genome.fa.s10.2.7.7.80.10.50.1000.106.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  106  of  202  ( 24201 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)
32353173--32353201	10	2.7	11	89	10	51	79	6	0	13	0.93
32354227--32355237	506	2.0	505	98	0	1968	42	17	18	21	1.89
32366777--32366929	22	7.0	22	90	0	225	32	14	26	26	1.94
32369879--32369932	22	2.5	22	82	11	58	24	5	12	57	1.57
32370939--32371002	22	2.9	22	83	0	92	28	29	6	35	1.82
32390723--32390763	11	3.6	11	87	6	55	78	7	2	12	1.06
32390723--32390762	12	3.6	11	90	9	64	77	7	2	12	1.07
32390795--32390832	18	2.1	19	90	5	60	63	5	7	23	1.42
32390795--32390833	19	2.1	19	90	0	60	64	5	7	23	1.40
32392843--32392897	14	3.8	14	76	7	56	72	1	21	3	1.09
32404778--32404839	17	3.6	18	78	12	76	58	3	22	16	1.52
32404778--32404852	33	2.2	33	90	6	116	56	4	25	14	1.56
32406389--32406494	47	2.3	47	79	0	122	28	8	14	49	1.72
32411599--32411820	111	2.0	111	96	0	408	20	21	22	35	1.96
32415171--32415266	33	3.2	33	69	27	111	44	14	8	32	1.75
32415319--32415360	21	1.9	22	85	9	59	64	14	2	19	1.39
32415344--32415369	9	2.9	9	100	0	52	69	11	0	19	1.18
32418507--32418535	14	2.0	15	93	6	51	34	6	27	31	1.83
32422335--32422452	58	2.0	58	96	3	220	29	22	16	31	1.96
32442576--32442614	20	2.0	20	90	10	62	15	23	5	56	1.59
32447586--32447789	92	2.2	92	90	1	320	29	19	21	30	1.97
32454313--32454351	19	2.1	18	85	4	51	76	2	17	2	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32454309--32454357	16	3.1	16	76	5	55	69	2	24	4	1.17
32458446--32458544	46	2.2	46	92	0	162	37	27	6	29	1.81
32458433--32458544	23	4.9	23	72	8	93	37	26	5	30	1.79
32458816--32458857	15	2.5	17	88	11	61	59	2	9	28	1.41
32466653--32466738	42	2.0	43	84	2	111	25	16	23	34	1.95
32473395--32473441	20	2.3	20	85	0	58	25	19	29	25	1.98
32486080--32486293	92	2.3	92	88	1	322	28	17	21	31	1.96
32491421--32491462	10	4.3	10	78	6	50	28	11	23	35	1.91
32497267--32497313	20	2.3	20	85	7	60	27	29	17	25	1.97
32501752--32501857	46	2.3	47	90	3	169	30	11	9	49	1.70
32502188--32502276	31	2.9	31	93	0	142	25	23	14	35	1.93
32505084--32505126	21	2.0	21	100	0	86	44	23	13	18	1.86
32505142--32505249	41	2.6	41	95	0	189	34	17	18	29	1.94
32513924--32513985	10	5.9	10	74	10	52	33	32	3	30	1.74
32513924--32513986	21	3.0	21	88	2	90	33	33	3	30	1.74
32514309--32514358	26	1.9	26	88	8	75	80	6	6	8	1.04
32514334--32514372	16	2.4	16	95	4	69	76	2	10	10	1.10
32519112--32519176	20	3.3	19	79	16	62	75	4	13	6	1.15
32519131--32519186	19	2.8	20	81	8	69	76	1	14	7	1.07
32519092--32519190	37	2.6	37	79	16	98	74	4	15	6	1.16
32523475--32523536	10	5.9	10	74	10	52	33	32	3	30	1.74
32523475--32523537	21	3.0	21	88	2	90	33	33	3	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32523542--32523570	10	2.9	10	100	0	58	51	31	6	10	1.62
32525358--32525389	15	2.1	16	94	5	57	6	21	0	71	1.07
32526373--32526413	11	3.6	11	86	3	55	17	4	4	73	1.19
32526372--32526413	12	3.6	12	90	3	68	16	4	4	73	1.17
32527969--32528073	41	2.6	41	90	0	165	35	15	19	30	1.92
32538297--32538356	20	3.1	19	77	13	68	25	28	11	35	1.91
32540603--32540650	10	5.0	10	82	10	55	12	8	4	75	1.18
32540606--32540653	20	2.4	20	82	0	69	8	8	4	79	1.06
32540614--32540667	13	4.8	12	80	15	53	14	7	3	74	1.18
32542018--32542078	20	3.1	19	82	15	70	32	11	29	26	1.91
32545713--32545796	21	4.0	21	81	6	91	70	1	22	5	1.16
32545728--32545775	15	3.3	14	82	8	60	79	0	16	4	0.89
32545868--32545907	12	3.3	12	82	0	53	60	2	22	15	1.47
32548716--32548788	29	2.5	29	90	0	119	30	9	13	46	1.75
32549961--32549999	18	2.2	18	90	0	60	79	2	7	10	1.02
32551966--32552012	15	3.1	15	84	9	60	70	0	17	12	1.17
32552042--32552117	12	6.3	12	68	17	50	61	1	25	11	1.38
32552065--32552098	15	2.3	15	89	0	50	67	0	29	2	1.05
32555462--32555508	20	2.3	20	88	0	67	27	27	17	27	1.97
32557091--32557243	22	7.0	22	90	0	225	32	14	26	26	1.94
32562929--32563027	52	1.9	52	95	0	180	27	19	22	31	1.98
32564397--32564443	20	2.3	20	85	7	60	25	17	29	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32565802--32565943	70	2.2	63	83	13	166	40	12	24	22	1.89
32565823--32565959	70	2.0	70	95	0	247	35	12	26	26	1.92
32567563--32567635	29	2.5	29	90	0	119	30	9	13	46	1.75
32568812--32568867	24	2.4	23	72	3	58	23	3	32	41	1.71
32570655--32570711	18	3.0	18	76	7	60	71	3	17	7	1.22
32573448--32573546	52	1.9	52	93	0	171	28	19	21	31	1.97
32581557--32581603	15	3.1	15	84	9	60	70	0	17	12	1.17
32585705--32585763	26	2.3	26	85	5	75	77	1	16	3	0.98
32589270--32589316	20	2.3	20	85	7	60	27	29	17	25	1.97
32589260--32589319	10	5.9	10	75	9	50	26	28	15	30	1.96
32602511--32602549	11	3.6	11	82	3	53	76	5	2	15	1.06
32602583--32602617	17	2.1	17	88	0	52	60	5	8	25	1.49
32606336--32606386	15	3.6	14	76	10	50	74	1	21	1	1.02
32611037--32611135	52	1.9	52	95	0	180	27	19	22	31	1.98
32611640--32611674	13	2.7	13	90	0	52	45	0	11	42	1.40
32614863--32614887	11	2.3	11	100	0	50	36	16	24	24	1.94
32616346--32616456	23	4.8	23	80	0	132	36	25	6	31	1.81
32616345--32616456	46	2.4	46	87	0	161	36	25	6	31	1.81
32620715--32620818	23	4.5	23	79	0	118	34	27	5	31	1.81
32620715--32620814	46	2.2	46	90	0	164	36	28	6	30	1.81
32626002--32626109	41	2.6	41	95	0	189	29	18	17	34	1.94
32627789--32627828	15	2.7	15	88	0	62	30	10	2	57	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32632138--32632249	23	4.9	23	76	0	107	31	6	25	36	1.81
32632138--32632249	46	2.4	46	90	0	188	31	6	25	36	1.81
32634812--32634838	12	2.2	12	100	0	54	37	11	29	22	1.89
32646392--32646456	22	2.9	22	79	2	67	36	4	32	26	1.77
32651546--32651588	13	3.7	12	82	11	54	13	2	6	76	1.08
32651545--32651588	12	3.7	12	87	6	63	13	2	6	77	1.07
32654862--32654921	22	2.7	22	78	0	66	26	33	3	36	1.73
32658433--32658476	11	3.7	12	87	9	63	77	9	2	11	1.08
32658515--32658557	15	2.9	14	83	10	59	60	0	13	25	1.34
32660578--32660631	20	2.7	20	82	0	63	24	20	18	37	1.94
32660578--32660651	30	2.5	30	86	8	98	21	20	18	39	1.93
32660578--32660642	20	3.2	20	71	16	53	23	21	16	38	1.93
32667255--32667319	22	2.9	22	74	2	58	26	30	4	38	1.76
32667922--32667956	13	2.7	13	90	0	52	45	0	11	42	1.40
32668919--32668961	14	2.8	15	79	13	52	16	2	2	79	0.95
32674442--32674470	10	2.7	11	94	5	51	6	3	6	82	0.93
32676000--32676064	20	3.3	19	73	16	51	38	16	21	23	1.93
32694978--32695042	22	2.9	22	79	2	67	36	4	32	26	1.77
32697356--32697402	20	2.3	20	85	0	58	25	19	29	25	1.98
32700431--32700497	19	3.8	17	72	18	57	74	1	17	5	1.09
32700426--32700504	33	2.4	32	79	14	81	73	2	18	5	1.13
32700475--32700505	14	2.3	14	94	5	55	80	6	12	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32701882--32701914	15	2.2	15	89	10	50	21	15	21	42	1.89
32711847--32711884	20	1.9	20	88	0	58	28	21	15	34	1.94
32740292--32740438	27	5.5	27	72	13	99	10	19	2	68	1.30
32740310--32740352	17	2.4	18	84	7	61	13	18	0	67	1.23
32740313--32740438	12	10.6	12	66	20	59	11	19	1	68	1.28
32740335--32740448	51	2.2	51	79	3	122	9	21	1	66	1.30
32744316--32744427	23	4.9	23	79	0	134	35	27	6	30	1.82
32744316--32744427	46	2.4	46	90	0	188	35	27	6	30	1.82
32749796--32749837	18	2.3	18	91	0	66	64	11	2	21	1.38
32750630--32750737	41	2.6	41	94	0	189	30	17	16	35	1.92

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