genome.fa.s11.2.7.7.80.10.50.1000.192.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  192  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)
56502115--56502172	30	1.9	30	100	0	116	29	36	0	34	1.58
56502144--56502194	22	2.3	22	93	6	86	29	35	0	35	1.58
56502228--56502293	31	2.2	30	94	2	114	40	0	0	59	0.98
56502247--56502287	21	2.0	21	95	0	73	43	0	0	56	0.99
56503372--56503409	7	5.4	7	93	0	58	21	0	13	65	1.26
56504674--56504991	29	10.9	29	91	1	483	45	24	0	29	1.58
56509576--56509606	16	1.9	16	100	0	62	77	0	6	16	0.97
56515917--56515960	18	2.5	18	85	3	54	72	6	6	13	1.25
56516149--56516205	2	28.5	2	100	0	114	50	0	0	49	1.00
56516313--56516346	2	17.0	2	100	0	68	50	0	0	50	1.00
56516388--56516432	24	1.9	23	86	4	63	57	2	8	31	1.41
56516396--56516450	20	2.8	20	77	2	58	54	1	9	34	1.43
56516493--56516535	17	2.7	16	86	10	61	65	0	4	30	1.13
56517599--56517638	17	2.4	17	91	8	64	5	5	42	47	1.47
56526210--56526240	3	10.3	3	92	0	53	67	3	0	29	1.06
56526318--56526348	4	7.8	4	92	0	53	74	3	0	22	0.96
56527252--56527299	11	4.4	11	81	0	60	66	10	4	18	1.37
56527259--56527333	22	3.4	22	79	0	69	61	12	10	16	1.57
56529156--56529263	53	2.0	53	90	0	171	37	14	8	38	1.77
56534219--56534322	48	2.2	48	98	0	199	39	15	15	29	1.88
56548292--56548336	14	3.2	14	80	0	54	46	33	0	20	1.51
56551984--56552040	27	2.1	27	84	9	73	68	3	28	0	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56552936--56552988	22	2.4	22	78	6	63	13	20	15	50	1.76
56556508--56556699	98	2.0	98	82	2	233	32	16	22	29	1.95
56557236--56557271	18	2.0	18	94	0	63	36	0	2	61	1.11
56558487--56558684	109	1.9	107	83	8	260	46	12	8	32	1.71
56560229--56560287	16	3.8	16	74	14	61	71	1	5	22	1.15
56560242--56560319	37	2.1	36	81	11	88	71	5	5	17	1.23
56561895--56562139	44	5.5	44	73	8	185	29	15	18	36	1.92
56561927--56562139	44	4.8	45	76	5	200	30	16	17	36	1.92
56561891--56562140	89	2.8	89	85	3	317	29	16	18	36	1.92
56562119--56562230	50	2.2	51	84	4	138	31	24	16	28	1.96
56566287--56566347	30	2.0	31	93	3	106	29	19	13	37	1.90
56574014--56574053	4	10.2	4	84	15	57	75	0	2	22	0.93
56573942--56574081	58	2.4	58	77	7	140	64	1	8	25	1.30
56574917--56574980	32	2.0	32	93	0	110	48	9	15	26	1.75
56578797--56578865	32	2.1	34	83	5	88	73	5	7	13	1.22
56578968--56579005	20	1.9	20	88	0	58	55	0	13	31	1.38
56579028--56579077	3	16.7	3	100	0	100	66	0	0	34	0.92
56580293--56580771	44	10.9	45	65	8	135	29	23	17	29	1.97
56580272--56580717	44	10.1	45	65	9	150	29	23	18	28	1.97
56580273--56581052	132	5.9	132	93	0	1310	29	22	18	29	1.97
56580405--56580772	88	4.2	89	64	13	186	30	23	18	27	1.98
56582121--56582150	15	2.0	15	100	0	60	20	20	20	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56585001--56585046	24	1.9	24	86	0	65	10	26	17	45	1.81
56587201--56587235	17	2.0	17	88	5	52	62	0	5	31	1.18
56587266--56587323	20	2.9	21	75	19	61	55	0	10	34	1.34
56587344--56587372	3	9.7	3	100	0	58	65	0	0	34	0.93
56592326--56592401	31	2.5	31	100	0	152	38	9	9	43	1.69
56592549--56592575	2	13.5	2	100	0	54	48	0	0	51	1.00
56595541--56595569	9	3.2	9	100	0	58	58	0	0	41	0.98
56603857--56603896	18	2.2	19	86	4	55	40	5	2	52	1.37
56607004--56607043	19	2.2	18	86	4	53	15	5	22	57	1.57
56608723--56608846	55	2.2	56	89	1	187	43	16	8	32	1.77
56610337--56610375	19	2.1	19	100	0	78	56	20	10	12	1.65
56612534--56612559	13	2.0	13	100	0	52	46	15	0	38	1.46
56612510--56612665	56	2.8	56	83	7	208	43	14	10	32	1.78
56615390--56615417	2	14.0	2	100	0	56	50	0	50	0	1.00
56624194--56624501	41	7.7	41	80	6	308	24	18	29	27	1.98
56624226--56624462	76	3.0	76	79	7	226	24	18	28	27	1.98
56624267--56624501	117	2.0	116	87	0	335	22	20	29	26	1.99
56624226--56624510	158	1.8	157	83	3	369	25	19	28	26	1.99
56625432--56625466	18	1.9	18	88	11	54	28	2	28	40	1.71
56627503--56627538	2	18.0	2	100	0	72	50	0	0	50	1.00
56629216--56629289	29	2.6	29	86	2	96	40	8	1	50	1.41
56633814--56633848	11	3.2	11	83	0	52	42	0	14	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56634811--56635101	126	2.3	126	92	0	474	32	17	20	28	1.96
56635785--56635840	22	2.5	22	80	5	60	17	55	10	16	1.69
56639914--56640019	47	2.3	45	76	10	115	53	4	2	38	1.36
56649915--56650446	264	2.0	265	98	0	1021	31	14	19	35	1.91
56651235--56651261	8	3.4	8	100	0	54	37	11	0	51	1.37
56656367--56656402	19	1.9	18	88	5	54	77	8	2	11	1.08
56660332--56660359	9	3.1	9	100	0	56	0	10	0	89	0.49
56665307--56665352	11	4.6	10	82	15	51	28	0	8	63	1.24
56665321--56665364	19	2.3	19	80	7	54	34	0	4	61	1.16
56666186--56666241	27	2.2	25	83	6	67	25	1	3	69	1.14
56666250--56666330	20	4.1	20	78	12	69	34	1	8	55	1.38
56666409--56666439	9	3.4	9	95	0	53	32	3	9	54	1.49
56667049--56667104	18	3.1	18	70	12	51	64	0	0	35	0.94
56667358--56667403	20	2.3	19	85	10	65	36	4	6	52	1.47
56673393--56673470	37	2.1	37	100	0	156	34	29	8	26	1.87
56673771--56673891	54	2.3	54	84	7	158	41	0	33	23	1.61
56674878--56674919	23	1.9	21	85	9	57	30	11	4	52	1.59
56675090--56675159	30	2.4	29	80	4	77	54	8	4	32	1.50
56679992--56680031	2	21.5	2	85	14	59	50	0	0	50	1.00
56682186--56682260	21	3.6	20	85	10	89	40	14	9	36	1.78
56683202--56683263	31	2.1	30	82	8	81	33	3	4	58	1.36
56684822--56684858	16	2.3	16	86	13	58	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56684936--56684967	13	2.4	14	85	15	50	43	0	0	56	0.99
56686761--56686815	29	2.0	27	85	7	74	29	3	0	67	1.08
56691144--56691200	28	2.1	28	86	3	80	52	8	12	26	1.67
56692369--56692402	16	2.1	16	89	10	52	32	0	2	64	1.08
56694803--56694863	31	2.0	31	86	0	86	16	21	27	34	1.95
56697678--56697735	28	2.1	28	100	0	116	17	6	13	62	1.52
56715074--56715103	5	6.0	5	100	0	60	20	0	80	0	0.72
56719247--56719282	3	12.0	3	87	0	54	61	2	36	0	1.11
56720556--56720583	3	9.3	3	100	0	56	0	32	0	67	0.91
56720803--56720863	3	21.7	3	77	12	67	3	29	1	65	1.18
56720803--56720865	11	5.6	11	79	7	65	3	28	1	66	1.16
56720809--56720863	14	3.7	14	85	11	58	3	30	1	63	1.22
56720803--56720851	17	2.9	17	96	0	89	4	28	0	67	1.09
56720808--56720863	17	3.5	16	83	14	71	3	30	1	64	1.21
56721405--56721518	60	1.9	60	85	7	160	40	8	9	41	1.69
56721483--56721536	20	2.7	20	77	11	56	35	11	9	44	1.72
56721576--56721674	20	4.9	20	69	20	73	39	14	11	35	1.81
56721677--56721723	20	2.3	20	88	0	67	29	8	19	42	1.80
56721786--56722031	20	12.6	20	68	14	138	36	9	12	41	1.75
56721898--56721955	18	3.1	18	85	5	71	43	8	12	36	1.73
56721987--56722037	20	2.5	20	78	6	59	27	5	13	52	1.63
56723507--56723552	21	2.2	21	84	3	58	69	0	2	28	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56724895--56724923	8	3.6	8	100	0	58	24	13	27	34	1.93
56725010--56725085	23	3.3	23	96	0	143	21	21	26	31	1.98
56726554--56726600	15	2.9	17	90	9	73	23	4	0	72	1.02
56726553--56726600	17	2.9	16	88	11	71	22	4	0	72	1.01
56726587--56726632	20	2.4	19	82	10	58	26	2	2	69	1.11
56726817--56726881	22	2.8	24	77	13	82	27	6	3	63	1.33
56731838--56731913	38	2.0	38	94	0	134	39	15	15	28	1.89
56736358--56736409	24	2.2	24	82	6	61	28	3	3	63	1.30
56736490--56736515	11	2.4	11	100	0	52	53	0	0	46	1.00
56736794--56736831	18	2.2	18	90	4	60	65	2	0	31	1.06

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