genome.fa.s13.2.7.7.80.10.50.1000.140.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  140  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)
42339543--42339871	131	2.5	131	91	2	543	30	20	24	24	1.99
42339543--42339920	131	2.9	133	83	7	470	30	19	24	25	1.98
42339712--42340073	176	2.1	175	86	2	503	30	19	23	26	1.98
42339712--42340120	176	2.3	175	83	4	459	30	20	22	26	1.98
42339847--42340389	266	2.0	264	91	1	890	28	19	24	26	1.99
42339847--42340389	132	4.1	132	94	0	888	28	19	24	26	1.99
42340357--42340581	44	5.2	44	78	9	203	31	21	20	26	1.98
42340377--42340624	44	5.7	44	79	5	188	31	19	21	27	1.98
42342365--42342409	19	2.4	19	85	7	56	37	6	2	53	1.40
42348286--42348367	40	2.0	40	100	0	164	31	15	24	28	1.96
42357087--42357149	30	2.2	30	82	5	76	53	6	7	31	1.55
42357407--42357436	2	15.0	2	92	0	51	53	0	0	46	1.00
42357786--42357912	66	1.9	67	80	7	152	47	3	9	39	1.55
42358054--42358620	114	5.0	113	77	9	512	24	22	25	27	2.00
42358056--42358620	228	2.5	226	79	8	603	24	22	25	27	2.00
42358893--42358953	7	8.4	7	85	7	86	14	1	37	45	1.55
42358893--42358953	15	4.2	14	89	6	86	14	1	37	45	1.55
42358892--42358953	22	2.8	22	87	7	90	16	1	37	45	1.57
42358893--42358953	29	2.1	29	87	6	88	14	1	37	45	1.55
42359225--42359299	31	2.4	32	86	2	107	22	1	37	38	1.63
42362439--42362501	22	2.7	23	79	18	69	46	0	3	50	1.17
42362433--42362513	12	7.5	11	71	25	50	45	0	2	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42362636--42363088	9	52.8	9	66	24	207	45	22	0	32	1.59
42362633--42362716	43	2.0	43	85	0	114	48	25	0	26	1.51
42362868--42362915	19	2.5	19	82	0	60	43	20	2	33	1.64
42362943--42362970	13	2.2	13	100	0	56	39	25	0	35	1.56
42362706--42363051	25	13.4	26	81	15	290	44	20	0	33	1.58
42362942--42363066	59	2.2	56	84	12	157	47	20	0	31	1.56
42362956--42363088	43	3.1	43	82	10	141	46	21	1	30	1.60
42368576--42368741	66	2.5	65	84	4	199	39	19	27	14	1.90
42368766--42368829	21	3.0	20	74	17	58	34	14	43	7	1.74
42371417--42371460	23	1.9	24	90	9	74	54	0	20	25	1.45
42371997--42372092	39	2.5	39	80	6	108	20	23	28	27	1.99
42376666--42376702	2	18.5	2	100	0	74	51	0	0	48	1.00
42377789--42377836	18	2.6	19	87	6	64	33	6	2	58	1.35
42377808--42377840	3	11.0	3	87	12	50	36	0	0	63	0.95
42378074--42378189	34	3.6	30	77	13	106	34	2	5	57	1.34
42378139--42378193	24	2.3	24	78	6	58	36	1	5	56	1.33
42378536--42378582	13	3.8	12	78	10	51	21	2	6	70	1.20
42378881--42378913	2	16.5	2	100	0	66	51	0	0	48	1.00
42381100--42381146	12	3.8	12	75	13	51	48	0	2	48	1.13
42382926--42383025	29	3.4	29	77	8	105	35	20	4	41	1.71
42382926--42383040	59	1.9	59	82	8	144	33	21	5	39	1.76
42383289--42383334	17	2.7	17	86	0	65	13	52	19	15	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42383366--42383415	24	2.1	23	92	3	82	74	16	10	0	1.08
42384074--42384126	10	5.2	10	82	10	54	15	0	3	81	0.83
42384098--42384129	5	6.4	5	100	0	64	18	0	0	81	0.70
42384436--42384481	17	2.6	18	80	16	60	32	13	8	45	1.73
42384530--42384761	18	12.8	17	69	15	117	30	13	11	44	1.79
42384528--42384595	35	1.9	35	87	0	100	29	11	11	47	1.76
42384538--42384763	17	12.2	20	70	17	86	31	13	10	44	1.78
42384631--42384763	38	3.6	36	76	12	119	33	12	10	43	1.77
42384530--42384780	37	6.9	35	72	17	122	30	14	11	44	1.80
42384595--42384780	37	5.1	37	73	13	127	30	15	10	43	1.80
42384804--42384845	19	2.2	19	86	0	57	52	0	7	40	1.29
42384825--42384866	16	2.6	16	80	3	57	45	0	9	45	1.36
42391387--42391454	1	68.0	1	73	0	55	86	2	4	5	0.77
42391387--42391448	14	4.5	13	86	7	79	87	3	3	6	0.75
42391388--42391431	22	2.0	22	90	4	70	88	2	0	9	0.59
42392239--42393002	158	4.8	156	83	10	810	28	16	20	35	1.94
42392239--42393002	80	9.6	76	85	9	751	28	16	20	35	1.94
42392786--42393051	76	3.4	76	83	9	313	32	16	15	36	1.90
42393396--42393479	29	2.9	28	72	16	82	34	20	3	41	1.69
42393396--42393510	59	1.9	60	82	8	146	32	21	6	40	1.78
42393818--42393867	24	2.1	23	92	3	82	74	16	10	0	1.08
42394509--42394535	10	2.7	10	100	0	54	25	0	7	66	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42394531--42394582	13	3.9	13	76	18	54	15	0	3	80	0.85
42394529--42394582	5	10.8	5	77	15	58	16	0	3	79	0.87
42394534--42394579	21	2.2	21	84	7	58	15	0	4	80	0.86
42394883--42394928	17	2.6	18	80	16	60	32	13	8	45	1.73
42394975--42395205	18	12.8	17	68	17	101	31	12	10	45	1.76
42394983--42395063	17	4.4	18	83	10	101	33	12	9	44	1.75
42395107--42395208	35	2.8	36	77	14	102	35	9	9	45	1.71
42395040--42395226	72	2.6	71	73	10	164	31	13	10	45	1.76
42395230--42395345	19	6.0	19	73	12	69	41	5	10	43	1.61
42395271--42395306	16	2.2	16	90	9	56	36	0	11	52	1.37
42395270--42395307	17	2.3	17	86	4	60	39	0	10	50	1.37
42395303--42395345	22	2.0	22	86	8	63	48	9	11	30	1.71
42396738--42396770	3	11.0	3	93	0	57	63	0	3	33	1.10
42397895--42397940	24	1.9	24	86	8	67	28	0	10	60	1.30
42399088--42399130	21	2.0	21	100	0	86	9	23	25	41	1.84
42399915--42399942	13	2.2	13	100	0	56	35	14	7	42	1.73
42400517--42400682	45	3.7	45	84	6	187	25	16	24	33	1.96
42404952--42404990	20	2.0	20	94	0	69	74	0	0	25	0.82
42440817--42440883	20	3.5	20	66	25	63	29	19	34	16	1.94
42440805--42440919	37	2.9	39	84	10	146	31	18	31	19	1.95
42441198--42441240	16	2.7	15	82	10	50	39	11	2	46	1.53
42441198--42441269	32	2.3	31	83	9	83	43	12	1	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42446551--42446647	40	2.5	40	87	1	133	35	19	26	18	1.95
42446927--42446970	16	2.9	14	78	21	52	45	9	0	45	1.35
42446927--42446998	32	2.3	31	83	9	83	45	11	0	43	1.39
42457692--42458036	180	1.9	180	88	1	521	22	32	10	33	1.89
42463209--42463238	11	2.7	11	94	0	51	50	3	6	40	1.45
42465987--42466021	17	2.0	18	88	5	54	14	45	28	11	1.79
42470001--42470032	13	2.5	13	95	5	57	53	18	0	28	1.45
42470741--42470782	22	1.9	22	85	9	59	66	11	7	14	1.43
42473200--42473298	43	2.3	43	87	1	153	53	2	3	41	1.28
42473208--42473285	22	3.6	22	66	10	61	53	2	3	39	1.33
42485510--42485554	13	3.5	13	96	0	81	31	44	22	2	1.65
42489052--42489090	16	2.4	16	86	0	60	30	30	5	33	1.79
42491745--42491792	24	2.0	25	84	12	64	14	20	22	41	1.89
42491878--42491926	26	1.9	25	87	4	71	20	22	20	36	1.95
42491908--42491955	23	2.1	23	84	0	60	18	29	20	31	1.97
42492062--42492109	25	1.9	25	86	0	69	25	29	14	31	1.95
42494303--42494447	74	2.0	73	95	1	263	34	17	20	27	1.95
42494801--42495004	51	4.2	48	70	13	150	54	1	6	37	1.35
42494940--42495069	37	3.5	34	75	20	102	48	2	6	42	1.42
42494974--42495069	37	2.5	39	79	15	119	44	2	8	44	1.45
42494832--42495045	96	2.2	95	83	5	272	51	2	6	40	1.39
42496830--42497000	94	1.8	94	81	5	211	26	17	21	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42497037--42497200	50	3.3	50	74	0	157	26	21	22	29	1.99
42497010--42497200	100	1.9	100	84	0	256	25	21	21	30	1.98
42509082--42509226	74	2.0	73	90	1	227	37	17	18	26	1.93
42509601--42509668	2	35.5	2	76	8	52	52	0	4	42	1.21
42509584--42509664	39	2.1	38	86	6	110	56	0	4	38	1.21
42509587--42509763	97	1.8	96	84	9	241	54	1	7	36	1.38
42509704--42509778	39	2.0	37	84	10	98	56	1	6	36	1.34
42509728--42509829	31	3.1	32	79	13	93	49	1	8	40	1.45
42509871--42509903	3	11.0	3	93	0	57	63	0	3	33	1.10
42511901--42512192	50	5.7	50	80	4	266	26	20	28	24	1.99

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