genome.fa.s13.2.7.7.80.10.50.1000.193.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  193  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)
56052194--56052255	22	3.0	21	90	4	90	32	0	9	58	1.31
56052194--56052255	20	3.0	20	86	6	79	32	0	9	58	1.31
56052398--56052727	27	13.8	25	74	19	255	32	0	12	54	1.43
56052388--56052638	49	5.2	49	88	1	382	32	0	12	54	1.41
56052392--56052632	97	2.5	97	94	2	423	31	0	12	55	1.41
56052534--56052651	19	5.6	19	72	21	83	33	0	12	54	1.38
56052657--56052706	22	2.5	19	76	17	55	32	2	14	52	1.53
56052420--56052780	49	7.5	49	76	17	213	31	0	13	54	1.44
56052527--56052774	115	2.1	114	89	6	352	32	0	14	52	1.44
56056374--56056398	2	12.5	2	100	0	50	52	0	0	48	1.00
56065121--56065303	101	1.8	101	83	2	242	29	13	20	36	1.91
56066906--56066943	19	2.0	19	85	10	51	18	13	13	55	1.69
56071581--56071633	25	2.2	25	96	3	99	69	0	0	30	0.88
56071561--56071634	25	2.9	25	84	9	96	66	1	0	32	1.00
56071561--56071644	25	3.4	25	80	9	91	66	1	0	32	0.99
56071589--56071644	24	2.3	25	87	3	78	71	0	0	28	0.86
56071592--56071669	34	2.4	32	85	8	95	70	0	1	28	0.95
56071651--56071695	6	7.3	6	92	5	63	77	0	0	22	0.76
56071581--56071693	60	1.9	59	81	5	138	70	0	0	28	0.93
56071652--56071693	13	3.3	13	86	6	59	80	0	0	19	0.70
56077876--56077923	25	1.9	25	91	0	78	60	0	4	35	1.16
56080167--56080211	24	2.0	22	83	12	56	77	2	15	4	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56086993--56087017	9	2.8	9	100	0	50	60	24	8	8	1.52
56087721--56087745	12	2.1	12	100	0	50	92	0	8	0	0.40
56088323--56088379	29	2.0	29	89	0	87	49	17	10	22	1.77
56090109--56090143	6	5.8	6	86	0	52	31	0	54	14	1.40
56094455--56094492	18	2.1	18	100	0	76	55	5	10	28	1.56
56094458--56094502	18	2.5	18	89	7	65	60	4	13	22	1.51
56101052--56101100	22	2.2	24	82	14	68	55	0	2	42	1.11
56101087--56101158	29	2.5	29	90	2	110	61	0	2	36	1.11
56101065--56101188	40	3.2	38	81	15	130	59	0	2	37	1.10
56101153--56101197	17	2.6	17	85	0	54	62	0	0	37	0.96
56104918--56104942	13	1.9	13	100	0	50	36	0	0	64	0.94
56108908--56108954	2	23.5	2	100	0	94	51	0	0	48	1.00
56111806--56111849	17	2.5	17	74	3	52	70	0	2	27	0.99
56115424--56115479	29	1.9	29	85	7	78	37	12	8	41	1.74
56118238--56118267	11	2.6	11	94	5	51	50	0	0	50	1.00
56118257--56118313	19	2.8	21	76	12	57	47	0	3	49	1.18
56121629--56121694	31	2.1	31	83	5	80	21	9	7	62	1.50
56122343--56122384	19	2.0	22	86	13	63	45	0	0	54	0.99
56123717--56123779	31	2.0	31	87	6	92	42	6	9	41	1.63
56124591--56124629	5	7.8	5	100	0	78	20	0	0	79	0.73
56138141--56138172	16	1.9	17	93	6	57	37	3	3	56	1.31
56138735--56138851	37	2.9	38	81	11	119	61	0	2	35	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56138786--56138851	21	3.3	20	78	21	68	60	0	3	36	1.12
56138822--56138860	20	1.9	21	94	5	71	61	0	2	35	1.10
56138790--56138874	28	3.0	27	77	11	82	63	0	2	34	1.07
56142217--56142262	18	2.4	20	85	7	60	67	2	30	0	1.03
56152368--56152423	25	2.2	25	90	6	87	62	1	3	32	1.23
56152375--56152486	25	4.5	25	72	15	97	59	0	3	36	1.15
56152383--56152486	37	2.8	37	83	15	151	58	0	3	37	1.16
56152828--56152858	15	2.1	15	93	0	53	22	9	9	58	1.59
56154790--56154815	3	8.7	3	100	0	52	34	0	0	65	0.93
56155056--56155179	32	3.7	31	73	19	115	40	2	0	57	1.12
56155057--56155220	37	4.4	37	73	14	131	39	3	0	56	1.17
56155049--56155216	71	2.4	71	96	2	311	39	4	0	55	1.21
56155576--56155619	24	1.9	24	90	9	74	36	0	2	61	1.09
56155716--56155743	9	3.1	9	100	0	56	57	10	0	32	1.33
56155686--56155886	59	3.1	68	83	13	298	44	8	5	40	1.59
56155875--56155916	16	2.6	16	92	0	66	42	7	2	47	1.43
56155890--56155963	22	3.3	22	88	3	103	45	1	1	51	1.18
56164743--56164771	13	2.1	14	93	6	51	58	3	31	6	1.41
56174767--56174871	52	2.0	52	94	0	183	44	12	15	27	1.82
56174895--56174930	9	4.1	9	92	7	65	0	86	0	13	0.58
56174897--56174928	8	3.9	8	95	4	55	0	90	0	9	0.45
56174897--56174930	17	2.0	17	100	0	68	0	88	0	11	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56181514--56181588	31	2.6	28	74	21	73	20	4	13	62	1.46
56181546--56181580	17	1.9	19	88	11	56	20	2	11	65	1.37
56205444--56205496	23	2.6	21	83	16	67	41	9	5	43	1.61
56206134--56206633	245	2.0	245	95	0	901	36	14	13	36	1.85
56211217--56211295	28	2.7	30	70	7	72	44	3	17	34	1.67
56211532--56211592	28	2.2	28	90	0	95	24	24	13	37	1.91
56214526--56214552	8	3.4	8	100	0	54	55	0	0	44	0.99
56214534--56214591	30	1.9	31	85	3	82	53	1	6	37	1.38
56216982--56217007	7	3.7	7	100	0	52	73	11	0	15	1.11
56219263--56219300	16	2.4	16	95	0	67	36	0	2	60	1.11
56220111--56220160	16	3.2	15	88	5	64	42	0	2	56	1.11
56218777--56221336	861	3.0	856	92	1	4200	36	13	16	33	1.88
56220967--56221017	16	3.2	16	85	0	66	39	0	0	60	0.97
56224455--56224531	26	3.1	25	88	5	111	19	24	20	35	1.96
56227537--56227575	2	19.5	2	100	0	78	51	0	0	48	1.00
56228296--56228334	17	2.4	16	84	16	53	0	15	10	74	1.07
56234560--56234588	15	2.0	15	93	6	51	51	0	0	48	1.00
56236287--56236366	36	2.3	35	89	4	117	53	11	1	33	1.44
56236679--56236712	17	2.0	17	100	0	68	17	11	23	47	1.81
56238925--56238951	2	13.5	2	100	0	54	48	0	0	51	1.00
56240861--56240926	18	3.3	18	70	22	60	31	21	3	43	1.67
56245973--56246005	17	1.9	18	88	11	52	42	12	0	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56247991--56248036	22	2.1	21	88	4	65	47	34	2	15	1.57
56255747--56255780	2	17.0	2	93	0	59	2	0	47	50	1.16
56264329--56264407	31	2.6	30	78	5	88	37	10	12	39	1.77
56265714--56265794	40	2.0	40	97	0	153	30	23	14	30	1.95
56269033--56269113	38	2.1	38	97	0	153	46	14	2	35	1.58
56269824--56269895	35	2.1	35	100	0	144	44	13	13	27	1.82
56277391--56277442	10	5.3	10	81	2	61	30	0	1	67	1.02
56279410--56279470	32	1.9	32	100	0	122	37	13	14	34	1.85
56281048--56281243	98	2.0	98	100	0	392	21	11	16	51	1.75
56289173--56289201	6	4.8	6	100	0	58	34	31	0	34	1.58
56309974--56310037	30	2.1	31	94	5	114	35	3	0	60	1.12
56310719--56310758	21	2.0	20	85	5	53	47	7	2	42	1.45
56310922--56310952	16	1.9	16	93	0	53	35	6	9	48	1.62
56311644--56311697	23	2.3	23	77	3	63	42	0	0	57	0.98
56312907--56312961	19	2.8	20	78	10	69	60	3	0	36	1.15
56313156--56313211	28	2.0	29	86	10	80	55	1	0	42	1.10
56313161--56313244	37	2.2	38	79	12	111	60	2	0	36	1.10
56313197--56313249	20	2.6	19	74	11	52	62	1	0	35	1.06
56313609--56313639	16	1.9	16	100	0	62	38	6	16	38	1.74
56313610--56313647	16	2.4	16	90	0	58	44	5	10	39	1.61
56314074--56314100	2	13.5	2	100	0	54	48	0	0	51	1.00
56314352--56314414	33	2.0	31	81	12	74	26	6	4	61	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56314407--56314487	36	2.3	35	81	14	94	27	9	8	54	1.62
56316196--56316297	42	2.4	43	95	3	188	45	22	5	26	1.75
56317258--56317306	20	2.5	20	77	12	55	55	0	0	44	0.99
56318966--56319392	169	2.5	169	97	0	784	38	24	4	32	1.77
56321568--56321627	10	6.2	9	75	17	50	60	3	0	36	1.14
56321583--56321621	21	1.9	20	94	5	69	58	0	0	41	0.98
56321582--56321631	10	5.0	10	79	15	59	60	0	0	40	0.97
56321571--56321636	30	2.2	31	89	8	100	54	3	0	42	1.15
56324197--56324254	30	1.9	30	92	0	98	24	22	18	34	1.96
56328365--56328451	44	2.0	44	88	0	129	31	18	22	27	1.97

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