genome.fa.s13.2.7.7.80.10.50.1000.57.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  57  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)
16750809--16751429	134	4.7	132	80	7	531	30	20	23	25	1.98
16750812--16751443	178	3.5	178	84	2	831	30	19	23	25	1.98
16751551--16751645	51	2.0	48	82	12	115	30	20	24	25	1.98
16751352--16751619	143	1.9	143	85	1	376	28	19	23	27	1.98
16751567--16751670	51	2.0	51	90	0	163	31	18	22	27	1.97
16751304--16751785	194	2.5	195	82	6	551	29	20	21	28	1.98
16751731--16752161	45	9.7	45	65	12	136	29	22	21	26	1.99
16751736--16752290	89	6.2	89	85	0	633	29	22	21	26	1.99
16751933--16752234	45	6.8	46	68	14	159	29	22	22	25	1.99
16751971--16752198	44	5.1	44	67	14	135	28	24	23	23	2.00
16752288--16752563	131	2.1	133	86	4	380	30	19	25	25	1.98
16756735--16756766	12	2.6	13	85	14	50	56	6	0	37	1.25
16758140--16758187	17	2.7	17	80	6	51	56	4	0	39	1.19
16758146--16758215	27	2.5	27	81	9	70	61	1	2	34	1.20
16767518--16767694	50	3.4	50	82	4	201	20	27	22	29	1.99
16771414--16771477	24	2.6	25	80	9	69	73	4	3	18	1.14
16771414--16771478	25	2.6	26	78	7	71	73	4	3	18	1.13
16773348--16773580	50	4.7	50	82	2	238	23	28	21	26	1.99
16773397--16773588	50	3.8	50	85	0	240	22	30	21	26	1.99
16776574--16776600	14	1.9	14	100	0	54	14	22	14	48	1.81
16780158--16780364	50	4.3	50	80	11	241	22	29	22	25	1.99
16780237--16780364	44	2.8	45	86	7	177	25	32	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16780194--16780364	94	1.8	94	88	2	263	23	30	21	23	1.99
16789375--16789431	30	1.9	29	82	10	71	33	10	12	43	1.76
16790091--16790387	126	2.4	126	85	2	382	37	18	17	27	1.93
16790462--16790527	25	2.6	25	88	4	89	53	1	21	24	1.55
16796984--16797044	30	2.0	30	100	0	122	26	19	9	44	1.82
16803461--16803504	21	2.1	21	82	0	52	27	6	2	63	1.31
16808454--16808551	1	98.0	1	67	0	52	83	4	11	1	0.83
16808477--16808552	6	13.0	6	80	16	81	82	0	15	1	0.73
16808454--16808551	35	2.8	35	80	14	112	83	4	11	1	0.83
16808835--16809019	97	1.9	93	90	4	289	26	16	10	47	1.78
16809902--16810520	44	14.2	43	69	9	324	28	20	25	25	1.99
16809899--16810604	131	5.4	131	90	2	1103	28	20	25	25	1.99
16809946--16810368	87	4.9	87	70	12	294	28	20	25	24	1.99
16810536--16810724	88	2.2	88	90	2	292	28	19	25	26	1.98
16810742--16811076	183	1.8	183	89	1	528	31	19	21	27	1.98
16812459--16812567	18	5.6	18	69	13	65	28	7	1	62	1.32
16812520--16812567	21	2.4	20	83	13	55	31	4	0	64	1.12
16812515--16812578	29	2.2	29	78	13	69	28	4	1	65	1.21
16824611--16824647	19	1.9	19	88	0	56	13	18	13	54	1.71
16826860--16826902	22	2.0	22	85	0	59	67	11	4	16	1.38
16827204--16827238	18	1.9	18	88	0	52	40	2	2	54	1.30
16834288--16834318	14	2.3	13	94	5	53	35	38	25	0	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16836496--16836525	15	2.0	15	100	0	60	20	20	20	40	1.92
16841370--16841482	21	5.4	21	68	4	75	38	15	24	21	1.91
16841362--16841482	42	2.9	42	80	4	136	38	16	24	19	1.92
16841463--16841511	20	2.4	21	79	3	55	44	16	20	18	1.86
16843374--16843412	17	2.3	17	91	8	62	56	12	0	30	1.37
16844306--16844351	17	2.6	18	73	13	51	41	2	4	52	1.33
16859498--16859536	19	2.0	19	90	5	60	61	0	5	33	1.18
16861873--16861934	20	3.1	20	76	0	61	32	11	12	43	1.79
16885876--16885945	26	2.7	26	79	0	86	45	17	11	25	1.81
16891643--16891678	17	2.1	17	100	0	72	41	0	22	36	1.54
16907602--16907647	23	2.0	23	100	0	92	21	17	17	43	1.88
16908381--16908439	29	2.0	29	93	0	100	35	27	18	18	1.94
16925031--16925098	30	2.2	31	84	2	84	47	7	19	26	1.75
16929011--16929261	101	2.5	101	85	3	321	30	16	25	27	1.96
16929037--16929216	33	5.4	33	70	7	103	31	16	24	28	1.96
16931348--16931433	31	2.8	31	87	1	120	30	11	17	40	1.85
16931356--16931446	31	3.0	31	85	1	112	29	10	18	40	1.85
16931585--16931700	43	2.7	43	87	0	169	31	17	27	24	1.97
16959065--16959326	75	3.5	74	77	6	242	27	21	14	36	1.92
16959309--16959535	105	2.2	105	80	0	256	36	17	12	33	1.88
16959348--16959708	173	2.1	173	85	0	470	34	18	14	32	1.90
16959519--16959950	105	4.1	105	79	5	426	31	18	15	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16959265--16959793	278	1.9	278	81	1	648	32	18	14	33	1.92
16973898--16973938	20	2.1	20	82	13	50	73	0	9	17	1.09
16976144--16976200	25	2.1	26	84	15	80	28	0	3	68	1.06
16976144--16976238	25	3.9	24	76	12	79	30	1	5	63	1.23
16980922--16981006	44	1.9	44	100	0	170	29	10	15	44	1.80
16982879--16982928	26	1.9	26	84	8	66	46	18	8	28	1.77
16991845--16991906	3	20.7	3	89	0	88	62	1	4	30	1.25
17000083--17000268	50	3.7	50	90	0	282	24	23	32	19	1.98
17011194--17011250	29	2.0	29	89	0	87	35	22	21	21	1.96
17018632--17018668	20	1.9	20	88	5	58	16	5	16	62	1.51
17029906--17030084	33	5.4	32	71	7	115	31	14	25	28	1.95
17029874--17030086	101	2.1	101	88	1	320	30	14	26	28	1.95
17030088--17030113	13	2.0	13	100	0	52	38	23	30	7	1.83
17032044--17032185	31	4.7	30	80	5	124	33	6	16	43	1.74
17032054--17032136	30	2.7	30	88	1	112	36	4	14	44	1.66
17050426--17050452	14	1.9	14	100	0	54	70	7	0	22	1.12
17076125--17076188	26	2.5	26	76	0	74	46	20	10	21	1.81
17087582--17087654	3	24.3	3	88	0	110	32	4	1	61	1.23
17087731--17087789	18	3.2	20	76	9	54	37	3	1	57	1.25
17093987--17094021	9	3.8	9	96	3	61	71	17	0	11	1.14
17093986--17094020	10	3.6	10	92	7	63	74	17	0	8	1.06
17094029--17094091	11	5.9	10	81	9	63	79	0	17	3	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17094032--17094093	27	2.3	27	81	10	74	77	0	19	3	0.90
17094053--17094091	6	7.0	6	88	11	57	82	0	17	0	0.68
17094054--17094089	5	6.8	5	90	9	54	83	0	16	0	0.65
17094100--17094184	44	1.9	45	90	7	138	40	16	25	17	1.90
17095372--17096120	89	8.4	89	82	2	804	28	24	22	24	1.99
17096317--17096475	51	3.2	50	77	6	155	28	20	23	28	1.99
17096351--17096530	97	1.9	96	84	3	245	28	21	22	27	1.99
17096541--17096627	44	2.0	44	88	0	129	29	21	24	24	1.99
17098159--17098219	3	20.3	3	93	0	104	32	3	0	63	1.10
17098161--17098228	12	5.7	12	94	0	109	33	5	0	60	1.21
17098303--17098360	25	2.4	23	76	15	55	34	1	1	62	1.16
17098318--17098365	20	2.4	21	79	6	55	37	0	0	62	0.95
17114020--17114071	24	2.2	24	89	0	77	42	5	3	48	1.45
17114020--17114082	24	2.6	24	85	5	65	41	6	6	46	1.55
17117873--17117967	44	2.2	44	86	5	131	49	4	0	46	1.21
17121919--17121953	17	2.0	18	88	5	54	11	40	25	22	1.88
17133620--17133684	23	2.8	23	83	4	69	36	13	23	26	1.92
17133916--17133956	17	2.4	17	95	0	73	43	7	4	43	1.53
17133974--17134006	15	2.2	15	89	10	50	45	6	3	45	1.43
17137094--17137151	29	2.0	29	87	9	84	29	31	17	22	1.96
17142891--17142935	22	2.1	21	83	4	54	48	8	0	42	1.34
17143146--17143372	51	4.5	50	66	18	128	42	9	3	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17143112--17143552	151	2.9	149	86	7	566	42	10	4	42	1.58
17145034--17145143	23	4.8	23	78	6	116	40	12	18	29	1.87
17145399--17145432	16	2.2	15	89	5	50	47	5	0	47	1.26
17181699--17181767	31	2.2	31	89	5	104	39	15	8	36	1.79
17188001--17188047	24	1.9	24	86	4	67	36	0	38	25	1.56
17188737--17188869	27	5.0	26	85	8	160	42	21	15	21	1.88
17188737--17188869	54	2.5	53	86	6	178	42	21	15	21	1.88
17188737--17188885	54	2.8	54	83	1	165	42	19	16	20	1.89
17193914--17193948	18	1.9	18	88	0	52	42	2	34	20	1.66
17202605--17202669	26	2.4	27	79	5	78	40	23	20	16	1.92

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