genome.fa.s13.2.7.7.80.10.50.1000.96.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  96  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)
29383648--29383723	14	5.0	15	74	22	70	43	17	5	34	1.71
29383957--29383995	15	2.5	17	76	23	50	56	0	23	20	1.42
29385263--29385290	6	4.7	6	100	0	56	50	50	0	0	1.00
29386718--29386751	17	2.0	17	88	0	50	29	0	2	67	1.05
29391265--29391315	21	2.4	22	76	3	59	47	0	0	52	1.00
29391278--29391326	22	2.3	22	86	10	66	38	0	2	59	1.09
29391318--29391357	19	2.2	18	90	4	62	45	0	0	55	0.99
29391322--29391365	19	2.3	19	84	7	54	50	0	0	50	1.00
29392690--29392720	2	16.0	2	93	6	55	48	0	0	51	1.00
29398582--29398608	2	13.5	2	100	0	54	51	0	0	48	1.00
29414023--29414066	14	3.2	13	84	15	54	81	0	2	15	0.78
29414022--29414072	23	2.2	23	82	3	57	78	1	5	13	1.02
29417307--29417636	82	3.9	84	79	7	265	43	12	14	29	1.82
29417301--29417700	87	4.7	86	79	6	366	43	12	14	30	1.82
29417389--29417700	173	1.8	172	82	4	405	43	11	14	30	1.81
29417839--29418826	502	2.0	502	95	0	1796	39	14	15	30	1.87
29426755--29426987	68	3.4	67	82	5	315	24	16	30	28	1.97
29427081--29427306	71	3.2	71	85	0	344	23	18	24	33	1.97
29427335--29427379	21	2.1	21	95	0	81	33	15	26	24	1.95
29427356--29427940	71	8.3	71	81	4	567	24	15	24	35	1.94
29427356--29427939	213	2.8	213	80	3	637	24	15	24	35	1.94
29427786--29427910	64	2.0	64	85	3	171	24	16	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29427851--29428024	92	1.9	92	82	4	217	25	16	24	33	1.95
29427938--29428299	71	5.1	71	79	2	341	23	16	24	35	1.95
29427938--29428299	142	2.5	141	79	3	388	23	16	24	35	1.95
29428907--29429046	75	1.9	75	84	3	192	30	16	11	42	1.83
29430185--29430227	17	2.4	18	84	3	52	72	4	2	20	1.14
29431096--29431147	21	2.3	23	80	9	63	67	0	21	11	1.22
29440905--29441045	75	1.9	75	83	5	187	29	14	11	44	1.80
29442833--29442881	23	2.1	23	96	0	89	44	4	32	18	1.68
29447478--29447526	23	2.1	23	96	0	89	44	4	32	18	1.68
29453935--29454021	20	4.3	20	78	10	97	27	8	17	47	1.75
29457572--29457653	41	2.0	41	97	0	155	46	8	2	42	1.47
29471210--29471263	20	2.6	21	72	16	58	37	7	12	42	1.72
29478671--29479045	186	2.0	185	92	0	615	42	16	13	27	1.85
29479416--29479673	132	2.0	131	87	8	375	39	6	5	48	1.52
29486287--29486317	16	1.9	16	93	0	53	48	0	0	51	1.00
29488985--29489036	5	10.2	5	82	12	61	36	15	25	23	1.93
29488985--29489036	26	2.0	26	85	7	70	36	15	25	23	1.93
29489680--29489739	30	2.0	31	83	9	79	40	1	38	20	1.62
29493596--29493639	20	2.2	20	84	4	63	25	31	2	40	1.68
29493874--29493926	18	3.1	17	78	10	63	49	3	0	47	1.19
29494357--29494397	10	4.1	10	87	9	57	48	0	0	51	1.00
29494349--29494397	10	5.1	9	83	9	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29496610--29496641	13	2.5	13	100	0	64	37	46	15	0	1.46
29499556--29499867	43	7.4	43	82	2	337	29	30	17	22	1.97
29502506--29502887	78	4.9	78	85	6	492	38	3	14	43	1.62
29502957--29503137	78	2.3	78	80	5	199	38	2	17	41	1.61
29503535--29503767	41	5.7	41	88	1	324	27	21	27	24	1.99
29510556--29510795	41	5.8	41	86	3	286	28	20	26	25	1.99
29513067--29513104	19	2.0	20	89	5	60	52	5	2	39	1.38
29519728--29519794	26	2.6	26	95	0	116	20	20	19	38	1.93
29521582--29521637	22	2.5	22	88	2	76	21	3	16	58	1.52
29524363--29524409	17	3.1	16	85	11	55	42	8	0	48	1.33
29526934--29527027	48	2.0	48	82	0	116	37	18	12	31	1.88
29527020--29527153	67	2.0	67	92	0	223	53	6	12	26	1.63
29531839--29531877	13	3.1	12	92	7	60	30	0	0	69	0.89
29532638--29532691	18	3.0	17	78	10	54	59	0	1	38	1.08
29534791--29534851	29	2.1	28	82	8	70	40	3	0	55	1.16
29556786--29556858	29	2.5	29	78	17	80	46	12	13	27	1.79
29556929--29556960	14	2.3	14	94	0	55	0	15	0	84	0.63
29563693--29563770	23	3.4	23	83	3	95	41	28	15	15	1.87
29564850--29564899	12	4.2	12	92	0	64	28	6	22	44	1.76
29564857--29564900	4	11.0	4	90	0	70	27	2	22	47	1.63
29574593--29574631	20	2.0	20	100	0	78	41	5	12	41	1.65
29576940--29576977	19	2.0	19	94	0	67	34	31	7	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29577592--29577652	20	3.0	20	72	15	63	59	0	3	37	1.14
29577996--29578089	9	10.4	9	82	0	107	42	22	7	27	1.80
29580242--29580283	21	1.9	23	85	9	61	35	0	35	28	1.58
29582517--29582557	21	2.0	21	85	0	55	46	21	17	14	1.84
29584986--29585083	28	3.4	27	73	6	88	17	18	16	47	1.82
29585235--29585379	77	1.9	77	97	0	272	40	6	16	35	1.75
29596118--29596180	31	2.0	31	100	0	126	42	12	22	22	1.87
29599165--29599211	15	3.3	15	72	22	55	46	10	0	42	1.38
29599167--29599212	12	3.3	14	74	20	51	45	10	0	43	1.39
29602392--29602436	23	2.0	23	91	4	74	46	17	4	31	1.68
29602389--29602446	22	2.6	22	86	7	82	43	18	3	34	1.68
29602402--29602459	19	2.8	20	84	10	64	39	17	6	36	1.76
29602669--29602697	5	5.8	5	100	0	58	41	17	20	20	1.90
29602799--29602855	29	2.0	29	82	6	71	29	17	14	38	1.89
29603095--29603147	22	2.4	22	81	6	63	33	28	0	37	1.58
29603198--29603236	19	2.0	20	85	9	55	41	0	0	58	0.98
29603181--29603235	27	2.0	28	86	10	78	38	0	3	58	1.16
29603333--29603366	15	2.3	15	90	5	52	26	0	5	67	1.13
29605512--29606176	29	23.3	29	85	8	852	44	22	0	32	1.59
29605693--29605736	23	2.0	22	95	4	79	43	25	0	31	1.55
29606096--29606153	23	2.5	23	94	0	98	44	29	0	25	1.54
29609463--29609737	125	2.2	125	89	4	414	32	20	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29610781--29610841	30	2.0	31	83	3	79	37	0	39	22	1.55
29610890--29610926	9	4.1	9	92	0	65	29	10	13	45	1.77
29621648--29621735	37	2.4	37	80	0	104	29	18	14	37	1.91
29622561--29622613	22	2.3	23	84	9	65	47	11	3	37	1.58
29625073--29625219	41	3.6	41	85	4	165	23	17	29	28	1.97
29625563--29625593	15	2.1	15	93	0	53	19	0	45	35	1.51
29625630--29625688	16	3.9	14	79	14	55	23	1	44	30	1.64
29625636--29625678	16	2.7	16	85	10	61	20	2	44	32	1.65
29625864--29625910	14	3.3	15	88	8	71	25	0	34	40	1.56
29625894--29625946	21	2.5	22	82	14	67	22	0	35	41	1.54
29626365--29626510	72	2.0	72	96	1	267	51	8	8	30	1.64
29628155--29628182	6	4.7	6	100	0	56	14	17	0	67	1.22
29629658--29629994	86	3.9	85	83	3	363	31	9	17	42	1.81
29629970--29630091	40	3.0	40	82	4	113	30	7	13	49	1.69
29630400--29630428	14	2.1	14	100	0	58	20	0	6	72	1.07
29632085--29632354	43	6.3	42	85	4	317	19	16	29	34	1.94
29632114--29632354	85	2.8	85	88	1	329	19	17	29	33	1.95
29632114--29632354	128	1.9	128	86	1	349	19	17	29	33	1.95
29633295--29633319	2	12.5	2	100	0	50	48	0	0	52	1.00
29633774--29633810	15	2.2	18	86	13	53	54	0	24	21	1.45
29635476--29635523	17	2.9	17	82	11	55	16	4	2	77	1.03
29635496--29635587	37	2.5	37	77	18	102	21	9	1	67	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29645700--29645755	20	2.6	22	83	13	80	42	8	16	32	1.79
29646536--29646649	62	1.9	59	87	5	165	50	3	3	42	1.36
29646628--29646676	20	2.7	18	77	22	57	51	4	2	42	1.32
29655765--29655811	25	2.0	23	88	12	69	42	8	6	42	1.60
29658103--29658129	14	1.9	14	100	0	54	40	29	7	22	1.81
29660914--29661022	42	2.6	42	92	0	182	20	30	24	24	1.99
29678099--29678333	117	2.0	118	88	2	348	44	16	13	25	1.85
29678387--29678440	27	2.0	27	92	0	90	37	3	12	46	1.60
29684525--29684632	53	2.0	53	94	0	189	37	10	13	38	1.79
29698615--29698676	16	3.9	16	82	0	70	37	1	32	29	1.67

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