genome.fa.s11.2.7.7.80.10.50.1000.207.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  207  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)
61179750--61179804	24	2.3	23	78	12	56	49	1	5	43	1.36
61183321--61183399	39	2.0	39	95	0	140	27	10	15	46	1.77
61188419--61188497	39	2.0	39	97	0	149	26	10	16	46	1.78
61189668--61189695	13	2.2	13	100	0	56	25	39	14	21	1.91
61192637--61192683	2	23.5	2	100	0	94	51	0	0	48	1.00
61193322--61193351	6	5.0	6	100	0	60	33	0	0	66	0.92
61194564--61194613	22	2.3	22	79	3	57	8	12	20	60	1.57
61194583--61194624	22	1.9	22	85	0	57	16	14	14	54	1.71
61197709--61197797	38	2.2	40	90	5	137	38	0	7	53	1.30
61201262--61201341	32	2.5	31	82	8	97	56	15	1	27	1.47
61204988--61205150	83	2.0	83	97	0	308	39	22	12	25	1.90
61206767--61206802	17	2.1	17	100	0	72	22	13	22	41	1.89
61214095--61214121	2	13.5	2	100	0	54	48	0	0	51	1.00
61217063--61217099	7	5.1	7	96	3	65	40	0	0	59	0.97
61217055--61217099	7	6.0	8	92	5	60	37	0	2	60	1.09
61221912--61221953	20	2.2	19	87	8	59	64	0	33	2	1.07
61222369--61222408	18	2.3	18	95	4	73	72	0	7	20	1.08
61223158--61223212	24	2.3	23	81	9	65	29	1	1	67	1.11
61225372--61225448	40	1.9	40	89	0	118	15	7	24	51	1.69
61226596--61226818	111	2.0	111	100	0	446	26	14	20	38	1.91
61227155--61227189	17	2.1	17	94	0	61	40	11	0	48	1.39
61227687--61227724	21	1.9	19	85	15	51	50	18	10	21	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61230699--61231007	154	2.0	154	96	0	573	25	28	12	33	1.93
61239685--61239784	50	2.0	51	84	2	130	43	9	15	33	1.77
61240536--61240701	83	2.0	82	93	5	282	28	23	15	31	1.95
61243888--61244175	138	2.0	141	91	5	465	29	26	12	32	1.92
61245368--61245418	22	2.3	22	74	12	52	60	11	5	21	1.52
61248930--61249182	125	2.0	125	96	0	470	39	9	29	20	1.84
61257491--61257519	12	2.4	12	100	0	58	17	10	6	65	1.44
61264287--61264805	189	2.7	189	90	0	813	29	20	19	30	1.97
61267268--61267312	3	15.0	3	100	0	90	0	33	0	66	0.92
61267311--61267342	3	10.7	3	100	0	64	31	0	0	68	0.90
61272852--61272878	12	2.2	12	100	0	54	7	7	29	55	1.55
61275458--61275511	9	6.0	9	91	0	81	35	16	25	22	1.95
61275458--61275511	27	2.0	27	92	0	90	35	16	25	22	1.95
61277239--61277271	2	16.5	2	100	0	66	51	0	0	48	1.00
61282916--61282967	26	2.0	27	84	3	70	28	9	0	61	1.27
61283517--61283542	3	8.7	3	100	0	52	0	34	0	65	0.93
61287218--61288157	429	2.2	428	85	3	1221	32	11	14	41	1.82
61286991--61288157	430	2.7	426	80	6	1306	32	11	14	41	1.82
61290554--61290586	16	2.1	16	100	0	66	45	6	12	36	1.66
61296266--61296322	27	2.1	27	96	0	105	61	19	3	15	1.48
61298112--61298149	18	2.1	18	95	0	67	31	15	13	39	1.86
61301968--61302010	18	2.3	19	88	8	70	72	6	9	11	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61307736--61307760	8	3.1	8	100	0	50	36	0	52	12	1.39
61309122--61309181	22	2.8	21	90	9	95	61	1	3	33	1.22
61310728--61310795	34	2.0	34	88	0	100	45	7	23	23	1.78
61315637--61315672	2	18.0	2	88	0	54	50	5	0	44	1.25
61315636--61315672	10	3.7	10	96	0	65	48	8	0	43	1.32
61317704--61317742	19	2.1	19	100	0	78	28	15	30	25	1.96
61321250--61321307	29	2.0	29	96	0	107	60	10	3	25	1.45
61326384--61326415	16	2.0	16	100	0	64	6	12	25	56	1.59
61333365--61333397	13	2.5	13	95	5	57	33	6	6	54	1.50
61348584--61348621	16	2.4	16	95	0	67	47	0	0	52	1.00
61352064--61352531	189	2.5	189	90	2	708	33	19	16	31	1.94
61362286--61362313	4	7.0	4	100	0	56	75	0	25	0	0.81
61362366--61362412	24	2.0	24	91	0	76	53	2	4	40	1.32
61362435--61362546	44	2.5	43	80	12	118	52	2	7	37	1.43
61362752--61362813	3	20.7	3	82	12	74	62	1	3	32	1.20
61365251--61365314	33	1.9	33	87	6	94	26	25	23	25	2.00
61371587--61371641	21	2.7	20	83	8	74	29	34	9	27	1.87
61371871--61371911	19	2.1	20	86	4	57	17	0	4	78	0.93
61372747--61372851	7	15.4	7	70	18	53	40	31	1	25	1.66
61372757--61372861	13	7.8	13	75	10	70	43	29	1	24	1.65
61373052--61373086	18	1.9	18	88	0	52	51	0	0	48	1.00
61399786--61399833	23	2.0	24	84	11	64	31	0	4	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61409676--61409708	16	2.0	17	94	5	59	30	0	3	66	1.06
61409667--61409718	23	2.3	23	86	6	70	26	0	3	69	1.06
61410211--61410258	25	1.9	25	86	0	69	29	31	6	33	1.82
61419699--61419787	39	2.3	39	96	0	160	34	13	32	19	1.90
61457813--61457861	14	3.6	14	71	20	50	14	16	14	55	1.70
61457811--61457865	26	2.1	26	96	0	101	20	14	14	50	1.77
61459392--61459442	23	2.2	23	82	6	59	33	3	0	62	1.13
61459400--61459442	15	2.8	16	85	3	52	32	2	0	65	1.06
61459400--61459442	8	5.5	8	80	5	52	32	2	0	65	1.06
61459415--61459443	15	1.9	15	100	0	58	31	6	0	62	1.22
61461535--61461586	26	2.0	26	85	3	70	53	11	13	21	1.70
61462921--61462947	12	2.2	12	100	0	54	14	0	40	44	1.46
61468845--61468886	20	2.1	20	100	0	84	23	38	14	23	1.92
61469036--61469562	190	2.8	190	84	5	627	33	19	17	29	1.95
61488767--61488875	34	3.1	34	64	23	91	23	7	24	44	1.79
61488739--61488879	70	2.0	70	98	0	273	26	6	22	44	1.76
61488746--61488855	35	3.1	34	64	23	84	28	8	20	42	1.81
61493170--61493279	35	3.1	35	63	23	86	25	5	24	44	1.75
61493190--61493300	35	3.1	36	64	23	99	25	7	22	45	1.78
61493127--61493338	70	3.0	70	97	1	399	25	7	23	44	1.78
61493205--61493314	35	3.1	35	64	23	95	27	10	20	41	1.84
61494104--61494213	35	3.1	34	64	23	84	43	20	8	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61494118--61494228	36	3.1	36	67	23	108	46	22	5	25	1.73
61494080--61494291	70	3.0	70	96	0	388	45	22	5	26	1.74
61494084--61494262	34	5.1	34	64	25	97	45	24	6	24	1.76
61494139--61494248	35	3.1	35	67	23	104	46	24	3	25	1.69
61501335--61501470	67	2.0	67	95	0	245	46	22	6	25	1.75
61501781--61501890	54	2.0	54	100	0	220	41	5	16	36	1.71
61506439--61506574	67	2.0	67	98	0	263	25	5	21	47	1.73
61510301--61510338	17	2.2	18	85	4	51	73	2	2	21	1.07
61515752--61515778	2	13.5	2	100	0	54	51	0	0	48	1.00
61520907--61520931	2	12.5	2	100	0	50	48	0	0	52	1.00
61521798--61521841	21	2.0	22	91	4	72	34	11	15	38	1.84
61528326--61528359	18	1.9	18	88	5	52	29	0	5	64	1.17
61531579--61531680	28	3.5	28	84	6	89	15	20	20	43	1.88
61531601--61531678	28	2.6	30	90	6	124	15	16	20	47	1.83
61538455--61538504	22	2.3	22	82	6	57	38	4	2	56	1.30
61539920--61539956	9	4.1	9	92	0	65	45	13	10	29	1.77
61543738--61543777	14	2.9	14	84	0	53	32	7	17	42	1.77
61543761--61543800	20	2.0	20	90	0	62	27	10	12	50	1.72
61543746--61543812	34	1.9	35	90	3	109	31	8	13	46	1.74
61543740--61543816	14	5.0	15	71	20	52	32	9	15	42	1.78
61546317--61546363	20	2.3	21	82	17	64	36	0	8	55	1.31
61549707--61549750	22	2.0	22	82	4	54	11	6	15	65	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61549836--61549878	16	2.7	16	89	7	61	34	18	2	44	1.63
61549979--61550029	2	25.5	2	100	0	102	50	0	0	49	1.00
61581892--61581968	32	2.4	32	82	6	104	24	1	19	54	1.52
61581893--61581968	16	4.9	15	74	19	75	25	1	19	53	1.52
61588586--61588619	2	17.0	2	100	0	68	50	0	0	50	1.00
61590381--61590413	16	2.0	17	94	5	59	63	0	6	30	1.18
61591849--61591878	2	15.0	2	100	0	60	50	0	0	50	1.00
61592010--61592039	2	15.0	2	100	0	60	50	0	0	50	1.00
61593921--61594018	23	4.3	23	94	0	160	31	27	21	19	1.97
61599889--61599924	12	3.0	12	88	12	56	36	0	0	63	0.94

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