genome.fa.s13.2.7.7.80.10.50.1000.145.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  145  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)
43526409--43526495	33	2.7	33	77	12	90	44	19	9	26	1.80
43526474--43526540	34	1.9	35	87	3	100	46	13	7	32	1.71
43527676--43527721	18	2.8	18	84	15	64	0	30	41	28	1.56
43528502--43528571	29	2.4	30	80	7	81	11	11	8	68	1.39
43529518--43529547	5	6.0	5	100	0	60	80	0	0	20	0.72
43531977--43532022	23	2.0	23	100	0	92	34	21	8	34	1.84
43533234--43533270	18	2.1	18	89	0	56	32	10	8	48	1.67
43551365--43551414	19	2.4	21	90	9	77	34	6	0	60	1.21
43551365--43551425	19	3.1	19	82	13	70	29	4	1	63	1.24
43551639--43551708	13	5.4	13	67	6	52	24	25	21	28	1.99
43551642--43551731	26	3.5	26	83	3	92	24	24	25	25	2.00
43551668--43551715	13	3.7	13	77	0	51	25	27	22	25	2.00
43562212--43562244	16	2.0	17	88	5	50	42	0	24	33	1.55
43567826--43567874	22	2.2	22	77	0	53	22	2	8	67	1.28
43567837--43567878	14	3.1	14	82	3	59	23	2	4	69	1.20
43568432--43568466	13	2.8	13	86	4	54	37	5	0	57	1.23
43568576--43568605	15	1.9	16	93	6	53	40	6	0	53	1.27
43569806--43569848	21	2.1	21	87	8	63	55	23	4	16	1.59
43571193--43571235	22	2.0	22	86	9	61	41	4	0	53	1.21
43572909--43572939	16	1.9	16	93	0	53	38	19	0	41	1.51
43577999--43578356	130	2.8	130	83	5	445	37	11	16	33	1.85
43580828--43580883	29	1.9	29	85	0	76	16	26	16	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43586421--43586463	22	1.9	23	90	4	70	67	0	4	27	1.10
43597862--43597924	27	2.3	27	91	0	99	23	33	31	11	1.90
43597978--43598026	19	2.4	21	83	10	57	18	2	6	73	1.14
43598773--43598816	22	2.0	22	86	8	63	40	0	4	54	1.21
43599260--43599299	16	2.5	16	87	0	53	42	5	2	50	1.37
43599273--43599334	22	2.7	23	85	5	81	46	0	1	51	1.10
43611930--43612021	23	4.0	23	82	0	121	32	25	19	22	1.97
43612246--43612284	18	2.2	17	86	13	53	46	20	2	30	1.64
43615678--43615729	26	2.0	26	96	0	95	34	9	26	28	1.88
43631401--43631471	35	2.0	35	94	0	124	28	21	8	42	1.82
43633896--43633931	18	2.0	18	89	10	56	66	0	0	33	0.92
43633809--43634056	128	1.9	127	83	5	322	33	18	11	36	1.87
43639311--43639374	2	32.0	2	100	0	128	50	0	0	50	1.00
43639931--43640073	57	2.4	57	85	9	171	29	18	27	24	1.98
43644448--43644504	23	2.5	23	91	0	96	63	15	0	21	1.31
43645818--43645862	18	2.6	18	86	6	58	60	0	2	37	1.09
43645798--43645862	8	7.9	8	78	13	69	56	0	3	40	1.15
43646060--43646100	18	2.2	19	86	4	57	39	0	2	58	1.11
43647775--43647824	26	2.0	25	84	4	64	32	10	2	56	1.44
43650544--43650592	17	2.8	17	78	12	55	4	22	2	71	1.13
43653266--43653469	42	4.8	42	85	6	245	28	33	17	20	1.95
43653744--43653834	43	2.1	43	87	2	130	43	9	10	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43657707--43657732	13	2.0	13	100	0	52	30	7	7	53	1.57
43658946--43659147	41	5.0	41	88	0	289	29	29	21	19	1.98
43659202--43659316	40	2.9	39	79	7	126	23	20	21	34	1.96
43659240--43659317	40	2.0	40	92	0	129	21	19	23	35	1.96
43663644--43663702	3	19.7	3	76	13	59	38	0	1	59	1.08
43663644--43663699	21	2.8	20	79	15	71	39	0	1	58	1.08
43663848--43663887	18	2.1	19	86	9	55	35	0	2	62	1.09
43664996--43665030	18	1.9	18	94	0	61	48	2	11	37	1.54
43667008--43667099	21	4.4	21	80	8	107	36	23	21	17	1.94
43667398--43667429	16	1.9	17	93	6	57	25	21	0	53	1.46
43668101--43668148	8	6.1	8	79	13	55	10	12	0	77	1.00
43668100--43668136	17	2.2	17	95	0	65	8	13	0	78	0.96
43668157--43668227	3	23.7	3	88	5	108	63	1	1	33	1.12
43668360--43668423	30	2.3	26	84	10	74	45	1	0	53	1.10
43668372--43668423	26	2.1	26	89	7	81	46	0	0	53	1.00
43669634--43669699	21	3.1	21	68	14	55	50	3	0	46	1.16
43672641--43672696	25	2.2	26	84	9	71	55	5	7	32	1.50
43676620--43676692	38	1.9	38	85	0	101	32	16	16	34	1.91
43676760--43677040	43	6.6	43	83	2	332	30	19	14	35	1.92
43676760--43677040	128	2.2	129	85	1	368	30	19	14	35	1.92
43686044--43686083	21	1.9	21	84	0	53	27	32	10	30	1.89
43687562--43687686	23	5.4	23	86	0	169	16	14	23	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43687629--43687744	58	2.0	58	84	0	151	14	12	24	49	1.77
43687687--43687744	23	2.5	23	91	0	89	13	10	25	50	1.74
43687687--43687751	23	2.8	23	83	4	69	15	10	24	49	1.76
43691344--43691385	17	2.5	17	84	3	50	61	0	4	33	1.17
43701413--43701443	2	15.5	2	100	0	62	48	0	0	51	1.00
43701595--43701720	63	2.0	63	98	0	243	40	12	16	30	1.86
43709045--43709200	42	3.8	43	82	11	168	59	0	2	37	1.11
43709047--43709108	10	5.8	11	81	7	67	51	0	1	46	1.10
43709045--43709149	11	9.9	11	71	19	62	57	0	1	40	1.10
43709939--43709977	21	1.9	21	89	5	62	33	25	0	41	1.56
43711218--43711285	31	2.2	31	94	2	120	27	17	14	39	1.89
43727463--43727503	3	13.7	3	86	0	55	2	31	2	63	1.20
43728168--43728218	7	7.1	7	95	4	93	43	0	43	13	1.44
43729830--43729866	16	2.2	17	90	4	58	29	0	0	70	0.88
43732273--43732302	15	2.0	15	100	0	60	26	6	33	33	1.83
43740995--43741046	26	2.0	26	81	7	61	44	5	7	42	1.57
43743283--43743593	135	2.3	136	75	3	322	28	24	13	34	1.93
43743283--43743593	68	4.6	68	80	4	304	28	24	13	34	1.93
43748706--43748745	21	1.9	21	89	0	62	22	12	25	40	1.89
43748738--43748854	48	2.4	48	91	0	180	18	17	25	38	1.92
43750367--43750424	19	3.1	19	73	24	52	27	1	5	65	1.23
43761396--43761446	27	1.9	27	84	4	68	27	35	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43771826--43771914	41	2.1	42	95	4	171	37	20	16	25	1.93
43794035--43794097	25	2.6	24	75	5	63	19	26	19	34	1.95
43794204--43794263	27	2.3	27	85	8	79	18	26	16	38	1.92
43794270--43794334	25	2.6	25	87	0	103	16	29	18	35	1.93
43809785--43810030	43	5.7	43	87	2	307	30	26	18	24	1.98
43814314--43814395	38	2.2	38	88	0	119	56	8	14	20	1.65
43815819--43815903	7	12.1	7	81	5	73	30	48	0	21	1.50
43815682--43816036	197	1.8	197	94	0	640	37	31	1	29	1.68
43816470--43816701	41	5.7	41	90	2	376	30	25	21	22	1.99
43817703--43818094	50	7.7	50	78	7	378	29	22	21	26	1.99
43817690--43818092	100	4.0	100	84	7	465	30	21	21	26	1.98
43818287--43819330	519	2.0	519	95	1	1887	38	25	16	19	1.92
43820053--43820077	12	2.1	12	100	0	50	24	0	8	68	1.16
43821513--43821538	13	2.0	13	100	0	52	38	0	7	53	1.30
43821552--43821603	26	2.0	27	85	11	72	48	5	15	30	1.68
43821929--43821968	21	2.0	21	85	9	57	75	0	22	2	0.93
43828286--43828315	13	2.3	13	100	0	60	40	43	0	16	1.48
43828437--43828462	7	3.7	7	100	0	52	88	0	0	11	0.52
43828493--43828522	9	3.3	9	100	0	60	26	10	20	43	1.83
43844901--43844952	23	2.3	23	79	0	59	34	7	30	26	1.85
43847671--43847706	17	2.2	17	95	5	65	58	5	0	36	1.22
43849987--43850045	23	2.5	24	81	8	68	61	1	1	35	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43854930--43854978	5	9.8	5	100	0	98	59	20	0	20	1.38
43857726--43857766	20	2.0	20	100	0	82	31	19	14	34	1.92
43861621--43861665	20	2.2	21	88	4	65	15	20	22	42	1.89
43861733--43861795	21	3.0	21	67	4	56	23	25	20	30	1.99
43863150--43863178	5	5.8	5	100	0	58	58	20	0	20	1.39
43865111--43865157	18	2.8	18	75	15	55	44	4	17	34	1.68
43866054--43866095	15	2.6	16	81	11	50	26	19	0	54	1.44
43866067--43866097	15	2.1	15	93	0	53	35	16	0	48	1.46
43866175--43866204	2	15.0	2	100	0	60	50	0	0	50	1.00
43866701--43866756	23	2.4	23	80	11	69	64	1	0	33	1.04

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