genome.fa.s13.2.7.7.80.10.50.1000.39.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  39  of  199  ( 23770 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)
11100832--11100977	41	3.6	40	76	12	129	28	27	19	24	1.99
11100832--11100997	82	2.0	83	80	10	189	28	25	18	26	1.98
11103372--11103406	14	2.5	14	90	0	52	34	22	5	37	1.78
11104044--11104095	24	2.2	24	85	0	68	25	38	34	1	1.67
11104633--11104923	62	4.7	61	92	2	449	49	9	5	35	1.59
11107599--11107636	18	2.1	19	95	5	69	0	26	2	71	1.00
11108318--11108361	20	2.2	20	88	4	63	6	22	6	63	1.43
11113299--11113329	16	1.9	16	100	0	62	29	0	0	70	0.87
11113558--11113620	30	2.1	29	85	8	83	44	4	1	49	1.33
11115673--11115776	49	2.1	49	92	0	172	32	8	9	49	1.66
11117160--11117761	120	5.0	120	95	2	1086	42	1	4	51	1.28
11117975--11118012	16	2.4	16	90	0	58	26	31	2	39	1.70
11126395--11126584	65	2.9	64	88	1	281	36	21	8	34	1.83
11132805--11132835	16	1.9	16	93	0	53	41	9	12	35	1.76
11133605--11133726	63	1.9	63	88	1	181	27	5	33	32	1.81
11133605--11133743	64	2.2	63	84	1	170	29	5	33	31	1.81
11133605--11133760	64	2.5	64	81	9	160	29	6	33	30	1.82
11140031--11140123	7	13.3	7	76	12	66	47	0	20	32	1.51
11140020--11140123	35	3.0	33	76	9	91	46	0	22	31	1.52
11143052--11143142	30	3.0	30	98	0	173	23	12	16	48	1.79
11154971--11155156	54	3.4	55	81	8	175	6	49	4	38	1.51
11155021--11155097	24	3.0	24	67	20	64	2	51	2	42	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11156635--11156668	15	2.3	15	89	0	50	8	8	47	35	1.66
11157685--11157778	48	2.0	48	89	0	143	46	14	10	27	1.78
11159801--11159834	7	4.9	7	96	0	59	70	26	0	2	1.01
11167501--11167608	54	2.0	54	100	0	216	29	18	12	38	1.88
11168026--11168054	2	14.5	2	100	0	58	51	0	0	48	1.00
11168047--11168252	67	3.1	66	81	6	265	45	15	6	32	1.72
11168044--11168248	64	3.2	63	81	6	257	45	15	6	31	1.72
11170596--11170634	18	2.2	18	85	0	51	51	0	41	7	1.31
11174627--11174681	20	2.8	18	83	10	56	20	5	0	74	1.01
11179007--11179031	12	2.1	12	100	0	50	52	8	16	24	1.70
11182895--11183118	44	5.1	44	66	6	130	25	25	26	22	2.00
11182836--11183563	88	8.3	88	82	2	750	27	24	25	23	2.00
11182839--11183563	176	4.1	176	84	3	861	27	24	25	23	2.00
11183334--11183476	44	3.2	44	69	11	139	25	25	24	24	2.00
11182839--11183556	263	2.7	265	82	3	840	27	24	25	23	2.00
11183542--11184163	44	14.1	44	73	10	441	29	15	25	29	1.96
11183550--11184163	132	4.7	131	91	1	953	28	15	25	29	1.96
11183550--11184163	262	2.3	264	91	0	989	28	15	25	29	1.96
11185514--11185576	3	21.7	3	95	3	103	28	0	1	69	0.97
11185585--11185635	23	2.3	21	86	6	66	37	5	3	52	1.44
11185585--11185635	21	2.3	21	90	6	75	37	5	3	52	1.44
11185597--11185639	19	2.3	18	84	15	52	34	2	2	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11189342--11189437	44	2.2	44	90	1	147	39	10	22	27	1.87
11189455--11189995	50	10.8	50	92	0	841	25	20	31	21	1.98
11190521--11190608	44	2.0	44	100	0	176	29	15	9	45	1.77
11196898--11196929	9	3.6	9	91	0	55	31	3	21	43	1.68
11196965--11197008	9	4.9	9	94	0	79	36	0	20	43	1.52
11196959--11197008	18	2.8	18	93	0	82	36	2	18	44	1.61
11197017--11197043	13	2.1	13	100	0	54	37	11	0	51	1.37
11197303--11197340	18	2.0	20	85	10	53	50	5	0	44	1.24
11199823--11199866	22	2.0	22	82	8	54	59	11	2	27	1.44
11201727--11201969	50	4.8	50	88	0	342	21	30	21	26	1.98
11206623--11206655	13	2.8	12	86	13	50	27	15	18	39	1.90
11207221--11207418	50	3.8	50	89	4	270	24	21	29	24	1.99
11208806--11208892	41	2.1	41	80	4	95	18	24	12	44	1.84
11215221--11215330	41	2.7	41	89	0	166	31	20	25	21	1.98
11215304--11215356	26	2.0	26	88	0	79	18	22	33	24	1.97
11223607--11223670	27	2.4	27	89	0	92	34	17	14	34	1.89
11224117--11224143	5	5.4	5	100	0	54	37	0	0	62	0.95
11225412--11225459	20	2.4	19	82	6	51	33	6	16	43	1.73
11229083--11229631	272	2.0	271	95	1	992	32	17	13	36	1.89
11248132--11248171	20	2.0	20	85	9	55	22	27	0	50	1.50
11258338--11258366	13	2.2	13	100	0	58	68	0	6	24	1.13
11258361--11258412	18	2.8	18	72	16	52	61	0	1	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11258633--11258766	48	2.8	46	79	13	139	30	5	2	61	1.33
11258660--11258755	46	2.1	46	82	7	115	31	6	2	60	1.33
11258747--11258796	18	2.7	18	81	6	55	26	2	2	70	1.09
11258876--11259055	91	2.0	92	84	7	244	33	9	18	37	1.84
11260578--11260703	9	14.2	9	69	20	61	65	1	2	30	1.14
11260657--11260699	18	2.4	19	88	11	72	72	0	4	23	1.04
11260668--11260703	8	4.2	8	86	13	54	75	0	2	22	0.94
11260657--11260703	8	5.3	9	78	14	53	72	0	4	23	1.02
11260565--11260736	91	1.9	90	80	11	199	62	1	5	30	1.24
11260935--11260989	28	2.0	28	85	0	74	29	0	3	67	1.08
11261039--11261260	91	2.4	91	84	8	290	36	8	21	34	1.83
11261045--11261269	93	2.5	90	82	7	276	35	8	20	35	1.83
11266509--11266539	13	2.4	13	100	0	62	25	32	19	22	1.97
11267302--11267414	44	2.5	45	85	1	156	24	21	14	39	1.90
11269602--11269870	141	1.9	141	78	9	296	44	14	11	29	1.81
11273888--11274051	46	3.6	46	84	3	197	30	23	18	27	1.98
11275959--11276010	25	2.1	25	96	0	95	36	0	44	19	1.51
11283115--11283172	9	6.4	9	80	7	73	24	10	24	41	1.86
11283225--11283261	9	4.1	9	92	0	65	45	13	10	29	1.77
11286627--11286688	19	3.3	19	73	8	72	66	8	8	17	1.42
11286610--11286689	38	2.1	38	100	0	160	63	11	10	15	1.51
11293607--11293641	17	2.1	17	94	0	61	45	17	5	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11293611--11293649	17	2.3	17	86	0	51	43	15	2	38	1.60
11300661--11300732	2	37.0	2	77	5	67	45	4	0	50	1.21
11300665--11300735	16	4.6	16	81	13	94	45	5	0	49	1.26
11301882--11301914	2	16.5	2	93	0	57	51	3	0	45	1.16
11306671--11306733	28	2.3	27	83	10	74	68	3	0	28	1.05
11306674--11306733	27	2.2	27	82	14	70	70	3	0	26	1.03
11309720--11309749	15	1.9	16	93	6	53	13	0	13	73	1.10
11312696--11312728	3	11.0	3	100	0	66	33	33	0	33	1.58
11313333--11313366	15	2.2	16	94	5	61	35	0	0	64	0.94
11313923--11313973	25	2.0	25	81	7	59	45	1	1	50	1.24
11329014--11329086	25	2.9	25	81	0	92	34	16	17	31	1.93
11332198--11332295	52	1.9	51	91	2	160	31	14	10	43	1.78
11332197--11332297	26	3.9	25	84	6	130	33	13	9	42	1.78
11335983--11336036	27	2.0	26	82	10	65	22	1	1	74	1.02
11339215--11339263	18	2.6	19	78	18	57	22	2	2	73	1.04
11339206--11339263	22	2.6	22	78	10	73	22	1	3	72	1.09
11341647--11341675	14	2.1	14	100	0	58	20	0	6	72	1.07
11343330--11343428	43	2.3	43	92	0	171	22	17	26	34	1.95
11344450--11344536	44	2.0	43	93	2	147	32	17	13	36	1.89
11350461--11350486	5	5.2	5	100	0	52	38	19	19	23	1.93
11350856--11350903	19	2.6	19	78	18	57	60	0	2	37	1.09
11351015--11351045	16	1.9	16	93	0	53	45	0	29	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11351474--11351504	9	3.4	9	90	0	53	38	22	12	25	1.90
11354165--11354230	30	2.2	30	83	2	80	31	9	25	33	1.87
11354629--11354698	16	4.4	16	88	0	86	31	0	35	32	1.58
11354639--11354700	32	1.9	32	90	0	97	33	0	37	29	1.58
11354677--11354786	45	2.6	43	80	9	129	33	5	29	31	1.80
11354932--11354966	18	2.0	17	88	5	52	54	0	0	45	0.99
11354908--11355269	120	3.0	120	93	0	600	50	4	1	43	1.30
11363382--11363411	15	2.0	15	93	0	51	20	36	0	43	1.52
11364093--11364205	50	2.3	51	84	4	142	30	23	23	23	1.99
11364109--11364205	25	3.9	25	77	8	99	30	23	23	21	1.99

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