genome.fa.s11.2.7.7.80.10.50.1000.38.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  38  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)
12168782--12168812	7	4.3	7	92	8	53	16	0	38	45	1.47
12169801--12169846	22	2.1	22	92	4	76	28	8	23	39	1.84
12169930--12170031	54	1.9	53	90	6	161	27	2	19	50	1.62
12170188--12170228	15	2.7	15	100	0	82	39	0	19	41	1.52
12170248--12170277	14	2.1	14	100	0	60	26	13	6	53	1.64
12170514--12170666	22	7.0	22	90	0	225	32	14	26	26	1.94
12171280--12171761	9	56.7	9	64	17	93	46	19	4	29	1.71
12171392--12171499	37	2.9	37	100	0	216	50	16	2	29	1.59
12171417--12171479	19	3.4	19	73	4	74	50	19	1	28	1.56
12171490--12171557	23	2.8	25	88	8	104	42	27	4	25	1.74
12171537--12171698	49	3.5	49	76	13	187	45	18	6	29	1.73
12171584--12171622	16	2.4	16	82	0	51	48	23	2	25	1.63
12171566--12171645	41	2.0	41	87	0	115	48	20	3	27	1.66
12171625--12171701	16	4.8	16	71	15	59	45	15	7	31	1.75
12171512--12171700	90	2.1	90	90	1	301	46	19	5	28	1.73
12171600--12171771	25	6.8	25	70	6	96	41	20	5	31	1.75
12173692--12173779	42	2.1	42	89	4	133	31	22	26	19	1.98
12180308--12180371	31	2.1	31	85	5	85	45	14	3	37	1.60
12183819--12183920	24	4.1	26	75	12	90	35	21	27	15	1.94
12186472--12186528	25	2.2	26	79	14	66	33	1	1	63	1.15
12194588--12194646	25	2.4	25	80	11	68	38	0	8	52	1.32
12194599--12194643	12	3.8	12	88	5	56	42	0	8	48	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12194599--12194644	24	1.9	25	86	8	69	41	0	8	50	1.33
12196094--12196127	2	17.0	2	100	0	68	50	0	0	50	1.00
12201767--12201881	60	1.9	60	91	3	187	53	0	5	40	1.23
12202049--12202094	22	2.0	23	87	4	67	36	28	4	30	1.76
12202247--12202945	354	2.0	347	88	2	1049	30	18	16	34	1.93
12205169--12205213	22	2.0	22	91	0	72	33	31	8	26	1.87
12206489--12206527	18	2.2	18	100	0	78	53	5	7	33	1.51
12208363--12208400	18	2.1	18	90	0	58	52	2	5	39	1.38
12209894--12210052	50	3.2	50	75	7	160	23	19	21	35	1.96
12209893--12210081	100	1.9	100	88	0	288	23	19	23	33	1.97
12210179--12210540	44	7.8	44	70	16	174	28	20	18	32	1.96
12210128--12210540	142	2.9	142	93	0	720	29	20	17	33	1.95
12210531--12210982	131	3.5	130	90	0	652	24	24	22	28	1.99
12212217--12212266	6	7.8	6	86	8	64	16	16	0	68	1.22
12212218--12212267	7	7.6	7	88	6	70	14	16	0	70	1.18
12212217--12212267	13	3.9	13	89	5	77	15	15	0	68	1.21
12217956--12217993	18	2.1	18	90	0	58	52	2	5	39	1.38
12224666--12224699	10	3.5	10	84	8	52	79	0	0	20	0.73
12228037--12228108	27	2.6	27	84	4	81	23	11	26	38	1.88
12233466--12233526	30	2.0	30	96	0	113	29	11	34	24	1.91
12245355--12245417	26	2.4	26	97	2	117	36	3	28	31	1.73
12256748--12256815	30	2.3	30	100	0	136	60	0	2	36	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12258809--12258863	14	4.0	13	75	11	56	23	23	27	25	2.00
12258805--12258863	28	2.1	28	87	0	82	22	22	30	25	1.99
12258895--12259262	181	2.0	181	98	0	709	26	21	20	30	1.98
12259231--12259285	23	2.5	22	81	3	65	38	18	14	29	1.90
12259441--12259488	18	2.5	20	83	10	64	68	0	2	29	1.01
12263849--12263912	31	2.0	32	87	3	94	57	9	15	17	1.63
12266542--12266596	22	2.4	24	73	14	62	43	1	1	52	1.22
12267509--12267559	26	2.0	26	84	7	68	47	0	0	52	1.00
12269063--12269105	18	2.4	18	88	3	61	51	2	0	46	1.13
12269424--12269485	18	3.2	18	82	13	54	38	0	3	58	1.15
12276715--12276751	6	6.5	6	90	6	51	81	0	18	0	0.70
12276715--12276747	10	3.0	11	91	8	50	81	0	18	0	0.68
12277604--12277637	17	2.0	17	88	0	50	58	0	0	41	0.98
12277591--12277634	23	1.9	23	81	9	54	56	0	0	43	0.99
12281032--12281090	28	2.1	28	93	0	100	44	18	25	11	1.84
12286983--12287014	9	3.6	9	95	0	55	62	0	0	37	0.95
12288633--12288828	44	4.5	44	83	1	259	30	25	13	30	1.94
12292413--12292556	14	10.0	14	64	16	62	50	1	9	38	1.44
12292591--12292615	13	1.9	13	100	0	50	64	4	0	32	1.12
12292661--12292693	17	1.9	17	88	11	50	66	12	0	21	1.23
12294144--12294615	132	3.6	132	95	0	811	27	23	18	31	1.97
12294296--12294609	44	7.1	44	65	15	164	25	25	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12294518--12294715	100	2.0	100	98	0	387	26	25	16	31	1.96
12294386--12294847	232	2.0	232	95	0	825	27	24	17	30	1.97
12294618--12294855	132	1.8	132	93	0	413	27	25	16	30	1.97
12296312--12296897	88	6.7	88	94	0	987	25	24	22	27	2.00
12298124--12298167	21	2.0	21	86	8	61	13	15	0	70	1.17
12298979--12299050	1	72.0	1	74	0	63	0	4	8	87	0.66
12298979--12299050	18	3.9	17	85	8	81	0	4	8	87	0.66
12298998--12299049	6	8.8	6	95	2	88	0	0	11	88	0.52
12298979--12299050	12	5.8	12	85	9	83	0	4	8	87	0.66
12303210--12303247	16	2.5	15	87	8	51	57	0	0	42	0.98
12303395--12303419	13	1.9	13	100	0	50	64	4	0	32	1.12
12314325--12314373	3	16.7	3	82	4	64	63	0	2	34	1.06
12315293--12315335	20	2.1	21	83	12	54	4	18	51	25	1.66
12320461--12320610	76	2.0	76	88	2	221	51	6	9	32	1.60
12321960--12322008	3	16.3	3	95	0	89	30	0	36	32	1.58
12325354--12325468	43	2.7	42	78	1	113	29	15	27	26	1.96
12326277--12326436	69	2.3	69	89	0	230	28	17	15	38	1.90
12328584--12328620	9	4.1	9	92	0	65	45	13	10	29	1.77
12328834--12328892	29	2.0	31	83	6	77	18	40	0	40	1.51
12329648--12329673	5	5.2	5	100	0	52	19	19	19	42	1.90
12331357--12332274	101	9.1	101	90	0	1390	26	21	21	30	1.98
12332314--12332492	44	4.1	44	68	18	120	26	22	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12332531--12332848	46	6.9	46	88	0	438	30	26	16	27	1.96
12333965--12334066	43	2.4	43	78	6	100	28	25	14	31	1.95
12334150--12334185	8	4.5	8	86	13	56	11	11	0	77	0.99
12334150--12334186	9	4.4	9	90	10	53	10	10	0	78	0.97
12334996--12335039	1	44.0	1	81	0	52	0	9	0	90	0.44
12334989--12335039	9	5.6	9	97	2	93	1	9	0	88	0.60
12334989--12335047	27	2.1	28	90	3	93	3	8	1	86	0.75
12339749--12339831	3	28.0	3	72	9	55	60	6	3	30	1.38
12342222--12342385	85	1.9	85	97	0	310	27	12	23	36	1.91
12358663--12358692	2	15.0	2	100	0	60	50	0	0	50	1.00
12366513--12366584	2	36.5	2	92	2	110	45	2	1	50	1.25
12369628--12369664	13	2.7	14	83	8	58	70	2	0	27	1.01
12371876--12371946	27	2.7	26	82	6	88	30	11	28	29	1.91
12374428--12374466	20	2.0	20	89	0	60	23	35	0	41	1.55
12382863--12383061	99	2.0	98	97	0	371	44	9	12	33	1.75
12383799--12383835	19	2.0	19	89	5	58	18	5	8	67	1.36
12385173--12385218	2	23.0	2	91	8	76	50	0	2	47	1.13
12385655--12385698	19	2.3	19	80	7	54	27	2	2	68	1.14
12386165--12386203	19	2.1	19	90	4	62	61	17	0	20	1.34
12394428--12394597	92	1.9	91	85	6	238	35	18	10	36	1.84
12394709--12394752	18	2.5	17	82	10	52	61	0	0	38	0.96
12394924--12395182	89	2.9	89	82	5	269	35	10	16	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12395875--12395908	5	7.2	5	87	12	54	38	0	0	61	0.96
12407445--12407502	26	2.3	25	82	5	71	25	13	13	46	1.81
12411999--12412193	74	2.6	73	90	4	302	43	6	9	40	1.63
12417884--12417952	2	34.5	2	91	0	111	50	1	1	46	1.19
12427063--12427100	16	2.5	15	87	8	51	78	2	18	0	0.86
12427073--12427165	16	6.0	15	72	5	69	80	4	11	3	0.97
12427093--12427158	24	2.9	21	81	16	78	80	6	9	4	1.02
12427109--12427159	25	2.1	24	88	3	75	80	5	9	3	1.01
12427073--12427159	25	3.6	24	71	14	72	80	4	11	3	0.98
12427087--12427165	30	2.5	31	77	8	88	81	5	10	3	0.98

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   207   208   
          209   210