genome.fa.s11.2.7.7.80.10.50.1000.130.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  130  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)
39477126--39477472	51	7.2	49	71	14	206	34	19	17	28	1.94
39477212--39477301	45	2.0	44	86	2	126	37	18	13	30	1.89
39479017--39479049	4	8.2	4	93	0	57	24	0	3	72	0.98
39479123--39479181	3	18.7	3	76	10	55	27	3	1	67	1.16
39479150--39479183	17	1.9	18	94	5	61	29	0	0	70	0.87
39479123--39479220	24	4.0	25	77	17	84	29	2	2	66	1.14
39480238--39480271	16	2.1	16	88	0	50	64	2	0	32	1.08
39482273--39482476	83	2.5	82	89	3	320	51	15	5	26	1.66
39486459--39486699	50	4.7	50	80	3	239	24	27	20	27	1.99
39488058--39488095	18	2.1	18	90	0	58	13	63	2	21	1.42
39488122--39488167	24	1.9	24	86	0	65	41	36	0	21	1.54
39492776--39492818	21	2.0	22	82	13	54	0	32	2	65	1.06
39494672--39494724	25	2.1	25	85	3	70	50	11	5	32	1.61
39495783--39495821	18	2.2	18	100	0	78	30	0	28	41	1.57
39496658--39496717	28	2.1	28	84	0	75	28	18	16	36	1.93
39502438--39502466	14	2.0	15	93	6	51	0	44	0	55	0.99
39512879--39512947	35	2.0	35	94	0	120	26	11	23	39	1.88
39533825--39533858	17	2.0	17	88	0	50	61	8	8	20	1.52
39542475--39542740	27	9.9	27	90	0	372	41	20	21	17	1.90
39543087--39543167	28	2.9	28	83	0	99	20	23	24	30	1.99
39543551--39543614	31	2.1	31	96	0	119	48	6	6	39	1.54
39553010--39553039	7	4.4	7	91	8	53	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39553010--39553035	13	2.0	13	100	0	52	76	0	0	23	0.78
39553056--39553095	11	3.5	11	86	6	53	75	2	2	20	1.04
39562469--39562663	50	3.9	50	79	3	187	22	26	22	28	1.99
39564063--39564111	21	2.3	21	86	6	64	38	28	16	16	1.90
39566426--39566519	47	2.0	47	100	0	188	29	14	21	34	1.93
39568010--39568042	16	2.0	17	88	5	50	27	0	3	69	1.03
39571275--39571317	21	2.0	21	82	8	52	30	9	9	51	1.65
39573583--39573621	20	2.0	20	84	0	51	46	5	17	30	1.70
39575308--39575379	33	2.2	33	87	5	101	11	27	6	54	1.61
39575460--39575510	23	2.2	24	82	10	61	9	23	1	64	1.34
39578481--39578565	46	1.9	43	85	7	116	32	27	16	23	1.96
39581450--39581531	42	2.0	42	85	4	112	30	23	15	30	1.96
39584222--39584253	16	2.0	16	93	0	55	25	15	0	59	1.36
39587008--39587057	18	2.8	18	84	6	66	32	40	14	14	1.85
39604918--39604952	18	1.9	18	94	0	61	11	5	5	77	1.12
39605891--39605924	18	1.9	18	88	5	52	20	2	2	73	1.09
39610040--39610188	27	5.5	27	81	7	160	18	21	20	39	1.92
39610043--39610188	54	2.7	54	87	4	197	18	21	19	40	1.92
39611514--39611575	30	2.1	30	81	6	72	29	19	25	25	1.99
39611680--39611771	26	3.5	26	80	5	123	34	25	21	18	1.96
39611970--39612418	27	16.7	27	79	4	247	22	16	20	40	1.90
39611979--39612418	54	8.2	54	80	5	444	22	16	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39611984--39612418	81	5.4	80	79	6	398	22	16	19	41	1.90
39613462--39613529	36	1.9	36	82	8	86	19	39	2	38	1.67
39617038--39617067	15	1.9	16	93	6	53	33	0	0	66	0.92
39617820--39617855	17	2.1	17	89	0	54	38	11	2	47	1.54
39620263--39620438	50	3.5	50	83	0	217	26	23	30	19	1.98
39620702--39620750	20	2.5	20	81	15	66	57	6	24	12	1.58
39620967--39621012	24	1.9	24	100	0	92	23	13	28	34	1.92
39627989--39628167	50	3.5	50	86	4	205	25	18	30	25	1.98
39628475--39628523	20	2.5	20	78	15	57	55	6	26	12	1.60
39631131--39631170	21	1.9	21	89	0	62	55	0	7	37	1.29
39635466--39635509	22	2.0	21	86	4	61	18	6	0	75	1.02
39635476--39635509	14	2.3	15	95	5	61	14	8	0	76	1.01
39637011--39637045	9	4.1	8	86	13	52	62	11	14	11	1.54
39640005--39640053	22	2.2	23	78	10	57	57	2	0	40	1.10
39640026--39640090	32	2.0	33	88	8	98	61	4	0	33	1.16
39652473--39652497	11	2.3	11	100	0	50	48	16	0	36	1.46
39655017--39655042	2	13.0	2	100	0	52	0	0	50	50	1.00
39660377--39660450	37	2.0	37	94	0	130	45	12	17	24	1.82
39674665--39674933	27	10.0	26	75	10	186	46	19	11	23	1.82
39674665--39674933	53	5.0	52	76	9	213	46	19	11	23	1.82
39674673--39674908	80	2.9	80	83	8	291	45	19	11	23	1.82
39675129--39675203	26	2.9	26	87	0	105	14	20	22	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39675316--39675448	28	4.8	28	78	3	142	25	21	23	29	1.99
39675316--39675448	56	2.4	56	88	0	194	25	21	23	29	1.99
39675549--39675618	22	3.2	22	93	0	113	25	27	17	30	1.97
39681939--39682323	27	14.3	26	81	9	339	44	18	14	21	1.86
39681918--39682323	54	7.5	54	82	6	398	44	19	14	21	1.86
39681939--39682323	81	4.8	81	79	8	394	44	18	14	21	1.86
39682516--39682639	26	4.8	26	83	2	151	16	17	22	42	1.89
39682751--39682861	28	4.0	28	86	8	147	23	22	23	30	1.99
39686126--39686154	14	2.1	14	100	0	58	20	6	20	51	1.70
39692199--39692314	46	2.6	45	91	6	184	32	16	23	27	1.96
39699593--39699750	29	5.4	29	83	6	196	41	10	24	24	1.85
39699674--39699780	29	3.7	28	81	12	94	41	11	24	23	1.87
39699593--39699779	87	2.1	88	82	9	224	40	11	24	23	1.87
39699594--39699779	58	3.2	57	81	7	189	40	11	24	23	1.87
39699739--39699871	29	4.6	29	82	5	135	37	12	27	22	1.90
39705725--39705790	29	2.3	29	91	0	114	37	12	25	24	1.90
39705776--39706011	29	8.1	29	73	8	156	38	15	24	22	1.93
39705747--39705940	87	2.2	87	84	4	239	39	13	24	22	1.90
39714812--39714934	28	4.3	29	78	5	99	25	16	20	38	1.92
39718124--39718203	20	4.0	20	69	9	63	18	28	12	40	1.87
39718138--39718283	41	3.6	41	87	0	193	20	30	13	35	1.91
39722403--39722467	32	2.1	32	97	2	123	30	9	12	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39722763--39722822	30	2.1	27	81	9	66	23	6	3	66	1.30
39728629--39728693	32	2.1	32	91	2	105	30	9	13	46	1.75
39733477--39733538	27	2.3	27	97	0	115	41	22	19	16	1.89
39733477--39733568	27	3.4	26	87	3	85	40	20	17	21	1.92
39736306--39736386	41	2.0	41	85	4	110	20	29	14	34	1.93
39754057--39754102	13	3.2	15	76	17	53	6	26	0	67	1.15
39754098--39754142	19	2.3	20	85	11	58	6	17	2	73	1.15
39754115--39754166	14	3.8	13	75	14	52	3	15	3	76	1.07
39757936--39757985	11	4.8	11	79	18	54	28	14	28	30	1.95
39757946--39758004	19	3.5	19	66	33	62	25	16	27	30	1.97
39757936--39758007	30	2.4	30	100	0	144	27	15	26	30	1.96
39759982--39760130	28	5.4	28	80	2	167	30	20	23	25	1.99
39759988--39760130	56	2.6	56	87	2	216	30	20	23	25	1.99
39760236--39760338	26	4.0	26	89	0	161	40	23	21	14	1.90
39760239--39760364	52	2.4	52	85	2	137	41	22	21	15	1.90
39760517--39760966	27	16.7	27	79	5	423	21	15	20	43	1.88
39760516--39760966	54	8.4	54	79	4	473	21	15	20	43	1.88
39761097--39761181	42	2.0	42	93	0	143	18	16	28	36	1.93
39764651--39764675	5	5.0	5	100	0	50	20	0	0	80	0.72
39767677--39767766	29	3.0	30	80	9	87	33	12	16	37	1.86
39767693--39767766	30	2.5	31	80	6	89	33	10	16	39	1.83
39768006--39768062	3	19.0	3	100	0	114	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39768629--39768669	21	1.9	22	85	5	57	43	7	2	46	1.44
39788766--39788830	28	2.3	30	82	15	84	47	3	3	46	1.33
39797567--39797651	40	2.1	40	97	0	161	27	14	31	27	1.94
39799719--39799749	14	2.2	14	100	0	62	19	6	12	61	1.53
39818982--39819031	11	4.5	11	73	16	50	14	0	46	40	1.44
39818952--39819032	22	3.7	22	76	12	85	12	1	48	38	1.49
39818977--39819041	22	2.9	22	84	11	62	15	1	44	38	1.56
39830909--39830940	16	1.9	17	93	6	57	53	6	0	40	1.26
39833086--39833140	19	2.9	19	88	0	74	34	36	7	21	1.81
39840008--39840079	35	2.1	35	100	0	144	36	11	15	37	1.83

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