.1	65	68	20	197	43	2	6	47	1.44
56431525--56431571	16	3.0	16	78	12	53	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56431645--56431686	15	2.7	16	82	14	52	45	0	2	52	1.13
56431636--56431677	15	2.9	15	82	10	52	47	0	0	52	1.00
56434309--56434386	38	2.1	38	100	0	156	28	20	10	41	1.85
56435497--56435670	87	2.0	87	98	0	339	31	18	17	32	1.94
56435955--56436134	43	4.2	43	78	7	170	31	22	17	28	1.97
56435978--56436154	43	4.1	43	77	5	144	29	22	18	28	1.97
56436320--56436381	28	2.2	29	81	18	78	48	32	0	19	1.49
56436562--56436659	40	2.4	41	81	8	121	28	22	18	30	1.97
56436701--56436810	40	2.7	41	81	2	134	26	23	19	30	1.98
56436498--56436933	152	2.8	150	86	5	545	28	23	16	31	1.96
56436488--56436933	154	2.9	153	83	8	577	28	23	16	31	1.96
56436875--56436972	40	2.4	41	86	5	128	24	27	20	27	1.99
56436875--56437002	41	3.2	40	84	5	150	22	27	21	28	1.99
56444261--56444310	24	2.0	25	84	7	66	58	6	0	36	1.23
56444998--56445176	87	2.1	87	84	4	227	41	18	19	20	1.91
56450650--56450696	18	2.5	19	79	6	51	55	2	6	36	1.37
56450816--56450844	3	9.7	3	100	0	58	65	0	0	34	0.93
56453128--56453168	20	2.0	20	86	9	57	43	2	2	51	1.28
56453167--56453202	19	1.9	19	88	5	56	38	2	8	50	1.47
56453349--56453388	14	2.6	16	76	15	57	40	12	12	35	1.81
56456969--56457002	15	2.3	14	90	10	50	29	0	0	70	0.87
56458368--56458456	31	2.9	31	71	6	81	44	17	1	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56460948--56461003	29	1.9	29	88	0	85	33	1	7	57	1.37
56462930--56462963	12	2.9	12	91	4	52	61	8	5	23	1.47
56465815--56465868	27	2.0	27	96	0	99	42	14	1	40	1.57
56466171--56466195	12	2.1	12	100	0	50	24	8	52	16	1.70
56467686--56467878	60	3.2	58	78	10	156	49	12	17	20	1.79
56467769--56467878	31	3.6	30	75	4	105	50	8	18	23	1.73
56473777--56473801	7	3.6	7	100	0	50	48	0	0	52	1.00
56478709--56478750	23	1.9	23	85	9	61	28	14	33	23	1.94
56479512--56479549	19	2.0	19	100	0	76	31	10	10	47	1.72
56489120--56489184	33	1.9	33	81	9	78	32	7	1	58	1.36

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   
          209   210