genome.fa.s11.2.7.7.80.10.50.1000.54.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  54  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)
16482327--16482354	14	2.0	14	100	0	56	57	0	0	42	0.99
16482454--16482493	20	2.0	20	90	0	62	50	12	10	27	1.72
16482477--16482516	14	2.9	14	84	0	53	42	17	7	32	1.77
16505761--16505791	2	15.5	2	93	0	53	54	0	0	45	0.99
16506881--16506951	36	2.0	35	91	5	117	71	0	11	16	1.13
16507813--16507970	44	3.6	43	77	6	138	29	21	21	27	1.99
16508103--16508214	45	2.6	42	81	9	127	31	19	16	32	1.95
16508243--16508499	44	5.7	45	71	15	147	30	21	17	30	1.96
16508424--16508720	85	3.4	85	70	12	247	30	21	17	30	1.96
16508340--16508818	181	2.6	180	86	3	674	31	20	17	31	1.95
16510430--16510545	52	2.3	52	78	13	125	12	22	12	53	1.70
16526023--16526088	28	2.3	29	79	7	73	63	3	0	33	1.10
16526023--16526131	10	11.6	9	72	13	67	66	1	2	29	1.16
16526065--16526163	28	3.4	28	76	12	76	59	1	6	33	1.29
16526096--16526188	48	1.9	48	83	12	120	55	1	9	33	1.39
16526382--16526444	9	6.9	9	76	8	65	31	1	1	65	1.12
16526382--16526444	19	3.4	19	80	8	76	31	1	1	65	1.12
16526837--16526901	27	2.4	26	80	7	76	64	0	33	1	1.03
16526840--16526889	22	2.3	22	83	12	68	62	0	36	2	1.07
16527477--16527541	21	3.1	21	72	12	71	55	0	3	41	1.15
16534870--16535106	43	5.6	43	81	6	261	34	22	16	27	1.95
16537384--16537413	1	30.0	1	100	0	60	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16539951--16540000	23	2.2	23	82	10	59	52	0	4	44	1.20
16540014--16540062	19	2.5	19	93	3	80	16	2	6	75	1.09
16540376--16540443	21	3.2	21	82	2	73	47	29	0	23	1.52
16540897--16540998	38	2.6	39	87	4	152	28	24	18	28	1.98
16543394--16543462	32	2.2	32	94	2	122	39	5	10	44	1.62
16544529--16544572	7	6.1	7	85	15	63	15	0	0	84	0.63
16544537--16544584	22	2.1	23	85	11	64	18	2	0	79	0.84
16544524--16544588	14	4.8	13	76	12	51	18	1	1	78	0.91
16544524--16544589	6	11.0	6	76	15	57	18	1	1	78	0.90
16545549--16545578	9	3.4	9	95	4	53	93	0	6	0	0.35
16545552--16545581	10	3.1	10	90	9	53	90	0	10	0	0.47
16549420--16549451	14	2.3	14	94	0	55	37	0	15	46	1.46
16554601--16554654	27	2.0	27	100	0	108	22	11	11	55	1.66
16557732--16557758	14	1.9	14	100	0	54	51	7	3	37	1.48
16557751--16557791	20	2.0	20	90	0	64	73	2	0	24	0.96
16557758--16557796	6	6.2	6	82	11	51	76	2	0	20	0.90
16568865--16568906	3	14.0	3	100	0	84	66	0	0	33	0.92
16573280--16573358	13	6.0	13	75	8	61	41	16	0	41	1.48
16573280--16573351	27	2.7	25	80	16	74	43	16	0	40	1.48
16573334--16573400	13	5.0	13	77	13	73	35	10	1	52	1.45
16573331--16573400	28	2.6	27	74	14	81	34	11	1	52	1.46
16573278--16573403	41	3.1	41	85	5	141	38	16	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16580707--16580830	40	3.1	39	75	3	122	39	19	17	23	1.92
16580875--16581051	40	4.3	40	87	2	237	22	19	27	29	1.98
16580875--16581059	81	2.3	81	86	3	246	21	19	27	31	1.97
16580963--16581161	110	1.8	109	83	5	267	22	19	29	29	1.98
16585219--16585389	43	4.0	43	91	0	243	21	17	32	28	1.96
16587290--16587358	27	2.7	25	84	4	75	21	27	23	27	1.99
16593262--16593329	31	2.3	30	84	5	84	42	8	11	36	1.73
16595524--16595596	30	2.4	30	88	4	103	26	23	10	39	1.87
16595584--16595685	30	3.4	30	86	2	143	19	27	11	41	1.86
16595553--16595685	60	2.2	60	82	9	164	21	26	12	40	1.88
16595584--16595700	60	2.0	60	88	6	175	18	27	13	40	1.89
16598170--16598210	21	2.0	21	90	9	66	51	14	4	29	1.63
16602116--16602302	50	3.7	48	78	9	169	29	26	16	27	1.96
16604134--16604171	19	2.1	18	85	14	51	52	2	2	42	1.29
16607572--16607650	41	1.9	41	92	0	131	26	22	20	30	1.98
16608373--16608420	2	24.0	2	93	0	78	45	2	0	52	1.12
16625845--16625873	14	2.1	14	100	0	58	62	0	0	37	0.96
16633972--16634007	18	1.9	18	88	5	54	30	11	22	36	1.89
16640036--16640100	28	2.3	29	83	2	78	38	9	3	49	1.51
16640179--16640237	31	1.9	31	86	13	86	35	6	0	57	1.25
16641916--16641941	13	2.0	13	100	0	52	30	7	15	46	1.74
16641971--16642012	19	2.2	19	83	8	50	28	21	9	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16644881--16644915	7	5.0	7	86	13	54	68	0	17	14	1.21
16645288--16645312	13	1.9	13	100	0	50	12	24	8	56	1.62
16646171--16646796	89	7.0	89	93	1	1060	31	17	23	26	1.97
16657939--16658002	33	1.9	33	96	0	119	39	3	17	40	1.65
16663843--16663939	33	3.0	33	82	7	110	21	11	45	21	1.83
16665449--16665580	49	2.6	50	90	3	212	62	14	2	20	1.42
16665449--16665574	50	2.5	49	94	2	216	61	15	2	20	1.44
16665456--16665537	16	5.0	17	71	15	66	64	10	1	23	1.32
16665839--16665924	31	2.6	34	80	14	99	37	29	0	33	1.58
16666273--16666305	11	3.0	11	86	13	50	18	27	39	15	1.90
16683206--16683270	33	2.0	33	96	0	121	43	24	10	21	1.84
16692811--16692944	40	3.3	41	76	7	130	21	16	28	33	1.95
16693869--16694111	50	4.7	50	82	5	245	27	21	27	23	1.99
16698766--16698800	14	2.5	14	90	0	52	31	0	14	54	1.40
16707756--16708004	41	6.1	41	84	1	293	36	14	27	20	1.92
16707771--16707916	20	7.2	20	65	10	53	37	16	28	17	1.92
16707913--16707978	21	3.2	21	71	4	62	36	9	28	25	1.87
16707926--16707985	21	3.0	20	69	13	59	38	11	28	21	1.89
16712274--16712311	20	2.0	20	89	5	60	42	5	13	39	1.66
16715125--16715202	25	3.2	25	72	22	74	39	17	0	42	1.50
16716497--16716538	11	3.8	11	78	12	50	45	0	11	42	1.41
16716501--16716552	22	2.4	22	96	0	95	42	0	11	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16722734--16722799	3	22.0	3	100	0	132	0	33	0	66	0.92
16725575--16725635	20	3.3	19	68	17	56	45	19	1	32	1.60
16725562--16725635	36	2.1	36	92	0	121	44	16	1	37	1.56
16725730--16725766	6	6.2	6	100	0	74	51	16	0	32	1.45
16726933--16726982	17	2.9	17	82	14	66	2	22	0	76	0.89
16726946--16726982	13	2.8	13	95	0	65	2	18	0	78	0.87
16727004--16727044	16	2.6	16	84	0	55	29	4	0	65	1.13
16728494--16728599	43	2.5	43	78	9	110	40	23	16	19	1.91
16750389--16750448	31	1.9	31	83	6	77	43	8	13	35	1.74
16751415--16751520	43	2.5	43	78	9	110	40	23	16	19	1.91
16756736--16756789	28	1.9	28	96	0	99	38	25	16	18	1.92
16757125--16757173	9	5.5	8	81	18	53	24	10	22	42	1.84
16757125--16757173	18	2.7	18	96	0	89	24	10	22	42	1.84
16763082--16763195	53	2.2	53	96	0	210	14	21	11	52	1.72
16765020--16765075	21	2.7	21	85	0	76	26	7	35	30	1.83
16765227--16765301	22	3.3	22	69	20	55	50	2	0	46	1.15
16779710--16779770	27	2.3	27	100	0	122	27	19	32	19	1.96
16783855--16783900	22	2.1	22	83	0	56	56	13	10	19	1.66
16783920--16784074	82	1.9	82	89	1	240	42	15	17	24	1.88
16786566--16786666	50	2.0	50	98	0	193	29	20	13	35	1.92
16787904--16787954	21	2.5	21	83	3	68	41	21	9	27	1.84
16790675--16790722	25	1.9	25	100	0	96	33	25	6	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16790700--16790794	42	2.2	44	90	3	149	38	16	4	40	1.68
16790774--16790809	15	2.4	15	100	0	72	41	11	0	47	1.39
16790999--16791054	16	3.5	16	90	7	87	35	10	0	53	1.36
16793869--16794005	17	7.4	17	66	19	69	32	3	14	49	1.61
16793855--16793919	22	3.2	22	70	20	77	30	6	15	47	1.70
16793922--16794015	17	5.1	19	65	23	65	34	3	14	47	1.61
16793864--16794014	37	4.0	37	89	5	214	33	3	15	47	1.64
16794012--16794110	9	10.6	9	85	8	135	22	8	31	38	1.83
16794012--16794112	29	3.6	29	87	5	161	21	7	30	39	1.82
16795889--16796006	40	3.0	40	77	7	134	31	22	24	21	1.98

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