genome.fa.s13.2.7.7.80.10.50.1000.164.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  164  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)
48212239--48212277	17	2.3	17	90	0	60	12	10	10	66	1.44
48212981--48213023	14	3.1	14	80	10	52	0	30	0	69	0.88
48213037--48213070	3	11.7	3	93	6	61	0	35	0	64	0.94
48222110--48222444	173	1.9	173	90	1	537	51	11	16	20	1.75
48225658--48226061	126	3.2	126	90	0	621	31	17	21	29	1.96
48226059--48226214	22	7.3	22	70	15	105	25	1	30	41	1.66
48226223--48226273	27	1.9	26	84	4	66	33	0	27	39	1.57
48226253--48226293	7	6.0	7	88	2	57	17	0	39	43	1.49
48227522--48227547	7	3.7	7	100	0	52	57	15	0	26	1.38
48227716--48227753	20	1.9	20	84	10	51	55	7	2	34	1.43
48228717--48228827	11	10.4	11	70	15	81	44	1	30	23	1.64
48228693--48228792	51	2.0	51	88	4	148	45	2	27	26	1.65
48230676--48230728	21	2.5	21	93	0	88	30	37	9	22	1.86
48235217--48235270	23	2.2	25	78	12	60	68	1	11	18	1.28
48245148--48245210	11	5.8	11	78	10	67	73	3	1	22	1.07
48249510--48249538	3	9.7	3	100	0	58	34	0	0	65	0.93
48257579--48257632	24	2.3	24	82	17	62	9	24	7	59	1.54
48267188--48267223	16	2.2	17	90	5	56	69	0	0	30	0.89
48269509--48269540	10	3.2	10	95	0	55	46	28	6	18	1.73
48270408--48270517	41	2.7	41	83	5	141	36	21	20	21	1.95
48280518--48280549	12	2.6	13	85	14	50	37	0	6	56	1.25
48282716--48282784	30	2.5	27	79	13	79	47	18	0	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48283137--48283238	50	2.0	50	100	0	204	34	19	1	44	1.62
48283575--48283635	7	8.9	7	91	8	99	55	0	0	44	0.99
48283584--48283635	26	2.0	26	100	0	104	57	0	0	42	0.98
48283580--48283626	12	4.2	12	84	15	73	57	0	0	42	0.98
48283608--48283709	46	2.3	45	78	11	111	47	2	0	49	1.23
48285342--48285371	15	2.0	15	100	0	60	46	33	6	13	1.69
48285811--48285878	23	3.0	23	82	4	84	19	20	20	39	1.92
48286322--48286443	61	2.0	61	96	0	226	36	7	18	36	1.79
48287038--48287099	27	2.3	27	86	2	81	64	1	0	33	1.03
48290690--48290743	24	2.3	23	77	3	63	62	0	0	37	0.95
48291500--48291548	11	4.5	11	76	0	53	18	14	10	57	1.65
48291505--48291546	22	1.9	22	95	0	75	21	16	7	54	1.65
48292251--48292289	11	3.6	11	87	12	55	76	7	0	15	0.99
48296086--48296155	22	3.1	22	79	8	79	71	2	1	24	1.08
48296097--48296155	23	2.6	22	89	5	91	71	3	1	23	1.11
48296215--48296557	142	2.5	133	81	7	384	49	9	12	27	1.73
48298110--48298163	16	2.8	20	74	17	53	44	9	0	46	1.35
48298522--48298562	22	2.0	22	85	9	59	39	7	21	31	1.81
48322326--48322369	13	3.4	13	100	0	88	45	0	0	54	0.99
48323418--48323465	18	2.7	18	93	0	78	35	14	12	37	1.84
48323888--48324060	72	2.4	73	84	5	237	24	6	13	54	1.64
48329960--48330241	156	1.8	153	86	3	413	32	7	5	54	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48330398--48330695	152	2.0	152	88	4	442	52	6	9	31	1.59
48330964--48330997	18	1.9	18	88	5	52	29	0	5	64	1.17
48332035--48332152	9	13.8	8	69	21	55	61	1	2	34	1.20
48332063--48332135	18	4.1	17	81	13	76	64	1	2	31	1.16
48332272--48332322	20	2.6	19	69	6	57	35	3	0	60	1.15
48332329--48332400	31	2.4	30	72	9	74	33	4	0	62	1.14
48332405--48332617	85	2.5	82	79	8	230	30	6	23	40	1.79
48337158--48337198	14	2.9	15	78	7	50	46	17	4	31	1.69
48337150--48337212	28	2.2	28	80	0	72	41	17	6	34	1.75
48346848--48346895	3	16.0	3	100	0	96	66	0	0	33	0.92
48352792--48352826	18	1.9	18	88	0	52	0	25	34	40	1.56
48352872--48352907	6	6.0	6	100	0	72	16	0	50	33	1.46
48353109--48353143	3	11.7	3	90	0	52	2	34	34	28	1.72
48354652--48354676	13	1.9	13	100	0	50	56	0	0	44	0.99
48359936--48359960	13	1.9	13	100	0	50	32	8	8	52	1.60
48361577--48361695	44	2.7	44	88	0	166	41	17	5	36	1.72
48365733--48365781	22	2.3	22	89	3	73	22	12	24	40	1.88
48366566--48366638	23	3.3	23	66	11	71	45	2	4	47	1.36
48369850--48369884	18	2.0	17	88	5	52	45	0	0	54	0.99
48369711--48369997	156	1.8	156	97	0	547	48	6	3	41	1.44
48370049--48370139	45	2.0	45	85	2	121	37	28	6	27	1.82
48370120--48370155	16	2.2	16	100	0	72	38	36	0	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48372117--48372158	16	2.7	16	82	14	52	40	2	0	57	1.12
48376711--48376775	32	2.0	32	100	0	130	29	21	21	27	1.99
48380510--48380596	42	2.0	42	82	10	106	31	25	14	28	1.95
48380538--48380897	50	7.3	50	78	3	352	32	26	14	26	1.95
48383027--48383119	46	2.0	46	100	0	186	40	19	4	35	1.71
48392863--48392887	7	3.6	7	100	0	50	28	0	12	60	1.32
48393538--48393595	18	3.2	18	97	0	107	24	29	6	39	1.81
48393851--48393899	21	2.3	21	80	13	57	34	36	26	2	1.68
48394024--48394147	25	5.1	25	72	14	116	41	1	12	43	1.53
48394002--48394165	71	2.4	68	84	11	215	40	1	12	45	1.50
48394146--48394178	9	3.7	9	100	0	66	30	0	12	57	1.35
48394209--48394335	23	5.5	23	83	10	170	50	23	1	24	1.58
48394340--48394557	115	1.9	115	90	4	350	40	11	7	40	1.69
48397578--48397942	124	2.9	124	91	0	586	33	21	15	29	1.94
48398821--48398873	22	2.4	22	90	0	79	30	15	26	28	1.96
48398834--48398897	22	2.9	22	92	0	101	25	15	28	31	1.96
48412445--48412498	16	3.4	17	77	12	60	14	25	0	59	1.36
48422565--48422901	114	3.0	114	90	2	518	25	23	27	24	2.00
48423166--48423215	22	2.3	21	86	6	64	16	0	48	36	1.46
48423165--48423217	15	3.6	14	82	14	63	15	0	45	39	1.46
48423697--48423852	43	3.6	43	85	0	231	17	17	30	34	1.93
48423916--48423957	22	1.9	22	90	0	66	42	28	19	9	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48435015--48435048	16	2.1	16	88	0	50	38	0	2	58	1.13
48439474--48439617	74	2.0	70	88	10	211	28	3	4	63	1.29
48439567--48439605	11	3.8	11	80	19	57	33	0	0	66	0.92
48439570--48439602	10	3.4	10	83	8	50	33	0	0	66	0.92
48439806--48439831	13	2.0	13	100	0	52	53	7	0	38	1.30
48439771--48439955	95	2.0	92	93	3	316	62	5	1	30	1.29
48439901--48439926	13	2.0	13	100	0	52	53	7	0	38	1.30
48440564--48440608	22	2.0	22	82	0	54	55	0	6	37	1.26
48441211--48441480	43	6.3	43	78	4	233	29	29	18	22	1.98
48441211--48441480	86	3.2	85	78	2	265	29	29	18	22	1.98
48441211--48441460	129	1.9	128	82	5	308	28	29	19	22	1.98
48447251--48447291	21	1.9	22	85	5	57	39	39	0	21	1.54
48447627--48447667	15	2.9	15	85	7	50	36	31	0	31	1.58
48447647--48447686	21	1.9	21	89	0	62	30	47	0	22	1.52
48447660--48447690	14	2.2	14	94	0	53	32	48	0	19	1.49
48447673--48447756	21	4.1	20	71	15	73	36	35	1	26	1.64
48447775--48447835	22	2.7	24	78	12	67	42	31	1	24	1.64
48448181--48448454	41	6.7	41	89	4	392	32	29	20	17	1.96
48454981--48455228	104	2.4	104	84	2	309	20	31	24	24	1.98
48456388--48456440	18	2.9	18	80	8	54	60	0	1	37	1.08
48456515--48456591	14	5.0	15	71	20	52	42	14	9	33	1.77
48456531--48456570	20	2.0	20	90	0	62	50	12	10	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48456519--48456585	34	1.9	35	90	3	109	46	13	8	31	1.74
48458748--48458805	28	2.1	28	83	3	73	56	8	10	24	1.60
48464011--48464060	24	2.1	24	100	0	100	22	24	0	54	1.45
48467311--48467360	25	2.0	25	96	0	91	28	22	26	24	1.99
48470740--48470886	50	2.8	51	81	10	147	24	28	21	25	1.99
48476453--48476483	9	3.4	9	90	0	53	38	22	12	25	1.90
48482841--48482866	7	3.7	7	100	0	52	88	0	0	11	0.52
48482835--48482920	44	1.9	44	90	2	136	65	0	1	33	1.01
48485579--48485681	50	2.1	50	100	0	206	34	28	12	24	1.92
48487456--48487505	25	2.0	25	100	0	100	44	12	20	24	1.85

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