genome.fa.s13.2.7.7.80.10.50.1000.191.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  191  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)
55776249--55776354	30	3.5	30	84	0	140	43	1	16	37	1.60
55776228--55776374	60	2.4	60	80	3	170	41	4	18	35	1.72
55779935--55780119	101	1.8	101	89	5	293	23	18	29	29	1.98
55779930--55780117	51	3.7	49	79	5	207	23	18	29	28	1.97
55780143--55780334	69	2.7	69	88	4	258	20	18	29	30	1.97
55780291--55780451	33	4.7	33	75	21	129	21	21	27	29	1.98
55780220--55780415	103	2.0	96	88	7	284	20	20	28	30	1.98
55781227--55781320	49	1.9	49	84	0	125	27	13	27	30	1.94
55781836--55781874	2	19.5	2	100	0	78	48	0	0	51	1.00
55787305--55787617	46	6.6	46	76	17	302	29	24	14	31	1.95
55787346--55787473	62	2.0	64	95	3	233	28	26	12	32	1.93
55787305--55787513	108	1.9	107	97	0	391	28	24	13	32	1.94
55787410--55787617	90	2.3	90	97	0	389	30	24	14	31	1.94
55787410--55787617	46	4.6	47	92	4	319	30	24	14	31	1.94
55790298--55790329	7	4.6	7	96	0	55	18	31	9	40	1.83
55790301--55790482	51	3.4	51	79	10	211	27	23	14	34	1.94
55790253--55790482	58	4.1	58	82	6	276	27	24	14	33	1.95
55790363--55790387	7	3.6	7	100	0	50	16	44	12	28	1.83
55796854--55796977	30	4.2	30	77	8	128	34	21	4	39	1.72
55797481--55797535	15	3.7	16	74	13	55	70	0	29	0	0.87
55797661--55797692	16	1.9	17	93	6	57	78	6	15	0	0.95
55797848--55797924	10	7.8	10	75	16	63	79	0	20	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55797848--55797923	28	2.6	29	83	4	100	80	0	19	0	0.72
55798256--55798322	17	3.8	16	76	19	62	25	16	13	44	1.84
55798248--55798324	16	4.4	17	72	19	68	29	16	11	41	1.84
55798453--55798634	18	10.3	18	78	4	138	27	13	9	49	1.73
55798482--55798634	36	4.3	36	83	4	177	26	13	10	50	1.73
55798455--55798634	54	3.4	54	81	6	172	27	13	8	49	1.72
55798482--55798639	18	9.0	17	80	6	156	28	12	10	48	1.73
55804283--55804326	13	3.1	14	87	9	63	84	11	2	2	0.81
55804283--55804343	13	4.6	13	83	8	61	83	8	4	3	0.89
55804255--55804348	23	4.1	22	75	13	75	81	7	5	5	0.97
55804255--55804337	35	2.4	34	80	4	78	81	8	3	6	0.95
55805224--55805406	75	2.5	73	89	1	276	30	14	20	34	1.92
55806997--55807590	78	7.6	78	83	7	703	26	16	22	34	1.95
55806997--55807590	153	3.8	153	84	8	656	26	16	22	34	1.95
55806998--55807587	231	2.5	232	90	5	908	26	16	21	34	1.95
55807762--55807894	30	4.4	30	76	8	119	36	19	3	40	1.67
55808401--55808435	17	2.1	17	89	10	54	71	0	28	0	0.86
55808408--55808477	26	2.9	24	75	19	65	72	0	27	0	0.84
55808406--55808484	14	5.7	14	73	18	67	73	0	26	0	0.84
55808407--55808484	7	11.3	7	72	8	52	74	0	25	0	0.82
55808582--55808615	16	2.1	16	88	5	50	76	5	17	0	0.98
55808771--55808853	12	7.7	11	77	12	75	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55808773--55808853	18	4.3	18	77	11	74	80	0	19	0	0.72
55808771--55808852	21	3.7	23	81	12	102	81	0	18	0	0.69
55809183--55809249	17	3.8	16	76	19	62	25	16	13	44	1.84
55809172--55809250	37	2.1	37	85	0	104	32	16	11	39	1.84
55809175--55809251	16	4.4	17	72	19	68	29	16	11	41	1.84
55809380--55809555	36	5.0	35	78	9	171	27	14	9	48	1.75
55809414--55809554	18	7.9	19	80	12	103	28	14	10	46	1.77
55809384--55809554	17	9.7	18	76	12	135	28	14	8	47	1.74
55810031--55810081	24	2.0	24	88	7	75	58	0	0	41	0.98
55819507--55819567	9	6.4	9	73	17	52	26	9	0	63	1.25
55819515--55819564	18	2.5	20	81	15	68	28	12	0	60	1.32
55819524--55819575	18	2.9	18	83	8	70	26	9	1	61	1.38
55819524--55819566	19	2.3	18	92	4	68	27	11	0	60	1.31
55822148--55822191	21	2.2	21	88	11	67	43	18	0	38	1.50
55822226--55822255	2	15.0	2	92	0	51	46	0	3	50	1.18
55822736--55823044	106	2.9	108	80	2	338	30	16	19	33	1.94
55823821--55823959	69	2.0	68	86	5	192	38	8	12	39	1.75
55823945--55824014	29	2.3	29	78	11	79	30	14	12	42	1.83
55826170--55826218	14	3.4	14	78	10	53	32	2	0	65	1.04
55831306--55831348	23	1.9	22	90	4	68	53	2	9	34	1.46
55831495--55831558	24	2.4	26	75	20	69	46	7	9	35	1.65
55831505--55831552	24	2.0	25	88	12	73	39	8	12	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55831505--55831558	26	2.1	26	83	13	67	42	9	11	37	1.73
55833387--55833411	13	1.9	13	100	0	50	84	16	0	0	0.63
55834492--55834533	15	3.1	14	90	10	61	14	0	14	71	1.15
55834643--55834749	22	5.0	22	77	22	77	18	1	13	66	1.34
55834665--55834743	25	3.3	25	85	7	101	17	1	12	68	1.27
55834652--55834752	37	2.6	37	81	10	107	18	0	12	67	1.28
55834658--55834749	22	4.0	24	81	13	104	18	1	11	68	1.26
55843425--55843453	2	15.0	2	92	7	51	51	0	0	48	1.00
55843467--55843578	39	3.1	35	73	13	100	61	3	2	32	1.27
55843571--55843624	23	2.4	23	87	3	74	61	1	1	35	1.18
55843598--55843696	39	2.5	38	79	12	101	64	6	2	27	1.28
55848302--55848326	7	3.6	7	100	0	50	72	0	0	28	0.86
55861689--55861879	87	2.2	87	81	7	210	35	16	21	26	1.95
55861974--55862071	38	2.6	38	88	0	142	34	12	17	35	1.87
55862257--55862281	13	1.9	13	100	0	50	32	4	24	40	1.73
55863374--55863499	43	2.9	42	79	10	130	21	15	28	34	1.94
55864464--55864780	23	13.7	23	87	2	393	27	12	19	40	1.87
55864464--55864780	70	4.6	70	88	2	397	27	12	19	40	1.87
55864473--55864780	93	3.3	92	90	2	431	27	12	19	40	1.87
55864464--55864780	116	2.7	117	86	2	435	27	12	19	40	1.87
55864462--55864780	139	2.3	139	86	1	433	27	12	19	40	1.87
55866916--55866990	3	25.7	3	78	15	61	68	2	2	26	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55869162--55869270	37	3.0	37	93	2	177	24	22	16	36	1.94
55869234--55869432	52	3.9	52	85	8	284	27	23	15	34	1.94
55869234--55869432	98	2.0	98	96	0	362	27	23	15	34	1.94
55872709--55872759	22	2.3	22	96	0	93	27	31	0	41	1.56
55872965--55872994	14	2.1	15	93	6	53	26	0	6	66	1.16
55873953--55873977	7	3.6	7	100	0	50	28	0	12	60	1.32
55874629--55874663	18	1.9	18	88	0	52	25	34	8	31	1.86
55875178--55875203	5	5.2	5	100	0	52	38	42	0	19	1.51
55875188--55875546	29	12.8	29	88	6	535	46	28	0	24	1.53
55875544--55875727	56	3.3	56	86	6	284	35	11	5	46	1.64
55880758--55880807	26	1.9	26	92	8	84	0	12	16	72	1.13
55886298--55886347	2	25.0	2	100	0	100	50	0	0	50	1.00
55887334--55887424	46	2.0	46	97	0	173	27	13	15	43	1.83
55887740--55887871	67	1.9	68	95	3	230	28	29	4	37	1.77
55888208--55888420	106	2.0	106	89	0	327	38	15	18	27	1.91
55889797--55889902	50	2.1	51	77	13	112	12	13	4	69	1.33
55889884--55889956	22	3.5	22	83	5	71	12	5	6	75	1.17
55889906--55889956	20	2.5	21	83	6	68	11	7	7	72	1.28
55894088--55894175	12	7.4	12	82	7	81	60	2	4	32	1.30
55894100--55894175	3	25.3	3	86	0	107	61	2	3	31	1.28
55895823--55895862	16	2.5	16	100	0	80	20	20	32	27	1.97
55900177--55900543	46	7.6	47	87	7	388	34	14	22	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55900177--55900543	98	3.7	97	84	9	492	34	14	22	28	1.94
55900191--55900543	196	1.8	196	92	0	598	34	14	22	28	1.93
55900507--55900635	37	3.5	37	97	0	240	37	17	19	25	1.94
55900177--55900532	144	2.4	149	91	4	442	34	15	21	28	1.94
55901810--55901889	30	2.7	30	81	11	101	41	10	1	47	1.45
55901861--55901935	36	2.1	36	85	9	100	44	5	1	49	1.33
55902084--55902113	15	2.0	15	93	0	51	80	0	16	3	0.85
55902598--55902636	21	1.9	21	94	5	71	38	5	0	56	1.22
55902583--55902744	67	2.5	65	80	11	195	33	9	2	53	1.47
55902583--55902744	69	2.5	63	79	13	175	33	9	2	53	1.47

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