genome.fa.s2.2.7.7.80.10.50.1000.160.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   200   201   202   203   204   205   206   

This is table  160  of  206  ( 24623 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)
48437034--48437086	24	2.3	24	84	12	67	39	1	0	58	1.09
48437818--48437889	35	2.1	35	87	10	103	43	1	4	51	1.29
48439961--48439985	13	1.9	13	100	0	50	16	36	8	40	1.77
48440063--48440124	24	2.6	23	78	12	63	43	6	3	46	1.45
48441117--48441150	15	2.2	16	89	5	52	70	0	0	29	0.87
48443456--48443519	28	2.3	28	84	10	78	48	7	17	26	1.74
48443655--48443723	27	2.6	27	79	4	77	21	20	36	21	1.95
48445171--48445210	19	2.0	20	85	4	55	65	2	10	22	1.35
48446066--48446110	14	3.1	14	78	12	54	0	13	8	77	0.98
48449799--48449846	6	8.0	6	85	0	60	8	33	29	29	1.86
48451557--48451615	30	2.0	31	83	6	77	44	0	40	15	1.46
48451720--48451780	30	2.0	31	90	3	97	36	0	44	19	1.51
48451828--48451864	9	4.1	9	85	0	56	29	10	16	43	1.82
48451917--48451947	9	3.4	9	90	0	53	38	22	12	25	1.90
48452724--48452760	16	2.4	15	90	4	56	59	2	2	35	1.26
48453058--48453246	19	9.4	19	75	18	161	55	13	0	30	1.42
48453037--48453114	27	3.1	27	87	10	105	51	14	0	34	1.42
48453058--48453246	61	3.1	59	74	15	197	55	13	0	30	1.42
48453058--48453281	120	1.8	120	88	4	333	54	13	1	29	1.47
48453655--48453707	19	2.6	21	76	14	56	50	0	0	49	1.00
48453662--48453704	19	2.2	19	87	4	59	55	0	0	44	0.99
48455166--48455203	13	2.9	13	96	0	67	39	44	0	15	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48455200--48455231	16	2.0	16	100	0	64	62	18	0	18	1.33
48455465--48455504	9	4.4	9	93	0	62	27	10	22	40	1.86
48469949--48469995	19	2.5	19	89	0	67	23	6	23	46	1.75
48475549--48476008	229	2.0	229	97	0	875	30	16	20	32	1.95
48494117--48494163	22	2.1	22	84	0	58	46	17	17	19	1.84
48494155--48494264	32	3.5	32	75	6	107	38	20	20	20	1.94
48494381--48494492	24	4.7	24	78	8	102	46	23	7	23	1.76
48494508--48494639	27	4.9	27	77	4	106	23	19	21	34	1.96
48494508--48494685	81	2.2	81	82	3	207	21	19	21	38	1.94
48494550--48494707	27	5.9	27	81	0	109	19	17	23	39	1.92
48494550--48494894	54	6.4	54	81	3	241	22	15	21	40	1.90
48494645--48494894	27	9.3	26	78	6	230	22	15	19	42	1.88
48494565--48494894	81	4.1	81	78	5	274	22	16	20	41	1.90
48495098--48495149	17	2.8	17	80	13	50	23	44	23	9	1.82
48495926--48495965	21	1.9	21	94	0	71	62	7	15	15	1.53
48497903--48497936	9	3.9	9	88	7	52	76	0	2	20	0.92
48498787--48498819	16	2.1	16	94	0	57	45	0	0	54	0.99
48502315--48503005	357	1.9	357	85	1	938	31	17	19	31	1.95
48518820--48518911	46	2.0	46	100	0	184	23	17	28	30	1.97
48520272--48520296	12	2.1	12	100	0	50	20	32	0	48	1.50
48521742--48521793	22	2.4	22	76	0	59	32	28	17	21	1.96
48525461--48525623	87	1.9	86	87	1	236	29	13	20	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48527308--48527346	12	3.2	12	82	10	53	33	0	0	66	0.92
48527314--48527352	18	2.2	19	86	9	55	25	2	0	71	0.98
48527297--48527346	23	2.1	23	88	3	73	34	0	2	64	1.05
48529576--48529611	18	2.0	18	88	0	54	55	0	5	38	1.23
48531800--48531857	20	2.9	20	86	0	71	41	24	24	10	1.86
48533844--48533922	16	4.9	16	71	18	58	41	16	5	36	1.70
48534294--48534471	88	2.0	88	100	0	356	32	11	15	40	1.83
48539436--48539493	19	3.1	20	78	11	70	31	6	18	43	1.77
48541537--48541672	71	1.9	71	90	0	218	36	27	7	29	1.84
48549068--48549122	18	3.1	18	81	0	65	36	32	20	10	1.87
48550609--48550642	14	2.5	14	90	4	52	17	0	32	50	1.47
48554413--48554539	43	3.0	42	80	10	141	29	24	15	29	1.96
48561680--48561833	43	3.6	42	78	5	130	29	22	16	30	1.96
48567009--48567042	17	2.0	17	88	0	50	20	0	5	73	1.04
48577941--48577995	25	2.2	25	83	6	67	10	30	30	27	1.91
48578757--48578939	40	4.6	39	80	11	183	32	18	28	20	1.96
48578770--48578939	79	2.1	80	85	3	236	32	17	28	21	1.96
48579223--48579291	32	2.1	32	82	12	79	44	11	0	43	1.40
48583952--48584018	32	2.1	32	100	0	134	28	0	17	53	1.44
48585605--48585674	34	2.1	34	88	0	104	18	15	32	32	1.93
48585610--48585682	34	2.1	34	84	0	92	17	16	34	31	1.93
48589923--48589961	17	2.4	17	91	4	62	25	25	7	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48602474--48602505	14	2.4	14	94	5	57	34	18	9	37	1.83
48606625--48606669	3	15.0	3	100	0	90	33	0	0	66	0.92
48607204--48607273	34	2.1	34	97	0	131	32	8	12	45	1.73
48607887--48607931	18	2.5	18	82	7	56	40	17	4	37	1.70
48613977--48614035	25	2.3	26	82	5	68	28	16	16	37	1.92
48614115--48614145	14	2.2	14	100	0	62	35	12	12	38	1.82
48614335--48614374	18	2.2	18	86	0	53	35	20	2	42	1.65
48620867--48620898	12	2.6	12	95	5	55	28	0	9	62	1.26
48620928--48620964	12	2.9	13	88	8	58	29	0	10	59	1.31
48624501--48624598	45	2.2	46	81	7	112	28	18	9	43	1.80
48625198--48625233	17	2.1	17	100	0	72	36	5	0	58	1.22
48627549--48627728	50	3.6	50	80	2	184	27	21	28	22	1.99
48631865--48631953	42	2.1	42	93	0	151	34	26	14	23	1.94
48637752--48637794	21	2.1	20	91	4	68	34	18	0	46	1.50
48643341--48643374	6	5.5	6	93	6	59	14	85	0	0	0.60
48647125--48647158	16	2.1	16	100	0	68	32	5	8	52	1.56
48649502--48649736	128	1.8	128	90	1	382	34	11	17	37	1.86
48653695--48653734	2	20.0	2	100	0	80	50	0	0	50	1.00
48655124--48655314	102	1.9	101	88	5	287	22	16	29	30	1.96
48655125--48655302	51	3.5	49	79	5	187	23	16	28	31	1.96
48655308--48655406	44	2.2	45	89	1	146	22	19	24	34	1.96
48661418--48661456	21	1.9	21	85	15	55	35	7	15	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48673466--48673492	6	4.5	6	100	0	54	55	0	29	14	1.40
48673636--48673709	26	2.9	25	84	6	94	43	6	16	33	1.74
48686834--48686919	11	7.9	10	71	16	55	36	46	5	11	1.64
48686835--48686886	22	2.4	22	86	0	68	38	44	5	11	1.65
48691911--48692021	37	3.0	37	94	0	186	36	31	14	17	1.89
48699738--48699809	31	2.3	31	97	0	135	18	12	15	54	1.71
48701888--48701912	8	3.1	8	100	0	50	60	0	0	40	0.97
48703606--48703727	55	2.2	55	92	2	199	34	29	4	31	1.79
48707555--48707626	24	3.2	24	63	15	62	33	19	8	38	1.82
48716686--48716719	15	2.3	15	95	5	61	26	0	11	61	1.30
48720138--48720198	30	2.1	29	84	9	79	14	3	13	68	1.32
48725010--48725063	25	2.3	23	84	12	65	72	3	1	22	1.10
48726027--48726065	14	2.7	14	84	4	51	74	0	20	5	1.01
48727283--48727720	177	2.5	178	84	2	558	30	18	23	28	1.97
48727514--48727758	134	1.8	133	84	4	332	29	19	22	28	1.98
48727647--48728091	181	2.5	181	85	2	633	31	17	22	29	1.96
48727793--48728626	223	3.7	225	79	6	667	30	18	21	29	1.97
48727292--48728770	89	16.4	89	72	11	608	30	17	22	28	1.97
48727292--48728965	44	37.3	45	70	11	785	30	18	21	28	1.97
48730340--48730387	3	14.3	3	93	4	51	29	2	0	68	1.01
48734541--48734596	24	2.4	23	77	11	60	60	3	8	26	1.43
48740972--48741197	43	5.3	43	86	3	294	26	32	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48750176--48750214	18	2.2	17	86	13	53	33	0	20	46	1.51
48750333--48750361	8	3.6	8	100	0	58	24	13	27	34	1.93
48750448--48750500	23	2.3	23	100	0	106	22	20	26	30	1.98
48757655--48757683	8	3.6	8	100	0	58	24	13	27	34	1.93
48757770--48757822	23	2.3	23	100	0	106	22	20	26	30	1.98
48763088--48763152	17	3.4	18	83	12	78	50	18	7	23	1.72
48763145--48763177	12	2.8	12	95	0	57	42	15	9	33	1.78
48765716--48765756	20	2.0	20	100	0	82	58	0	9	31	1.31
48767683--48767879	99	2.0	99	94	0	349	25	20	26	26	1.99
48774360--48774599	88	2.7	87	80	2	239	32	10	15	42	1.80

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   200   201   202   203   204   205   206