genome.fa.s13.2.7.7.80.10.50.1000.141.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  141  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)
42512392--42512430	4	9.8	4	82	0	51	51	2	23	23	1.61
42512481--42512585	51	2.1	51	100	0	210	29	7	11	51	1.65
42515810--42515853	2	22.0	2	100	0	88	50	0	0	50	1.00
42516201--42516285	43	1.9	42	83	9	107	43	4	4	47	1.45
42525753--42525780	14	2.0	14	100	0	56	7	21	0	71	1.09
42529144--42529181	18	2.2	17	90	4	58	34	2	0	63	1.09
42529157--42529208	16	3.5	15	80	17	56	36	1	0	61	1.07
42529152--42529193	16	2.5	18	77	18	54	40	2	0	57	1.12
42529168--42529223	28	2.0	29	86	10	80	39	0	1	58	1.08
42529279--42529330	16	3.5	15	80	17	56	36	1	0	61	1.07
42529290--42529345	28	2.0	29	86	10	80	37	0	3	58	1.15
42529068--42529682	122	5.1	120	96	1	1074	41	1	4	53	1.27
42529501--42529541	18	2.3	18	87	4	57	43	0	2	53	1.13
42529509--42529662	18	7.9	18	69	22	80	41	0	2	55	1.18
42529068--42529682	241	2.5	240	94	2	1083	41	1	4	53	1.27
42529809--42529914	44	2.5	41	73	18	108	33	32	4	29	1.78
42529825--42529914	44	2.0	44	89	4	135	35	31	5	27	1.80
42529896--42529948	16	3.3	16	83	0	79	26	32	5	35	1.80
42530705--42530764	13	4.6	13	77	10	61	48	38	0	13	1.42
42533352--42533635	17	15.7	17	71	13	133	45	10	12	32	1.76
42533351--42533699	54	6.3	55	74	12	281	44	9	12	33	1.75
42533624--42533666	22	2.0	22	90	9	70	34	6	11	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42533845--42533905	9	6.9	9	80	12	65	1	14	0	83	0.72
42534046--42534077	7	4.4	7	96	4	55	0	12	0	87	0.54
42534088--42534132	12	3.7	12	78	3	54	0	31	0	68	0.89
42534049--42534132	18	5.1	17	73	20	72	0	28	0	71	0.86
42534607--42534752	59	2.5	60	88	1	222	39	2	22	35	1.66
42534577--42534752	30	5.9	31	86	5	211	39	4	22	34	1.74
42534904--42535126	78	2.9	77	87	6	324	35	22	18	23	1.96
42535095--42535165	35	2.0	35	100	0	142	38	16	16	28	1.91
42535017--42535240	110	2.0	113	90	2	355	37	20	15	26	1.93
42534939--42535311	185	2.0	190	87	4	551	36	21	16	25	1.94
42535130--42535794	78	8.6	76	87	4	838	35	20	17	26	1.95
42534890--42535393	263	1.9	265	86	4	732	36	21	17	23	1.95
42535130--42535792	157	4.3	153	83	6	822	35	20	17	26	1.95
42535130--42535792	309	2.1	308	86	5	910	35	20	17	26	1.95
42536642--42536720	19	4.3	19	79	4	90	6	8	5	79	1.04
42536642--42536719	9	8.6	9	73	17	63	6	8	5	79	1.05
42536642--42536720	37	2.1	37	88	9	117	6	8	5	79	1.04
42540193--42540511	46	7.6	45	76	20	309	33	14	21	30	1.93
42540193--42540511	82	3.9	82	81	14	397	33	14	21	30	1.93
42540290--42540407	38	3.2	38	80	13	163	33	15	19	32	1.93
42544528--42544565	19	2.1	19	85	5	51	73	2	7	15	1.17
42545586--42545712	54	2.4	54	90	0	200	43	9	16	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42545588--42545711	18	6.9	19	81	9	136	44	9	16	29	1.79
42545716--42545764	17	2.8	18	85	11	66	38	14	14	32	1.86
42545716--42545761	18	2.6	19	86	10	62	39	10	15	34	1.82
42545753--42545832	18	4.2	20	74	17	80	35	11	8	45	1.71
42545753--42545804	21	2.7	18	85	14	68	32	13	7	46	1.72
42545754--42545813	21	3.0	20	74	11	52	35	11	8	45	1.71
42545754--42545815	22	3.0	20	80	13	65	33	11	9	45	1.73
42545794--42545863	17	3.9	18	72	7	63	44	8	14	32	1.75
42545993--42546057	21	3.1	21	79	12	64	35	6	13	44	1.69
42545994--42546040	20	2.3	20	85	7	60	31	6	12	48	1.66
42546252--42546308	17	3.7	15	80	17	55	68	3	1	26	1.15
42546414--42546469	10	5.7	10	79	10	62	0	10	3	85	0.71
42546413--42546482	14	4.6	14	77	15	61	0	14	2	82	0.77
42546414--42546482	17	4.1	16	80	9	66	0	13	2	84	0.74
42546413--42546484	28	2.6	27	77	12	76	0	15	2	81	0.79
42546619--42546662	7	6.4	7	85	15	65	0	11	2	86	0.66
42546620--42546662	13	3.2	13	87	6	68	0	11	2	86	0.67
42546673--42546717	12	3.7	12	78	3	54	0	31	0	68	0.89
42546666--42546717	18	3.2	17	82	17	67	0	32	0	67	0.91
42546951--42546989	20	1.9	21	84	5	53	5	10	7	76	1.13
42547166--42547310	30	4.9	30	76	7	118	40	2	21	35	1.68
42547180--42547310	59	2.2	59	82	2	156	41	1	19	36	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42547186--42547310	29	4.2	29	79	7	135	40	0	20	38	1.58
42563395--42563437	21	2.0	21	100	0	86	23	27	18	30	1.98
42572131--42572192	31	2.0	31	93	0	106	24	24	24	27	2.00
42572926--42573028	28	3.7	28	89	2	154	29	24	25	21	1.99
42573407--42574024	296	2.1	296	100	0	1236	19	19	20	40	1.92
42573407--42574125	296	2.4	296	94	1	1147	19	19	20	40	1.92
42573407--42574125	27	26.7	27	82	1	796	19	19	20	40	1.92
42578780--42578866	43	2.0	43	90	0	138	37	33	11	17	1.85
42592087--42592184	40	2.4	41	81	5	119	41	20	18	19	1.90
42592673--42592705	14	2.3	15	94	5	59	30	0	33	36	1.58
42592800--42592853	14	3.9	14	76	7	56	22	0	42	35	1.54
42592801--42592863	21	3.0	22	74	6	58	20	0	42	36	1.52
42593769--42593801	12	2.8	12	86	13	50	15	0	3	81	0.80
42596868--42597003	42	3.3	42	73	10	111	25	16	25	31	1.97
42601878--42601908	9	3.4	9	90	0	53	25	12	22	38	1.90
42603015--42603045	5	6.2	5	92	0	53	19	19	16	45	1.86
42604567--42604596	14	2.1	14	93	0	51	3	0	6	90	0.56
42607891--42607961	37	1.9	37	91	0	115	49	2	1	46	1.25
42614215--42614269	27	2.0	28	89	3	85	10	0	41	47	1.39
42614300--42614592	93	3.1	94	83	4	290	39	3	16	40	1.65
42614300--42614592	95	3.1	94	83	6	310	39	3	16	40	1.65
42614627--42614918	126	2.3	127	86	1	408	34	15	20	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42618801--42618882	36	2.3	36	87	4	121	21	9	23	45	1.81
42621438--42621513	31	2.5	31	84	0	89	50	17	13	19	1.78
42623936--42624269	108	3.1	108	82	7	403	32	17	19	29	1.95
42623937--42624247	106	2.8	110	83	5	391	32	18	20	27	1.96
42624372--42624654	104	2.7	106	79	7	279	30	19	16	33	1.94
42626045--42626073	12	2.3	13	94	5	51	24	3	6	65	1.33
42629354--42629461	54	2.0	54	98	0	207	28	12	16	41	1.86
42629370--42629454	26	3.2	26	62	6	62	27	16	16	40	1.90
42632305--42632371	3	22.3	3	100	0	134	32	0	0	67	0.91
42632500--42632543	22	2.0	22	82	8	54	38	0	4	56	1.20
42632570--42632602	17	1.9	17	93	0	57	78	0	18	3	0.87
42635132--42635218	31	2.8	31	89	0	129	47	14	18	19	1.83
42653412--42653437	10	2.6	10	100	0	52	7	0	26	65	1.20
42660528--42660553	10	2.6	10	100	0	52	7	0	26	65	1.20
42662218--42662307	43	2.1	43	97	2	173	51	8	6	33	1.59
42664743--42664791	15	3.3	15	94	0	71	57	6	24	12	1.58
42668124--42668189	17	3.8	17	78	7	62	36	28	16	18	1.93
42668126--42668175	18	2.8	18	84	3	66	40	28	16	16	1.89
42679450--42679489	22	1.9	22	90	10	66	45	0	2	52	1.14
42679644--42679714	19	3.6	20	90	7	110	36	11	14	38	1.81
42679644--42679740	40	2.4	41	84	6	126	37	9	15	38	1.80
42686762--42686786	9	2.8	9	100	0	50	92	0	8	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42688396--42689071	88	7.7	88	88	0	915	27	21	26	25	1.99
42688440--42689020	44	13.2	43	64	5	158	26	22	26	24	2.00
42688934--42689307	44	8.5	44	82	3	421	30	16	23	29	1.96
42688413--42689308	176	5.1	177	84	3	684	27	20	25	26	1.99
42688396--42689158	264	2.9	264	85	2	802	27	20	26	25	1.99
42689011--42689307	133	2.2	132	87	1	416	31	14	23	30	1.94
42689008--42689338	177	1.9	177	92	1	565	32	14	24	29	1.94
42689006--42689347	133	2.6	132	79	6	368	31	14	24	29	1.94
42689798--42689875	21	3.7	21	76	17	81	35	8	16	38	1.80
42693526--42693630	32	3.1	31	70	21	86	49	14	0	35	1.50

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