genome.fa.s11.2.7.7.80.10.50.1000.78.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  78  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)
23371829--23372367	105	5.1	104	76	4	413	30	14	25	29	1.95
23371932--23372367	210	2.1	210	82	3	520	30	14	26	29	1.95
23373270--23373313	22	2.0	21	87	12	63	31	25	18	25	1.97
23375381--23375549	33	5.2	32	79	7	142	33	32	15	18	1.93
23377228--23377261	3	11.3	3	100	0	68	32	0	0	67	0.91
23379214--23379251	17	2.2	18	85	4	51	15	5	13	65	1.43
23384741--23385060	105	3.0	105	86	0	433	31	12	25	30	1.93
23388639--23388676	17	2.3	17	86	4	51	68	0	0	31	0.90
23391111--23391161	25	2.0	25	100	0	102	35	19	11	33	1.88
23393819--23393870	19	2.8	19	94	2	88	32	11	9	46	1.73
23394545--23394597	13	4.1	13	77	0	61	30	5	26	37	1.79
23395653--23395692	9	4.4	9	93	0	71	25	12	22	40	1.89
23395745--23395781	9	4.1	9	85	0	56	48	13	10	27	1.75
23405709--23405748	20	1.9	21	85	10	55	57	7	17	17	1.62
23407480--23407621	49	2.9	49	82	6	171	24	19	28	27	1.99
23408823--23408874	20	2.8	18	78	21	63	51	1	1	44	1.23
23415742--23415874	49	2.7	49	77	0	131	28	24	20	26	1.99
23416304--23416481	43	4.1	43	88	1	241	32	24	18	24	1.97
23416304--23416505	86	2.4	86	82	4	230	30	23	19	25	1.98
23421050--23421194	7	20.9	7	65	17	52	35	41	1	22	1.62
23421124--23421191	27	3.0	21	74	24	66	36	41	1	20	1.62
23421120--23421177	27	2.1	27	93	0	98	32	44	1	20	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23421594--23421788	41	4.8	41	84	2	248	29	31	19	18	1.96
23423156--23423232	29	2.7	29	81	0	91	33	22	20	23	1.97
23433264--23433324	30	2.1	30	87	3	88	49	4	8	37	1.54
23435002--23435054	24	2.2	24	86	0	70	58	9	1	30	1.40
23435010--23435055	24	1.9	24	90	0	74	54	8	2	34	1.43
23436971--23437022	24	2.2	24	89	0	77	55	9	1	32	1.43
23437684--23437733	11	4.7	10	85	11	64	8	12	12	68	1.40
23437684--23437750	33	2.1	32	82	2	80	11	16	10	61	1.57
23439185--23439227	10	4.3	10	77	11	52	37	2	2	58	1.24
23439406--23439444	21	1.9	21	89	5	62	33	25	7	33	1.84
23440038--23440207	93	1.8	93	94	0	304	30	20	15	34	1.94
23442458--23442495	18	2.1	18	85	9	51	34	7	0	57	1.28
23442624--23442668	8	5.6	8	97	0	81	31	0	0	68	0.89
23449907--23449945	16	2.4	17	83	12	55	25	20	2	51	1.60
23453268--23453556	46	6.3	46	82	1	301	31	20	21	27	1.98
23453285--23453585	92	3.3	92	83	2	356	28	20	22	28	1.99
23453283--23453585	138	2.2	138	82	1	358	28	21	22	28	1.99
23457114--23457212	28	3.6	27	78	9	110	32	12	27	28	1.92
23458187--23458434	47	5.3	47	92	1	392	27	12	14	45	1.81
23458549--23458812	25	11.3	22	70	17	151	27	12	15	44	1.83
23458535--23458812	47	5.9	47	88	3	364	27	11	16	44	1.83
23463815--23463840	12	2.2	12	100	0	52	19	15	50	15	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23475771--23475800	2	14.5	2	93	6	51	46	3	0	50	1.18
23477993--23478434	126	3.5	126	95	0	773	31	18	22	27	1.97
23479251--23479423	56	3.1	56	71	12	183	40	5	9	45	1.59
23479492--23479535	21	2.1	21	100	0	88	22	0	34	43	1.54
23480307--23480344	20	1.9	20	84	10	51	55	7	2	34	1.43
23483885--23483932	21	2.3	21	82	7	62	8	16	37	37	1.79
23484173--23484215	18	2.4	18	88	0	59	44	9	27	18	1.80
23485714--23485786	23	3.2	23	96	0	128	23	17	27	31	1.97
23485916--23485988	38	1.9	37	86	8	103	45	1	21	31	1.61
23488965--23489029	11	6.1	10	84	10	69	49	1	27	21	1.59
23493097--23493144	23	2.0	23	88	4	69	64	4	0	31	1.12
23495327--23495715	114	3.4	112	73	10	306	30	16	25	27	1.97
23496961--23497013	21	2.5	21	72	9	54	13	0	35	50	1.41
23500270--23500316	13	3.7	12	86	11	58	42	10	2	44	1.51
23500434--23500553	52	2.4	49	78	16	131	39	5	1	54	1.32
23500877--23501201	16	19.8	16	62	24	81	46	19	2	32	1.63
23500970--23501200	9	26.4	9	69	14	144	46	20	2	30	1.62
23500905--23500996	39	2.4	38	85	5	114	48	15	2	33	1.57
23501016--23501201	34	5.7	33	70	19	122	46	20	2	30	1.62
23501132--23501213	25	3.2	25	74	6	58	45	19	3	31	1.68
23510148--23510191	9	4.9	9	86	10	63	72	0	2	25	0.96
23510137--23510198	10	6.5	10	81	10	60	67	0	3	29	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23510121--23510189	9	7.8	9	75	15	54	68	1	1	28	1.07
23510148--23510238	18	4.9	18	74	12	78	64	1	6	27	1.25
23510549--23510759	88	2.4	85	79	9	226	31	8	22	37	1.83
23523244--23523294	8	6.5	8	84	4	50	43	0	0	56	0.99
23526378--23526405	2	14.0	2	100	0	56	50	0	0	50	1.00
23528172--23528218	24	2.0	24	84	16	62	51	17	0	31	1.46
23528959--23529007	5	9.8	5	100	0	98	59	0	0	40	0.98
23535303--23535350	3	16.0	3	95	0	87	31	0	2	66	1.03
23537831--23537870	18	2.3	18	86	4	55	40	10	22	27	1.86
23539945--23540010	33	2.0	33	85	2	89	15	15	19	50	1.79
23539944--23540046	35	3.1	34	80	10	113	15	14	19	50	1.78
23544595--23544793	108	1.9	105	86	3	281	35	19	17	28	1.94
23548816--23549314	87	5.7	87	92	0	827	24	24	22	29	1.99
23554617--23554816	108	1.9	106	85	2	274	36	19	16	28	1.93
23558452--23558518	20	3.3	20	82	0	62	23	29	11	34	1.91
23561647--23562069	70	6.0	70	83	4	494	28	18	20	31	1.97
23568270--23568302	15	2.3	15	89	5	50	48	6	3	42	1.43
23570873--23570910	18	2.1	18	100	0	76	21	15	28	34	1.94
23573124--23573246	63	2.0	63	83	0	156	42	16	11	30	1.83
23574919--23574943	13	1.9	13	100	0	50	64	4	0	32	1.12
23582801--23582843	16	2.7	15	85	7	50	55	13	2	27	1.51
23609218--23609391	43	4.0	43	78	10	158	31	25	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23616978--23617119	42	3.3	43	79	9	155	33	26	16	23	1.96
23616978--23617111	44	3.1	42	80	10	146	32	26	17	23	1.96
23621376--23621448	31	2.4	31	84	6	87	53	1	9	35	1.42
23622963--23623015	21	2.5	21	87	0	79	28	7	33	30	1.85
23623833--23623865	12	2.8	12	90	4	50	6	18	33	42	1.75
23627143--23627177	12	2.8	13	91	4	54	40	0	60	0	0.97
23627140--23627175	18	2.0	18	94	0	63	41	0	58	0	0.98
23631525--23631572	16	3.1	16	82	14	57	27	0	0	72	0.84
23631806--23632104	108	2.7	108	88	4	415	31	18	17	32	1.95
23631781--23632104	112	3.0	109	86	4	422	31	18	17	32	1.94
23638378--23638449	29	2.5	29	78	14	78	55	4	4	36	1.38
23638777--23638816	20	2.0	20	85	0	53	25	12	12	50	1.75
23641329--23641361	15	2.1	16	88	5	50	36	0	0	63	0.95
23646881--23647107	105	2.2	105	83	3	296	29	23	11	34	1.91
23649337--23649390	27	2.1	24	86	10	72	44	0	1	53	1.11
23649902--23649936	2	17.5	2	100	0	70	48	0	0	51	1.00
23659439--23659528	39	2.2	41	84	5	112	53	7	2	36	1.42
23662993--23663280	131	2.2	131	87	1	407	31	15	13	39	1.86
23671278--23671583	103	2.9	104	86	1	407	29	4	25	40	1.76
23674827--23674899	32	2.5	27	78	19	92	26	2	19	52	1.59
23674840--23674900	32	1.9	32	96	0	113	27	3	18	50	1.62
23685029--23685286	33	7.6	33	69	24	153	18	19	28	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23685005--23685331	103	3.2	103	94	1	550	19	19	28	32	1.97
23688940--23688996	19	2.9	20	86	5	80	49	8	10	31	1.68
23688940--23689004	20	3.3	20	86	4	87	49	10	10	29	1.71
23688985--23689025	14	2.9	15	85	10	59	39	9	9	41	1.71
23690065--23690485	104	4.0	105	81	4	474	28	24	12	33	1.93
23706431--23706460	12	2.5	12	94	0	51	6	20	40	33	1.78
23710479--23710642	85	1.9	85	82	0	202	40	15	14	28	1.87
23712442--23712588	28	5.2	28	73	15	133	31	21	10	36	1.87
23712412--23712601	56	3.4	56	88	0	272	31	22	11	35	1.89
23717062--23717106	21	2.1	22	83	4	56	48	6	22	22	1.73

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