genome.fa.s11.2.7.7.80.10.50.1000.15.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  15  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)
5355721--5355862	40	3.5	40	86	6	180	36	2	0	59	1.17
5355776--5355831	11	5.5	11	72	20	50	39	1	0	58	1.08
5355783--5355844	29	2.1	29	85	5	81	33	3	0	62	1.11
5355795--5355828	17	2.0	17	94	0	59	32	0	0	67	0.91
5361800--5361826	7	3.9	7	100	0	54	88	0	0	11	0.50
5367756--5367789	16	2.1	17	88	5	52	61	0	0	38	0.96
5378818--5378852	16	2.2	16	90	5	54	28	2	0	68	1.04
5382389--5382428	3	13.3	3	100	0	80	0	32	0	67	0.91
5383125--5383161	2	18.5	2	100	0	74	48	0	0	51	1.00
5391915--5392000	45	1.9	45	87	0	127	43	11	20	24	1.85
5394887--5394991	21	4.8	21	87	7	113	38	22	20	18	1.94
5394882--5394992	23	5.0	23	83	9	133	37	21	19	20	1.94
5394887--5394992	44	2.4	43	84	7	124	37	22	20	18	1.94
5396372--5396418	23	2.0	23	87	0	67	44	6	4	44	1.49
5397009--5397204	41	4.8	41	89	2	288	21	21	27	29	1.99
5397653--5397696	20	2.2	21	84	8	56	15	0	43	40	1.47
5397646--5397695	7	7.3	7	78	13	50	14	0	44	42	1.44
5397749--5397816	7	9.7	7	78	0	55	11	1	48	38	1.49
5397749--5397813	21	3.1	21	77	2	69	12	1	49	36	1.50
5398420--5398476	27	2.1	27	100	0	114	57	3	17	21	1.54
5404231--5404412	43	4.3	43	93	0	303	21	19	32	26	1.97
5404231--5404434	86	2.4	86	88	1	275	23	19	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5404697--5404783	45	2.0	44	80	15	99	60	5	12	20	1.52
5406481--5406523	21	2.0	21	86	0	59	41	27	25	4	1.75
5421875--5422732	433	2.0	433	89	1	1308	34	20	12	32	1.90
5427106--5427160	21	2.6	21	82	8	58	25	1	18	54	1.53
5427263--5427368	22	4.8	22	77	10	76	19	3	38	37	1.70
5427235--5427582	7	48.7	7	71	12	136	19	2	34	42	1.66
5427318--5427355	15	2.5	15	91	0	58	26	0	31	42	1.56
5427364--5427409	22	2.1	22	92	8	76	13	6	43	36	1.69
5427464--5427518	20	2.6	22	83	11	71	18	0	34	47	1.49
5427511--5427583	22	3.3	22	73	17	53	20	4	35	39	1.72
5427757--5428231	115	4.1	115	87	1	700	25	13	21	38	1.90
5427752--5428240	230	2.1	230	93	1	818	25	13	22	38	1.90
5428344--5428465	23	5.3	23	73	14	108	19	36	2	41	1.65
5428344--5428467	46	2.7	45	81	5	140	20	35	2	41	1.66
5428551--5428575	13	1.9	13	100	0	50	20	32	16	32	1.94
5428605--5428638	12	2.8	12	95	4	59	5	8	26	58	1.51
5430662--5430729	27	2.5	26	83	11	82	39	2	0	57	1.14
5430824--5430986	9	18.7	9	70	16	94	46	20	1	30	1.61
5430867--5430979	56	1.9	56	84	8	145	46	20	0	32	1.57
5430929--5431036	43	2.7	39	77	13	119	44	13	2	38	1.59
5436501--5436547	21	2.2	21	92	0	76	38	17	42	2	1.61
5436878--5437070	43	4.5	43	84	1	237	27	20	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5438469--5438516	23	2.1	23	100	0	96	41	4	12	41	1.62
5438690--5438719	2	15.0	2	100	0	60	50	0	0	50	1.00
5441396--5441456	4	15.2	4	92	0	86	42	6	0	50	1.28
5441396--5441456	6	10.2	6	89	0	86	42	6	0	50	1.28
5441605--5441643	18	2.1	18	85	4	51	23	2	2	71	1.10
5448791--5448843	22	2.4	22	79	20	58	54	0	3	41	1.18
5448817--5448874	29	2.0	30	82	3	73	46	0	6	46	1.29
5454184--5454223	20	2.0	20	85	0	53	27	2	2	67	1.16
5464013--5464085	38	1.9	38	94	5	130	28	12	20	38	1.89
5466588--5466626	2	19.5	2	100	0	78	48	0	0	51	1.00
5470676--5470706	2	15.5	2	100	0	62	51	0	48	0	1.00
5476598--5476636	12	3.0	13	88	11	62	76	7	0	15	0.99
5485253--5485298	20	2.3	20	84	0	65	36	8	0	54	1.32
5488892--5488936	22	2.0	22	86	0	63	17	15	15	51	1.77
5503184--5503299	63	1.9	60	80	8	135	34	10	8	46	1.69
5507021--5507074	23	2.4	23	96	3	101	48	7	25	18	1.74
5507834--5508536	142	5.0	142	90	2	1044	28	21	17	32	1.96
5515121--5515202	18	5.0	17	65	26	52	48	3	0	47	1.19
5524942--5525588	69	9.4	69	79	0	592	37	19	23	19	1.94
5524942--5525588	207	3.1	206	78	4	669	37	19	23	19	1.94
5525836--5525922	31	2.7	31	91	7	131	33	3	0	63	1.11
5539754--5540003	135	1.8	136	88	5	382	35	12	14	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5544419--5544549	67	2.0	67	93	3	228	35	12	16	35	1.87
5545047--5545097	6	8.5	6	91	0	84	0	64	0	35	0.94
5545682--5545713	14	2.1	16	88	11	50	15	12	9	62	1.54
5547689--5547765	14	5.0	15	71	20	52	42	14	9	33	1.77
5547705--5547744	20	2.0	20	90	0	62	50	12	10	27	1.72
5547693--5547759	34	1.9	35	90	3	109	46	13	8	31	1.74
5552512--5552557	18	2.6	18	78	0	56	23	15	19	41	1.89
5556482--5556647	51	3.3	51	95	1	289	28	23	13	33	1.93
5558234--5558326	23	4.0	23	84	5	125	31	27	19	21	1.97
5558238--5558326	46	1.9	46	90	0	142	31	28	20	20	1.97
5565015--5565070	2	28.5	2	90	3	87	1	44	0	53	1.11
5567489--5567583	6	16.3	6	80	6	88	29	9	1	60	1.35
5567479--5567588	18	6.3	18	80	9	102	30	8	0	60	1.31
5567477--5567583	24	4.6	24	80	11	123	28	8	0	61	1.31
5567494--5567605	24	4.8	24	80	10	106	28	8	0	62	1.25
5567495--5567630	12	11.3	12	73	6	96	28	8	0	62	1.25
5567728--5567784	21	2.7	21	86	5	71	15	1	7	75	1.10
5569745--5569769	3	8.3	3	100	0	50	64	0	0	36	0.94
5574918--5574954	3	12.3	3	100	0	74	64	0	0	35	0.94
5588114--5588174	29	2.1	29	90	6	97	42	16	3	37	1.64
5590559--5590585	2	13.5	2	100	0	54	48	0	0	51	1.00
5593737--5593771	4	8.8	4	93	0	61	2	0	22	74	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5594198--5594254	26	2.2	26	87	9	82	68	0	0	31	0.90
5595373--5595411	17	2.3	17	83	12	53	61	2	0	35	1.10
5599380--5599419	18	2.2	18	100	0	80	17	5	25	52	1.64
5605742--5605807	22	3.0	22	70	0	60	60	3	12	24	1.46
5607344--5607379	17	2.1	18	90	10	58	50	0	8	41	1.33
5607384--5607476	45	2.1	45	89	0	141	39	8	19	32	1.82
5610001--5610064	21	3.0	21	88	0	92	17	23	15	43	1.87
5614112--5614261	77	1.9	77	90	2	239	39	10	20	30	1.85
5615471--5615523	27	1.9	28	92	3	90	20	20	28	30	1.98
5615503--5615786	33	7.7	33	69	20	154	22	18	26	32	1.97
5615536--5615748	42	5.5	41	70	19	188	22	17	27	32	1.96
5615499--5615785	75	3.8	75	91	0	457	22	18	27	32	1.97
5615499--5615785	151	1.9	150	90	2	459	22	18	27	32	1.97
5615937--5615966	2	15.0	2	100	0	60	50	0	0	50	1.00
5620479--5620899	141	3.0	140	95	2	765	36	15	17	30	1.91
5631006--5631066	29	2.1	29	82	14	72	55	9	8	26	1.60
5634276--5634315	17	2.4	17	91	8	64	47	42	5	5	1.47
5635438--5635468	15	2.1	15	93	0	53	29	0	6	64	1.18
5640482--5640511	12	2.6	11	90	10	51	90	10	0	0	0.47
5641364--5641402	10	3.9	10	93	0	60	74	0	15	10	1.07
5642636--5642749	46	2.5	46	82	2	131	27	17	23	31	1.97
5642785--5643253	44	10.7	43	66	12	204	31	18	24	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5642717--5643254	132	4.1	132	94	0	923	31	18	23	25	1.97
5643594--5643633	17	2.4	17	91	8	64	47	42	5	5	1.47
5645234--5645258	2	12.5	2	100	0	50	0	0	48	52	1.00
5650760--5651028	87	3.1	88	83	5	303	38	18	10	32	1.84
5651147--5651194	10	4.9	10	84	5	62	60	2	0	37	1.09
5651159--5651190	9	3.4	9	95	4	55	59	0	0	40	0.97
5651149--5651190	19	2.2	19	86	0	57	61	2	0	35	1.09
5651158--5651200	19	2.3	19	80	8	52	62	0	2	34	1.08
5651441--5651549	18	5.9	18	70	20	73	31	5	4	58	1.41
5651439--5651549	9	12.0	9	68	19	59	31	5	4	58	1.41

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