genome.fa.s2.2.7.7.80.10.50.1000.179.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  179  of  206  ( 24623 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)
54500082--54500244	77	2.1	75	82	4	184	26	8	12	52	1.67
54501724--54501908	46	4.0	46	92	1	300	28	24	9	37	1.87
54503115--54503147	17	1.9	17	100	0	66	57	18	0	24	1.40
54505627--54505676	26	1.9	26	84	8	66	18	16	20	46	1.85
54510238--54510292	19	3.0	19	73	5	51	60	16	0	23	1.36
54510612--54510646	14	2.4	15	90	4	54	65	0	0	34	0.93
54513547--54513571	4	6.2	4	100	0	50	76	0	0	24	0.80
54517931--54517998	35	1.9	35	87	0	100	44	4	11	39	1.61
54518403--54518444	20	2.1	20	86	0	57	47	0	7	45	1.30
54520734--54520819	44	2.0	44	82	13	106	61	3	12	22	1.46
54524323--54524383	32	1.9	32	83	12	81	49	3	4	42	1.40
54527373--54527403	16	1.9	16	100	0	62	58	6	19	16	1.59
54541346--54541397	26	2.0	26	92	7	88	38	23	3	34	1.73
54541546--54541590	6	7.3	6	90	5	72	15	20	0	64	1.29
54541958--54542035	27	3.2	27	59	27	64	28	21	7	42	1.80
54541961--54542051	46	2.0	47	93	2	157	28	23	7	40	1.82
54546084--54546126	22	2.0	22	100	0	86	37	13	25	23	1.92
54552761--54552826	33	2.0	33	100	0	132	36	21	21	21	1.95
54554730--54554810	42	1.9	42	94	0	144	30	27	18	23	1.98
54554933--54555417	143	3.4	143	90	0	754	26	21	20	31	1.98
54556810--54556835	13	2.0	13	100	0	52	30	0	0	69	0.89
54558008--54558058	23	2.2	23	85	0	66	29	11	21	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54559514--54559548	16	2.2	16	89	0	52	85	0	11	2	0.69
54562805--54562869	3	21.7	3	96	0	121	67	0	0	32	0.91
54564255--54564729	50	9.5	50	67	1	270	23	18	24	33	1.97
54564227--54565358	100	11.5	100	80	7	1066	23	19	24	33	1.97
54564227--54565358	200	5.8	200	85	3	1438	23	19	24	33	1.97
54564730--54565272	50	10.9	49	70	10	250	23	19	24	32	1.98
54564646--54564813	84	2.0	84	88	0	246	23	20	27	28	1.99
54564787--54565348	50	11.3	48	69	10	235	23	18	24	33	1.97
54571928--54571996	3	23.0	3	100	0	138	66	0	0	33	0.92
54573614--54573664	25	2.0	25	92	0	84	49	5	17	27	1.70
54573611--54573699	30	3.1	30	82	12	107	41	5	23	29	1.77
54578605--54578656	24	2.2	24	82	6	61	53	7	5	32	1.53
54582474--54582578	35	2.8	39	67	11	92	22	20	22	34	1.97
54602538--54602661	33	3.5	33	72	21	115	17	19	29	33	1.95
54631781--54631880	49	2.0	49	96	0	182	31	14	25	30	1.94
54651830--54651860	15	2.1	15	100	0	62	38	25	12	22	1.90
54651869--54651910	20	2.1	20	90	0	66	30	16	11	40	1.85
54656139--54656180	20	2.1	20	90	0	66	40	11	16	30	1.85
54656189--54656219	15	2.1	15	93	0	53	22	9	25	41	1.84
54656824--54656854	15	2.1	15	100	0	62	38	25	12	22	1.90
54656863--54656904	20	2.1	20	90	0	66	30	16	11	40	1.85
54691562--54691641	40	2.0	40	92	0	133	10	15	28	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54692722--54692789	8	8.4	8	71	20	52	45	1	1	51	1.19
54692729--54692803	34	2.3	34	77	8	86	49	1	2	46	1.24
54696131--54696191	30	2.0	31	93	3	106	24	22	26	26	2.00
54696292--54696342	26	2.0	26	84	0	66	45	19	17	17	1.86
54696298--54696385	26	3.3	26	82	1	86	43	18	20	18	1.89
54696548--54696841	27	10.9	27	82	3	315	16	18	21	44	1.87
54696547--54696841	81	3.6	81	85	5	382	16	18	21	44	1.87
54710685--54710747	30	2.2	28	91	5	99	41	7	23	26	1.82
54730318--54730400	40	2.1	40	93	0	139	9	14	28	46	1.76
54733713--54733773	30	2.0	31	93	3	106	24	22	26	26	2.00
54733887--54733944	26	2.2	27	87	3	82	43	17	20	18	1.89
54734107--54734354	27	9.2	27	86	3	304	16	18	20	44	1.87
54734106--54734354	53	4.6	55	86	6	325	16	18	20	44	1.87
54757235--54757267	15	2.2	15	89	10	50	27	0	3	69	1.03
54758294--54758376	38	2.2	37	77	12	89	44	4	21	28	1.73
54758479--54758588	23	5.0	23	82	9	133	20	20	22	36	1.95
54758956--54759012	3	19.0	3	100	0	114	33	0	0	66	0.92
54761469--54761503	16	2.2	16	100	0	70	17	5	28	48	1.69
54764793--54764844	26	2.0	26	100	0	104	23	42	7	26	1.81
54765187--54765217	9	3.4	9	90	0	53	25	12	22	38	1.90
54765271--54765307	9	4.1	9	92	0	65	45	13	10	29	1.77
54766416--54766457	21	2.0	21	86	9	59	19	0	4	76	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54772717--54772750	16	2.1	16	100	0	68	41	0	5	52	1.25
54788280--54788319	2	20.0	2	100	0	80	50	0	0	50	1.00
54788351--54788426	36	2.1	36	82	4	91	36	25	9	28	1.87
54788598--54788719	41	3.0	41	92	1	199	22	28	22	27	1.99
54788602--54788760	82	1.9	81	82	9	198	22	26	22	28	1.99
54789639--54789665	2	13.5	2	100	0	54	51	0	0	48	1.00
54791901--54791960	24	2.5	25	81	13	81	33	1	8	56	1.39
54792278--54792352	24	3.2	24	90	1	107	48	6	5	40	1.52
54792300--54792340	14	3.2	14	74	25	54	46	7	7	39	1.60
54800618--54800654	18	2.1	18	89	0	56	40	21	0	37	1.54
54816085--54816165	40	2.0	40	92	0	135	9	14	28	46	1.77
54819847--54819907	30	2.0	31	90	9	99	26	21	26	26	1.99
54820008--54820058	26	2.0	26	84	0	66	45	19	17	17	1.86
54820014--54820101	26	3.3	26	82	1	86	43	18	20	18	1.89
54820264--54820592	27	12.2	27	83	3	387	16	18	21	44	1.87
54820264--54820592	81	4.1	81	86	4	443	16	18	21	44	1.87
54849017--54849046	12	2.4	13	94	5	53	10	6	0	83	0.81
54880677--54880737	25	2.5	25	78	10	72	31	1	9	57	1.41
54886704--54886763	29	2.0	31	90	6	97	25	23	25	26	2.00
54886863--54886942	26	3.1	26	76	3	72	43	22	17	16	1.87
54887120--54887466	27	12.9	27	84	3	387	16	18	20	43	1.88
54967721--54967947	41	5.5	41	94	0	382	24	26	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54969266--54969322	28	2.0	28	90	6	89	36	7	0	56	1.27
54969514--54969542	14	2.0	15	93	6	51	51	20	0	27	1.47
54970825--54970880	26	2.2	26	90	0	85	33	28	10	26	1.90
54975323--54975465	41	3.5	41	93	0	232	23	27	18	29	1.98
54976769--54976825	28	2.0	28	86	6	80	36	7	1	54	1.38
54977017--54977045	14	2.0	15	93	6	51	51	20	0	27	1.47
54981472--54981552	37	2.2	37	97	2	155	25	17	12	44	1.84
54997156--54997189	6	5.7	6	100	0	68	0	0	32	67	0.91
54998418--54998485	16	4.2	16	70	19	52	52	2	1	42	1.25
54999063--54999138	40	1.9	40	83	5	100	46	9	1	43	1.44
54999665--54999715	26	2.0	26	100	0	102	56	0	3	39	1.18
55003925--55004033	41	2.8	40	84	5	125	24	19	22	33	1.97
55006800--55006841	14	2.8	16	79	17	54	52	14	4	28	1.62
55012300--55012346	19	2.5	19	86	6	60	21	2	4	72	1.12
55014847--55014875	14	2.0	15	93	6	51	44	0	0	55	0.99
55016975--55017086	52	2.1	52	96	1	206	46	5	13	34	1.66
55018013--55018082	31	2.3	31	85	2	88	44	14	8	32	1.75
55023189--55023229	3	13.7	3	100	0	82	68	0	0	31	0.90
55024697--55024854	44	3.6	44	84	1	219	31	24	13	31	1.93
55024933--55025538	44	13.8	44	65	12	228	28	24	18	28	1.98
55024846--55025579	132	5.6	132	89	0	1101	28	24	18	28	1.98
55024878--55025626	395	1.9	396	87	1	1117	28	23	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55024846--55025570	263	2.8	261	90	1	1044	28	24	17	28	1.98
55025708--55025864	44	3.6	44	91	0	251	29	24	14	31	1.95
55026836--55027171	44	7.6	44	67	11	177	28	24	18	28	1.98
55026774--55027203	132	3.3	131	91	1	671	29	23	17	29	1.97
55027341--55027497	44	3.6	44	89	0	242	29	25	14	31	1.94
55027522--55027909	132	2.9	132	91	1	609	28	24	17	29	1.97
55027584--55027914	44	7.5	44	67	8	172	28	24	18	28	1.98
55028134--55028290	44	3.6	44	92	0	260	29	25	14	30	1.95
55028239--55028744	132	3.8	131	84	5	540	28	24	17	28	1.97
55028377--55028712	44	7.6	44	67	12	179	28	24	18	28	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