genome.fa.s11.2.7.7.80.10.50.1000.101.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  101  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)
29561166--29561309	52	2.7	53	80	3	166	43	12	3	40	1.59
29565800--29565831	6	5.7	6	92	7	50	15	0	0	84	0.63
29566677--29566735	22	2.6	22	86	7	75	35	6	1	55	1.36
29575650--29575681	16	2.0	16	100	0	64	31	18	12	37	1.88
29582860--29582903	22	1.9	22	86	9	61	36	15	2	45	1.59
29583073--29583133	24	2.5	25	81	2	70	26	21	24	27	1.99
29583116--29583175	25	2.4	25	80	0	66	31	20	23	25	1.98
29584012--29584041	11	2.7	11	94	0	51	20	3	13	63	1.43
29587434--29587952	258	2.0	259	90	1	817	39	16	15	28	1.89
29588040--29588073	5	6.8	5	93	0	59	58	17	2	20	1.51
29588210--29588319	27	4.0	27	86	2	148	53	13	11	20	1.71
29589349--29589379	5	6.2	5	96	0	53	35	19	0	45	1.51
29592340--29592378	18	2.2	18	86	4	53	64	7	12	15	1.49
29595412--29595450	15	2.6	15	95	0	69	25	5	20	48	1.70
29600490--29600546	19	2.7	22	76	15	66	40	17	7	35	1.77
29600493--29600537	22	2.0	22	86	4	63	37	17	6	37	1.76
29600516--29600569	19	2.8	19	88	0	90	38	14	9	37	1.79
29600493--29600569	38	1.9	38	84	10	100	40	15	7	36	1.76
29601118--29601246	45	2.9	45	89	2	188	23	22	24	30	1.99
29601263--29601517	132	1.9	132	85	7	347	27	20	19	32	1.97
29601289--29601502	44	4.9	44	68	19	140	27	21	19	31	1.97
29601866--29601985	44	2.7	44	87	10	174	27	27	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29601975--29602649	88	7.7	88	90	2	953	21	23	27	28	1.99
29602416--29602559	44	3.3	44	64	3	119	19	22	31	25	1.98
29603966--29603998	14	2.3	15	89	5	50	27	33	12	27	1.92
29604827--29604896	26	2.7	25	82	4	68	57	5	14	22	1.59
29609606--29609678	19	3.8	19	90	0	101	38	17	6	36	1.77
29614318--29614369	22	2.4	22	83	0	68	26	13	25	34	1.93
29622640--29622701	33	1.9	32	86	3	88	27	17	16	38	1.91
29622695--29622724	2	15.5	2	93	6	53	46	0	0	53	1.00
29622827--29622855	2	14.5	2	100	0	58	48	0	0	51	1.00
29631345--29631417	24	3.0	24	74	20	71	57	1	0	41	1.07
29633483--29633549	27	2.5	27	85	0	98	23	32	28	14	1.95
29633852--29633937	40	2.3	36	80	13	93	32	5	9	52	1.57
29636248--29636660	159	2.6	154	74	14	412	30	12	6	50	1.66
29636368--29636945	285	2.0	286	93	1	989	31	11	6	50	1.63
29637315--29637480	10	16.0	10	66	22	67	0	30	0	69	0.93
29637312--29637431	43	2.9	43	80	8	106	0	29	0	70	0.87
29637348--29637495	33	4.5	33	80	10	137	0	31	0	68	0.95
29637345--29637470	33	3.5	36	83	13	145	0	29	0	69	0.94
29637343--29637495	38	4.2	37	77	15	160	0	30	0	68	0.94
29639932--29640018	39	2.2	39	80	8	97	31	20	17	31	1.96
29640349--29640377	15	1.9	15	100	0	58	41	27	0	31	1.56
29650294--29650388	9	10.4	9	86	6	138	22	10	28	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29654700--29655010	44	7.1	42	74	10	158	32	18	22	27	1.97
29654693--29655819	89	12.4	88	70	12	547	32	17	22	27	1.97
29654693--29655405	133	5.3	133	79	4	626	32	17	22	27	1.97
29654923--29655104	95	1.9	96	80	2	213	31	17	24	26	1.97
29655009--29655867	44	19.0	44	72	8	481	32	17	22	27	1.96
29654888--29655361	139	3.4	139	85	2	600	32	17	23	27	1.96
29654746--29655867	456	2.5	454	92	1	1791	32	17	22	27	1.96
29655344--29655721	140	2.7	139	88	2	546	31	17	23	27	1.97
29657558--29657751	73	2.7	72	82	4	230	28	9	2	59	1.41
29658031--29658077	19	2.5	19	86	6	60	25	19	10	44	1.82
29666112--29666305	73	2.7	73	80	2	205	28	8	2	59	1.40
29666465--29666511	12	3.9	12	94	0	85	17	10	6	65	1.43
29666465--29666509	6	7.5	6	89	0	72	15	11	4	68	1.34
29667578--29667638	31	2.0	31	90	0	95	47	6	9	36	1.63
29672606--29672703	11	9.4	11	73	18	93	37	3	0	59	1.13
29672617--29672673	28	2.0	28	89	3	87	38	3	0	57	1.16
29672598--29672703	40	2.6	41	92	7	171	36	2	0	60	1.12
29672637--29672705	21	3.3	21	78	6	86	34	1	0	63	1.03
29672637--29672719	22	3.8	20	75	13	76	36	1	2	60	1.18
29672598--29672705	21	5.3	21	70	15	84	36	2	0	61	1.11
29674317--29674369	22	2.4	22	83	3	61	58	1	11	28	1.43
29675354--29675397	22	2.0	22	86	4	63	61	22	4	11	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29680697--29680761	3	21.7	3	73	6	51	27	3	3	66	1.22
29684231--29684257	4	6.8	4	100	0	54	74	0	0	25	0.83
29685881--29685941	29	2.1	28	81	3	68	24	14	16	44	1.85
29686172--29686222	22	2.3	22	96	0	93	27	31	1	39	1.68
29686281--29686331	10	4.9	11	76	11	54	31	0	0	68	0.90
29686268--29686331	30	2.1	31	94	2	112	34	0	0	65	0.93
29686424--29686454	15	2.0	16	93	6	55	25	0	6	67	1.14
29687411--29687435	7	3.6	7	100	0	50	28	0	12	60	1.32
29688380--29688435	24	2.3	24	87	0	85	42	28	23	5	1.76
29688643--29689061	28	14.4	28	83	8	489	49	23	0	25	1.56
29688643--29689061	57	7.2	57	83	6	511	49	23	0	25	1.56
29688643--29689061	119	3.6	118	87	3	571	49	23	0	25	1.56
29689185--29689209	10	2.5	10	100	0	50	44	8	0	48	1.32
29699971--29700004	17	1.9	18	94	5	61	64	0	8	26	1.22
29701975--29702199	123	1.8	123	94	0	396	28	17	22	32	1.97
29704871--29704917	19	2.5	19	83	10	60	23	0	4	72	1.02
29704872--29704917	23	2.0	23	83	8	58	23	0	4	71	1.03
29717204--29717519	40	7.8	40	79	12	356	29	24	21	25	1.99
29717201--29717520	82	3.9	82	93	0	541	29	24	21	24	1.99
29721871--29722231	116	3.1	116	95	1	625	45	6	8	39	1.62
29722101--29722168	17	3.8	17	71	16	57	48	1	5	44	1.36
29722225--29722781	23	25.1	22	74	15	415	27	0	23	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29722271--29722304	17	2.0	17	100	0	68	35	0	23	41	1.55
29722244--29722769	45	11.9	44	75	16	293	27	0	23	48	1.54
29722588--29722616	15	2.0	15	93	6	51	20	0	27	51	1.47
29722225--29722784	68	8.4	68	75	13	463	27	0	23	48	1.54
29722613--29722693	38	2.2	38	90	2	137	29	0	19	50	1.48
29722438--29722798	45	8.1	45	79	13	329	26	0	23	49	1.54
29722823--29722874	25	2.1	25	100	0	104	42	11	0	46	1.40
29723711--29723735	7	3.6	7	100	0	50	60	12	0	28	1.32
29723906--29723943	20	1.9	20	84	10	51	55	7	2	34	1.43
29724822--29724858	12	3.1	12	92	0	56	48	0	0	51	1.00
29724871--29724912	11	3.8	11	90	0	66	50	7	21	21	1.72
29724916--29724955	11	3.6	11	93	6	64	42	0	35	22	1.54
29725920--29725998	19	4.2	19	70	20	58	63	7	3	25	1.38
29726314--29726349	16	2.2	16	86	13	56	30	0	2	66	1.06
29726317--29726349	17	2.0	17	94	5	59	30	0	3	66	1.06
29727186--29727244	26	2.3	26	85	5	75	37	13	8	40	1.75
29727393--29727429	18	2.1	18	94	0	65	18	18	0	62	1.34
29730214--29730320	22	4.6	22	75	10	81	14	24	20	40	1.90
29733011--29733043	14	2.4	14	95	5	59	45	30	12	12	1.78
29733366--29733496	50	2.6	52	79	6	151	37	12	15	34	1.86
29737194--29737295	49	2.1	49	85	3	134	22	36	17	23	1.95
29739755--29739911	52	3.0	52	93	0	269	24	10	28	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29739966--29740087	29	4.1	28	78	13	93	32	0	22	44	1.59
29739989--29740082	28	3.3	28	89	4	143	31	0	23	44	1.54
29742365--29742422	29	2.0	30	89	3	91	60	1	0	37	1.07
29742511--29742579	22	3.1	22	87	0	102	39	1	27	31	1.66
29742453--29742558	52	2.1	51	83	1	131	33	1	30	33	1.69
29743713--29744053	177	1.9	176	84	1	450	30	14	9	44	1.79
29747253--29747288	6	6.0	6	90	0	54	13	19	2	63	1.41
29747639--29747689	20	2.6	20	78	12	52	58	3	0	37	1.16
29747659--29747704	17	2.8	17	87	9	60	63	0	0	36	0.95
29747659--29747722	26	2.5	25	82	12	69	65	0	1	32	1.02

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