genome.fa.s13.2.7.7.80.10.50.1000.142.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  142  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)
42693586--42693693	55	2.0	55	92	0	180	44	12	3	39	1.59
42699504--42699528	13	1.9	13	100	0	50	60	8	0	32	1.26
42699513--42699982	73	6.5	72	75	9	404	49	12	2	34	1.56
42699583--42699735	41	4.0	41	69	16	98	52	11	1	33	1.46
42699514--42700123	144	4.3	145	80	10	690	49	13	3	34	1.57
42699840--42699915	33	2.3	33	81	2	82	47	13	5	34	1.65
42699852--42700217	129	2.9	129	80	6	406	48	14	3	32	1.61
42700110--42700135	6	4.3	6	100	0	52	69	0	0	30	0.89
42700141--42700226	25	3.3	24	71	23	59	52	13	3	30	1.58
42702825--42702876	26	2.0	26	92	0	86	59	5	9	25	1.51
42703877--42703906	16	1.9	15	93	6	51	70	0	0	30	0.88
42714315--42714361	21	2.2	22	88	3	69	23	36	19	21	1.95
42724009--42724037	14	2.0	15	93	6	51	31	0	6	62	1.22
42738285--42738322	19	2.0	19	90	10	60	21	39	0	39	1.53
42738422--42738457	13	2.8	13	91	0	63	50	22	27	0	1.50
42754733--42754873	39	3.6	39	80	1	158	44	20	4	29	1.72
42757888--42757942	28	2.0	28	92	0	92	23	14	20	41	1.89
42757900--42757963	28	2.3	28	83	5	76	20	18	25	35	1.95
42767625--42767669	18	2.5	17	86	10	63	66	2	0	31	1.04
42767625--42767678	18	3.0	17	77	17	56	64	1	1	31	1.14
42769512--42769547	15	2.5	15	90	4	56	61	22	0	16	1.35
42769501--42769555	15	3.7	15	79	11	51	52	29	1	16	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42770319--42770378	26	2.3	26	82	0	75	35	11	10	43	1.75
42772706--42772739	16	2.1	16	88	5	50	52	5	11	29	1.61
42777765--42777837	23	3.2	23	90	3	112	27	27	20	24	1.99
42783383--42783565	101	1.8	102	89	5	291	24	17	26	31	1.97
42783380--42783565	51	3.7	49	82	5	212	24	17	27	31	1.97
42783383--42783575	102	1.9	101	87	5	282	24	17	27	30	1.97
42783571--42783669	46	2.2	43	82	12	119	22	18	27	32	1.97
42783793--42783824	16	2.0	16	93	0	55	59	0	15	25	1.36
42788415--42788442	10	2.8	10	100	0	56	78	0	10	10	0.96
42794245--42794278	17	1.9	18	88	5	52	35	17	8	38	1.81
42818662--42818769	24	4.5	24	79	0	99	26	8	21	43	1.81
42818838--42818897	27	2.2	27	85	5	77	20	21	23	35	1.96
42818885--42818938	26	2.1	26	92	0	90	14	16	27	40	1.88
42818895--42818950	26	2.2	26	83	0	67	12	16	30	41	1.85
42818940--42819128	32	5.9	32	82	4	220	23	19	17	39	1.92
42818941--42819125	64	2.9	64	90	1	282	23	18	17	39	1.92
42818944--42819143	96	2.1	95	84	2	258	23	18	18	40	1.91
42824744--42824841	21	4.7	21	85	10	121	35	8	15	40	1.77
42825305--42825339	17	2.1	17	89	10	54	34	11	0	54	1.37
42825364--42825394	2	15.5	2	100	0	62	51	0	0	48	1.00
42825497--42825602	30	3.6	30	76	10	89	33	3	5	56	1.41
42825497--42825566	30	2.3	31	85	7	90	34	4	5	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42830837--42831068	44	5.3	44	65	6	146	25	26	25	22	2.00
42830779--42831101	88	3.7	88	90	0	484	28	26	23	20	1.99
42831542--42831653	44	2.6	43	80	7	127	33	18	16	32	1.93
42832097--42832153	21	2.7	21	94	0	96	36	8	14	40	1.76
42832109--42832176	21	3.0	24	87	8	90	38	7	16	38	1.76
42832450--42832547	3	32.0	3	74	13	67	28	3	3	65	1.23
42832446--42832482	7	5.4	7	81	18	51	27	0	0	72	0.84
42832671--42832714	17	2.6	17	85	3	63	40	11	0	47	1.39
42832800--42832842	22	2.0	22	86	9	61	32	6	0	60	1.23
42832842--42832880	19	2.0	21	85	10	55	41	0	2	56	1.13
42832854--42832917	25	2.3	30	84	12	84	37	3	4	54	1.37
42846345--42846439	47	2.0	47	97	0	181	53	15	8	22	1.68
42856442--42856466	2	12.5	2	100	0	50	0	48	0	52	1.00
42856839--42856889	23	2.2	23	89	0	75	27	11	21	39	1.88
42858481--42858611	50	2.5	53	86	7	169	23	30	20	25	1.99
42869439--42869543	22	4.8	22	87	0	138	31	14	26	27	1.95
42874386--42874475	40	2.2	40	90	0	135	27	22	31	18	1.97
42885534--42885571	19	2.0	19	85	10	51	21	42	0	36	1.53
42905708--42905736	8	3.8	8	95	4	51	31	0	0	68	0.89
42917331--42917356	5	5.2	5	100	0	52	38	19	19	23	1.93
42917305--42917356	26	2.0	26	81	7	61	34	15	26	23	1.94
42917726--42917774	19	2.7	19	79	17	59	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42917987--42918046	30	2.0	31	83	3	77	41	0	38	20	1.52
42918157--42918218	30	2.1	30	87	0	88	45	0	35	19	1.51
42918260--42918296	9	4.1	9	85	0	56	32	10	10	45	1.74
42918349--42918379	9	3.4	9	90	0	53	38	22	12	25	1.90
42922886--42922928	11	3.8	12	81	6	54	58	0	0	41	0.98
42922935--42922963	11	2.6	11	100	0	58	44	6	27	20	1.77
42923703--42923759	9	6.0	9	72	11	51	63	5	1	29	1.27
42930828--42930883	13	4.5	13	80	13	73	48	12	0	39	1.41
42930841--42930892	23	2.3	23	93	0	86	50	11	0	38	1.39
42935524--42935603	26	3.1	26	98	0	151	28	27	23	20	1.99
42935587--42935859	43	6.4	43	83	2	343	24	27	18	29	1.98
42936212--42936300	21	4.2	21	80	0	106	3	40	19	37	1.68
42936259--42936451	87	2.2	87	92	1	316	12	29	17	40	1.86
42939855--42939924	36	1.9	36	94	0	122	35	20	12	31	1.90
42941789--42942155	9	42.3	9	67	17	190	33	1	19	46	1.58
42941818--42942131	25	12.3	25	72	14	164	32	1	19	46	1.59
42941833--42942131	16	18.1	16	72	15	159	32	1	19	46	1.60
42942090--42942128	20	2.0	19	95	5	69	30	0	15	53	1.42
42944589--42944635	21	2.2	22	85	11	62	44	31	0	23	1.54
42945163--42945681	114	4.6	113	77	5	469	30	18	19	31	1.96
42945163--42945681	227	2.3	228	83	3	627	30	18	19	31	1.96
42950082--42950257	41	4.3	41	92	0	298	23	27	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42950429--42950523	41	2.3	41	98	0	181	24	28	20	27	1.99
42958080--42958214	41	3.3	41	91	0	225	24	28	18	28	1.98
42969050--42969092	12	3.6	12	100	0	86	16	0	9	74	1.06
42969867--42969910	15	2.9	15	83	9	54	45	0	6	47	1.29
42992583--42992651	27	2.6	27	90	4	104	40	7	1	50	1.39
42992730--42992796	27	2.5	27	90	0	107	23	28	32	14	1.95
42992843--42993016	18	10.0	17	69	19	78	66	0	32	0	0.96
42992845--42992916	10	6.6	10	73	17	54	68	0	31	0	0.90
42992845--42992946	24	4.3	23	71	11	73	66	0	33	0	0.92
42992848--42992921	14	5.1	13	71	25	51	68	0	31	0	0.89
42992848--42992927	34	2.8	28	75	24	85	67	0	32	0	0.91
42992863--42992986	38	3.4	38	86	7	170	67	0	31	0	0.96
42992865--42992965	10	10.5	10	72	16	79	65	0	33	0	1.00
42994916--42994972	27	2.0	28	83	6	71	35	0	7	57	1.26
42994983--42995008	13	2.0	13	100	0	52	76	0	0	23	0.78
42995017--42995083	28	2.4	28	92	7	109	40	8	1	49	1.43
42995085--42995119	9	3.9	9	88	0	52	88	2	2	5	0.68
42995085--42995130	19	2.3	20	89	10	69	86	4	4	4	0.77
42995084--42995132	10	5.2	9	80	7	53	83	8	4	4	0.89
42996434--42996470	17	2.2	17	90	0	56	27	16	10	45	1.80
42997437--42997469	14	2.4	14	100	0	66	36	6	0	57	1.23
42998765--42998831	27	2.5	27	97	0	125	13	31	29	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42998871--42998917	10	5.1	9	77	12	51	2	2	10	85	0.78
42998872--42998916	19	2.4	19	92	0	72	2	2	6	88	0.66
42998918--42998985	27	2.5	28	92	4	113	50	1	8	39	1.43
43000430--43000466	9	4.1	9	92	0	65	45	13	10	29	1.77
43000997--43001043	17	2.8	17	79	20	62	36	2	6	55	1.37
43001381--43001406	5	5.2	5	100	0	52	23	19	19	38	1.93
43003397--43003427	16	1.9	16	93	0	53	45	0	29	25	1.54
43003513--43003572	30	2.0	31	90	3	95	41	0	38	20	1.52
43003781--43003817	9	4.1	9	92	0	65	29	10	13	45	1.77
43003871--43003901	9	3.4	9	90	0	53	38	22	12	25	1.90

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