genome.fa.s13.2.7.7.80.10.50.1000.149.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  149  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)
44648528--44648578	16	3.2	16	86	5	68	39	3	25	31	1.74
44648546--44648605	27	2.2	27	90	0	93	40	3	28	28	1.72
44648794--44648866	10	7.3	10	69	14	53	56	1	0	42	1.08
44652988--44653037	3	16.7	3	83	8	66	38	0	2	60	1.09
44660012--44660074	22	2.8	23	85	2	83	31	19	28	20	1.97
44660042--44660102	22	2.8	22	82	9	63	32	24	27	14	1.95
44660060--44660123	22	2.9	22	79	9	60	32	25	25	17	1.96
44663581--44663781	51	4.0	51	79	8	230	30	28	16	23	1.96
44663589--44663771	101	1.8	102	90	3	298	31	27	17	23	1.97
44663581--44663776	102	1.9	102	86	4	281	31	28	17	22	1.97
44672170--44672244	31	2.4	31	75	4	80	34	6	5	53	1.50
44672501--44672542	21	2.0	21	85	4	57	71	2	19	7	1.20
44674014--44674058	11	4.2	11	82	5	56	17	37	37	6	1.76
44674627--44674693	24	2.8	23	76	24	68	29	1	4	64	1.22
44682674--44682718	21	2.1	22	83	4	56	71	2	2	24	1.09
44683170--44683206	19	1.9	19	89	10	58	43	8	8	40	1.64
44699594--44699642	23	2.2	22	82	10	55	34	4	14	46	1.63
44700231--44700302	16	4.6	16	63	16	51	55	1	5	37	1.32
44706801--44706837	2	18.5	2	100	0	74	51	0	0	48	1.00
44707338--44707403	9	7.4	9	87	3	89	25	9	22	42	1.83
44708635--44708659	5	5.0	5	100	0	50	20	0	20	60	1.37
44725452--44725499	17	2.9	16	84	9	60	22	0	6	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44728304--44728416	47	2.4	47	90	0	172	34	15	13	36	1.87
44734037--44734084	24	2.0	25	88	8	73	68	0	4	27	1.07
44735617--44735672	28	2.0	28	96	0	103	26	25	12	35	1.91
44735993--44736092	28	3.6	28	93	0	164	31	12	27	30	1.92
44737440--44737484	23	2.0	22	82	4	54	40	2	17	40	1.62
44750947--44751019	27	2.7	26	80	4	65	31	23	19	26	1.98
44755996--44756049	24	2.3	24	80	3	65	68	1	1	27	1.10
44756085--44756136	20	2.5	20	73	14	61	42	0	28	28	1.56
44761221--44761365	48	3.0	48	91	3	231	35	28	13	22	1.92
44761263--44761421	53	3.1	51	81	7	173	35	27	11	25	1.91
44764935--44765026	19	4.8	19	91	0	157	35	8	17	38	1.81
44764935--44765049	38	2.9	38	90	5	176	35	7	17	39	1.79
44764942--44765049	19	5.4	20	84	7	116	36	7	16	39	1.77
44771968--44772540	44	13.0	44	63	11	163	28	27	22	20	1.99
44772117--44772600	44	11.0	44	64	6	181	27	26	24	21	1.99
44771969--44772633	88	7.6	88	89	1	967	28	28	23	20	1.99
44772633--44772754	44	2.8	44	90	5	185	28	19	24	27	1.99
44773140--44773541	211	1.9	212	87	2	585	31	20	22	25	1.98
44773458--44773571	45	2.5	45	87	5	151	29	21	21	28	1.98
44774131--44774203	19	3.8	19	96	0	137	36	9	16	36	1.81
44774121--44774210	38	2.4	36	87	10	137	38	10	15	35	1.81
44777919--44778159	115	2.1	115	100	0	482	30	14	14	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44779425--44782795	952	3.6	950	93	1	5605	31	19	20	28	1.97
44784935--44785274	126	2.8	123	86	7	462	28	20	17	33	1.96
44785286--44785640	96	3.6	97	79	7	335	39	17	2	40	1.62
44785299--44785560	96	2.7	97	85	2	339	39	17	1	40	1.61
44785996--44786030	14	2.5	14	95	0	61	11	31	0	57	1.34
44796147--44796179	17	1.9	17	93	0	57	27	12	24	36	1.91
44796730--44796789	22	2.7	22	84	5	77	35	11	18	35	1.87
44796970--44797015	22	2.1	21	84	11	58	30	2	21	45	1.64
44798767--44798809	17	2.6	17	88	3	61	46	25	9	18	1.79
44802395--44802428	14	2.5	13	85	4	50	41	0	11	47	1.40
44803003--44803033	16	1.9	16	93	0	53	35	19	16	29	1.93
44806354--44806447	26	3.7	26	78	5	86	35	24	22	18	1.96
44806867--44806908	21	2.0	21	90	9	68	42	19	0	38	1.51
44816358--44816410	26	2.0	26	96	0	97	32	3	24	39	1.73
44818455--44818537	43	1.9	43	90	0	130	48	2	26	22	1.63
44819521--44819617	43	2.3	43	83	3	124	14	24	38	22	1.92
44820839--44820863	2	12.5	2	100	0	50	48	0	0	52	1.00
44822028--44822075	23	2.0	24	88	4	71	29	0	6	64	1.18
44826223--44826247	3	8.3	3	100	0	50	0	32	0	68	0.90
44827003--44827076	30	2.7	27	74	22	73	41	2	0	55	1.14
44831151--44831226	22	3.4	23	78	14	79	26	27	1	44	1.62
44831150--44831226	11	6.9	11	70	24	63	25	27	1	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44831294--44831323	15	2.0	15	93	0	51	30	0	6	63	1.20
44833129--44833168	18	2.2	18	95	0	71	22	30	7	40	1.81
44833424--44833472	21	2.3	21	79	6	55	32	36	28	2	1.69
44833587--44833753	45	3.6	45	77	13	176	37	0	13	47	1.48
44833597--44833888	95	3.1	95	84	4	342	39	0	13	46	1.46
44833667--44833853	70	2.7	70	91	2	297	41	0	12	45	1.46
44833762--44833916	45	3.4	45	74	13	170	38	0	12	49	1.41
44833636--44833916	94	3.0	94	85	4	345	39	0	13	46	1.46
44833642--44833888	25	10.3	25	77	11	223	40	0	13	45	1.46
44837035--44837405	125	3.0	124	84	5	523	31	22	16	29	1.96
44838521--44838577	26	2.2	26	87	9	82	29	14	3	52	1.58
44838682--44838739	11	4.9	11	74	15	53	5	27	0	67	1.12
44839532--44839885	185	1.9	184	87	2	523	31	14	29	24	1.94
44850324--44850435	57	2.0	57	100	0	224	23	23	21	32	1.98
44850562--44850593	16	1.9	17	93	6	57	43	0	0	56	0.99
44850592--44850631	16	2.5	16	91	0	62	47	2	7	42	1.45
44850567--44850616	22	2.3	22	85	0	64	52	2	2	44	1.24
44850704--44850731	9	3.1	9	100	0	56	32	0	10	57	1.33
44850620--44850762	68	2.1	66	92	2	241	40	5	9	44	1.59
44850828--44850874	24	1.9	25	87	12	71	61	2	0	36	1.08
44854666--44854724	25	2.4	23	81	13	64	37	3	1	57	1.25
44854684--44854737	25	2.2	25	80	12	58	40	5	1	51	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44855016--44855041	12	2.2	12	100	0	52	30	7	15	46	1.74
44856179--44856229	25	2.0	25	81	7	59	9	35	0	54	1.33
44861363--44861395	2	17.0	2	93	6	59	48	0	0	51	1.00
44867152--44867282	42	3.1	42	92	0	208	12	26	12	48	1.77
44875693--44875805	56	2.0	56	89	3	174	28	6	12	53	1.62
44883222--44883331	55	2.0	55	96	0	202	30	20	10	39	1.86
44886511--44886666	43	3.7	41	77	11	156	23	18	28	29	1.98
44886508--44886635	41	3.0	41	81	5	141	21	17	28	32	1.96
44886508--44886666	84	1.9	84	82	10	200	23	18	27	30	1.97
44889211--44889416	42	4.9	42	78	4	141	23	17	17	40	1.91
44894646--44894709	32	2.0	32	96	0	119	39	9	14	37	1.78
44894821--44894884	31	2.1	31	96	0	119	34	21	23	20	1.97
44895426--44895454	2	14.5	2	100	0	58	48	0	0	51	1.00
44901035--44901073	19	2.1	19	100	0	78	5	25	10	58	1.51
44901292--44901354	30	2.1	30	100	0	126	61	12	6	19	1.51
44904902--44905130	43	5.4	43	82	6	218	27	27	17	27	1.98
44904914--44905130	86	2.5	85	83	2	249	26	27	17	28	1.98
44909931--44909979	7	6.9	7	86	4	71	40	32	0	26	1.56
44909942--44909987	22	2.1	22	87	0	65	43	30	0	26	1.55
44910200--44910228	14	2.0	15	93	6	51	37	41	0	20	1.53
44910711--44910995	40	7.0	40	78	5	277	30	25	18	24	1.98
44911050--44911166	40	3.0	40	80	5	114	23	22	19	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44917480--44917577	28	3.5	28	87	0	133	31	26	11	30	1.91
44919339--44919478	33	4.2	33	92	0	199	17	9	36	37	1.82
44920600--44920629	16	1.9	16	93	6	53	30	0	20	50	1.49
44923902--44923998	26	3.8	26	71	12	78	17	24	22	35	1.95
44924051--44924134	25	3.3	24	74	22	66	23	25	19	32	1.97
44925842--44925866	13	1.9	13	100	0	50	32	4	24	40	1.73
44927577--44927659	41	2.0	41	93	4	141	27	19	28	24	1.98
44927590--44927675	41	2.1	41	86	0	109	30	19	26	23	1.98
44931574--44931604	16	1.9	16	93	0	53	41	9	0	48	1.36
44933781--44933826	20	2.2	21	84	3	58	71	2	0	26	0.97

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