genome.fa.s2.2.7.7.80.10.50.1000.45.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  45  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)
12834306--12834555	52	4.9	52	90	5	395	34	15	23	27	1.94
12834410--12834566	46	3.3	46	85	10	224	36	14	22	27	1.92
12834298--12834566	98	2.7	98	91	4	421	34	14	23	26	1.94
12837001--12837027	2	13.5	2	100	0	54	48	0	0	51	1.00
12840902--12840933	2	16.5	2	93	6	57	53	0	0	46	1.00
12840933--12840976	2	22.0	2	100	0	88	50	0	50	0	1.00
12848839--12849113	126	2.2	125	88	3	408	30	19	16	34	1.94
12849207--12849552	97	3.7	91	87	6	448	38	19	2	40	1.64
12849165--12849552	186	2.1	184	85	6	514	38	19	2	39	1.64
12855311--12855462	10	16.5	10	81	16	195	0	44	0	54	1.04
12855311--12855462	6	27.5	6	81	16	195	0	44	0	54	1.04
12855383--12855424	3	14.0	3	100	0	84	0	33	0	66	0.92
12861723--12861781	31	2.0	29	80	9	66	57	13	6	22	1.59
12863717--12863764	21	2.3	20	79	10	51	25	2	2	70	1.09
12863774--12863817	18	2.5	17	85	10	61	38	0	9	52	1.33
12864986--12865010	2	12.5	2	100	0	50	52	0	48	0	1.00
12867689--12867739	22	2.4	21	80	6	59	47	7	3	41	1.51
12874983--12875073	47	1.9	47	93	4	157	9	9	4	75	1.16
12874984--12875087	25	4.2	26	77	11	103	9	9	3	76	1.12
12875060--12875086	14	1.9	14	100	0	54	7	11	0	81	0.87
12875048--12875097	25	2.0	25	84	7	66	6	12	4	78	1.08
12883225--12883911	132	5.2	131	74	11	606	29	19	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12883417--12883544	51	2.5	51	80	0	148	27	20	25	26	1.99
12883891--12884032	44	3.2	44	85	2	178	30	17	24	27	1.97
12885250--12885332	3	27.0	3	85	4	94	26	1	7	65	1.26
12888595--12888666	19	3.4	22	81	13	87	52	0	0	47	1.00
12888615--12888674	15	3.7	15	80	12	57	51	0	0	48	1.00
12888635--12888692	15	4.0	15	80	6	66	51	1	0	46	1.11
12888772--12888900	22	6.0	21	73	16	113	58	1	0	39	1.07
12888772--12888896	42	2.9	43	82	11	148	58	1	0	40	1.08
12888918--12888973	15	3.9	14	77	13	51	73	1	8	16	1.17
12890047--12890106	29	2.1	29	93	0	102	46	10	0	43	1.37
12890952--12890983	15	2.1	16	94	5	57	25	12	9	53	1.68
12891671--12891733	22	2.8	22	74	11	74	42	12	17	26	1.85
12891827--12891865	19	2.1	19	85	9	53	30	0	2	66	1.05
12893217--12893267	2	25.5	2	79	15	52	50	3	1	43	1.31
12899396--12899427	15	2.1	15	94	0	55	15	6	9	68	1.36
12900368--12900682	22	14.2	21	78	10	308	43	16	9	29	1.80
12900391--12900543	11	13.6	11	64	19	57	43	17	9	30	1.80
12900377--12900685	44	7.0	44	89	2	449	43	16	9	30	1.80
12900377--12900685	66	4.7	66	83	2	386	43	16	9	30	1.80
12900866--12900897	2	16.0	2	100	0	64	50	0	0	50	1.00
12901488--12901643	43	3.6	42	79	7	145	30	28	17	24	1.97
12904373--12904445	28	2.7	28	82	4	96	47	1	4	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12908969--12909057	23	3.7	22	84	13	106	31	22	25	20	1.98
12912477--12912717	41	5.9	41	89	2	299	32	26	20	20	1.97
12913368--12913402	17	2.1	17	89	5	54	31	14	5	48	1.67
12917255--12917307	24	2.2	25	82	3	63	26	20	5	47	1.72
12920437--12920492	9	6.2	9	78	15	62	82	0	16	1	0.76
12920440--12920483	20	2.2	20	91	0	70	84	0	13	2	0.73
12920429--12920496	29	2.4	29	85	9	95	82	0	13	4	0.82
12920435--12920498	17	3.8	16	85	6	74	82	0	14	3	0.78
12920435--12920499	9	7.6	8	78	14	60	81	0	15	3	0.81
12921383--12922385	50	20.2	50	71	3	603	31	21	20	25	1.98
12921371--12922115	100	7.4	100	83	1	846	31	21	21	25	1.98
12922039--12922213	91	1.9	91	88	2	262	30	25	20	24	1.99
12921989--12922256	141	1.9	141	83	1	349	30	24	20	24	1.98
12921902--12922356	241	1.9	241	81	0	550	30	22	20	25	1.98
12922484--12922601	45	2.7	44	80	7	130	29	21	19	29	1.97
12931080--12931136	25	2.3	25	84	0	69	40	14	5	40	1.68
12931185--12931234	20	2.5	20	80	6	57	36	22	8	34	1.83
12931406--12931474	23	3.0	23	85	8	88	36	20	24	18	1.95
12933759--12933787	15	1.9	15	100	0	58	41	37	0	20	1.53
12938751--12938800	21	2.3	22	82	3	66	36	6	16	42	1.72
12939585--12939627	10	4.1	10	79	8	50	58	2	0	39	1.11
12939585--12939627	21	2.0	21	86	0	59	58	2	0	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12940507--12940555	24	2.0	24	88	7	73	38	2	2	57	1.22
12946370--12946410	9	4.6	9	84	0	55	46	12	12	29	1.77
12946365--12946410	18	2.6	18	96	0	83	45	10	10	32	1.74
12947784--12947862	2	40.5	2	76	9	65	45	5	1	48	1.32
12949039--12949073	2	17.5	2	100	0	70	51	0	0	48	1.00
12949327--12949421	43	2.2	43	92	0	154	29	22	21	27	1.99
12953527--12953558	6	5.3	6	92	0	55	3	62	0	34	1.11
12954214--12954251	19	2.1	19	90	5	60	68	2	23	5	1.23
12956467--12956509	18	2.4	18	96	0	77	48	6	32	11	1.66
12956467--12956521	18	3.1	18	89	2	58	54	7	27	10	1.61
12965509--12965603	27	3.6	26	85	2	118	44	18	20	16	1.87
12965791--12965845	26	2.1	26	82	0	65	20	23	21	34	1.97
12965940--12966031	28	3.3	28	85	0	130	25	25	20	29	1.99
12969221--12969260	19	2.0	20	85	4	55	47	30	15	7	1.72
12970774--12970813	16	2.5	16	91	0	62	47	2	7	42	1.45
12970820--12970861	16	2.6	16	96	0	75	33	0	11	54	1.37
12970820--12970870	9	6.1	9	80	17	65	33	0	11	54	1.37
12970822--12970871	25	2.0	25	88	11	77	32	0	12	56	1.36
12970858--12970993	68	2.0	68	98	0	263	36	6	10	46	1.64
12970981--12971011	14	2.2	14	94	0	53	22	0	0	77	0.77
12971207--12971356	65	2.6	54	70	22	142	56	5	10	27	1.55
12978654--12978724	28	2.5	30	79	9	76	46	1	2	49	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12984247--12984416	41	4.2	41	78	6	157	22	19	25	31	1.98
12984590--12984773	7	25.7	7	66	12	52	21	1	32	44	1.62
12984646--12984683	15	2.6	14	87	4	58	18	0	36	44	1.50
12984641--12984688	22	2.2	21	81	3	60	22	0	29	47	1.51
12984976--12985009	7	4.7	7	88	3	50	26	0	32	41	1.56
12984976--12985017	14	2.9	15	82	7	59	23	0	33	42	1.55
12985011--12985080	21	3.3	21	82	4	79	22	0	42	34	1.54
12985032--12985062	7	4.4	7	91	0	53	19	0	48	32	1.49
12989729--12989869	43	3.3	43	85	0	192	21	15	30	31	1.95
12992308--12992374	28	2.3	29	80	12	84	43	1	1	53	1.19
12995373--12995443	35	2.0	35	100	0	142	40	5	16	36	1.73
12996648--12996703	28	2.0	28	100	0	112	39	14	14	32	1.86
12998766--12998833	31	2.3	29	78	14	75	29	16	7	47	1.73
12998781--12998839	31	1.9	30	86	3	82	28	16	6	47	1.72
13004475--13004506	6	5.3	6	100	0	64	15	0	68	15	1.21
13021222--13021264	20	2.1	21	86	4	61	62	4	4	27	1.35
13021222--13021278	22	2.8	20	86	5	69	59	3	3	33	1.31
13021703--13021743	20	2.0	20	85	0	55	56	2	9	31	1.45
13021708--13021775	30	2.3	30	94	0	118	60	5	8	25	1.49
13021731--13021773	20	2.2	20	82	0	50	65	4	6	23	1.37
13060176--13060220	23	2.0	23	90	0	72	2	31	6	60	1.35
13060199--13060272	39	1.9	39	86	2	105	6	27	8	58	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13060927--13060961	16	2.2	16	94	0	61	25	2	34	37	1.71
13060987--13061022	16	2.2	16	100	0	72	25	0	36	38	1.56
13061941--13061985	23	2.0	23	90	0	72	60	6	31	2	1.35
13063496--13063520	13	1.9	13	100	0	50	64	4	24	8	1.38
13065040--13065105	32	2.1	32	100	0	132	25	9	18	46	1.78
13070864--13070914	25	2.0	25	96	0	93	19	11	23	45	1.83
13073370--13073410	21	2.0	21	85	9	57	70	17	0	12	1.16
13074700--13074772	26	2.8	28	78	16	84	32	1	0	65	1.01
13074808--13074873	28	2.2	29	79	15	73	31	6	4	57	1.43
13074866--13075081	50	4.3	50	76	5	172	26	4	4	64	1.31

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