genome.fa.s10.2.7.7.80.10.50.1000.118.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  118  of  172  ( 20562 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)
39337161--39337602	136	3.4	131	76	11	344	48	10	15	25	1.77
39339202--39339474	91	3.0	91	84	1	305	33	26	15	24	1.95
39342352--39342399	24	2.0	25	87	4	71	41	8	10	39	1.69
39343856--39343915	18	3.3	18	77	9	68	40	13	16	30	1.87
39352103--39352194	25	3.8	25	74	18	95	32	22	3	41	1.70
39352087--39352194	50	2.2	50	96	0	198	34	22	2	40	1.68
39365709--39366294	293	2.0	293	98	0	1127	32	13	20	33	1.92
39367343--39367384	18	2.5	17	81	11	50	73	4	0	21	1.01
39367764--39367818	21	2.7	20	76	20	60	65	3	1	29	1.20
39367757--39367829	33	2.2	32	88	9	103	65	4	1	28	1.19
39367763--39367818	12	5.0	11	76	10	51	64	3	1	30	1.21
39367842--39367908	30	2.3	28	80	10	71	62	1	4	31	1.24
39367861--39367911	27	2.0	27	88	7	79	64	1	0	33	1.05
39367871--39367914	9	4.9	9	80	0	52	63	2	0	34	1.07
39367854--39367919	29	2.2	30	84	7	82	63	1	1	33	1.13
39371806--39371965	26	6.2	26	94	0	275	36	23	7	32	1.83
39373127--39373164	19	2.0	19	94	0	67	47	13	10	28	1.76
39377811--39377869	8	7.4	8	82	0	64	49	10	1	38	1.47
39377813--39377871	6	10.2	6	78	7	59	49	11	1	37	1.50
39379743--39379776	2	17.0	2	100	0	68	0	50	0	50	1.00
39382055--39382090	5	7.2	5	93	0	54	66	0	0	33	0.92
39386250--39386274	12	2.1	12	100	0	50	16	44	24	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39387160--39387766	87	7.0	88	70	15	402	27	21	18	32	1.97
39387171--39387766	262	2.3	262	94	0	1014	26	21	18	33	1.97
39390344--39390373	4	7.2	4	92	7	51	70	3	0	26	1.03
39391635--39391679	18	2.5	19	78	10	58	37	6	0	55	1.26
39391695--39391733	13	3.1	13	88	3	62	30	0	0	69	0.89
39391697--39391762	13	5.5	12	75	13	57	33	1	0	65	1.02
39391695--39391776	43	1.9	43	82	9	105	32	2	0	64	1.07
39392058--39392128	35	2.0	35	97	0	133	14	23	33	28	1.94
39393550--39393591	22	1.9	22	85	0	57	33	2	2	61	1.21
39408617--39408646	13	2.3	13	100	0	60	53	23	6	16	1.66
39422667--39422712	23	2.0	23	100	0	92	30	17	13	39	1.87
39424521--39424552	12	2.4	14	90	10	50	25	0	0	75	0.81
39425804--39425834	16	1.9	16	93	0	53	51	0	9	38	1.35
39431786--39431851	9	7.3	9	79	6	71	43	16	10	28	1.81
39431786--39431851	27	2.4	27	84	0	87	43	16	10	28	1.81
39432123--39432175	18	2.9	18	82	0	70	28	15	18	37	1.91
39436118--39436432	157	2.0	157	100	0	630	36	17	6	39	1.76
39439838--39440081	33	7.3	33	69	10	136	29	24	15	30	1.96
39439836--39440089	101	2.5	101	85	4	359	28	25	15	30	1.96
39441232--39441266	15	2.4	15	85	4	54	60	0	2	37	1.12
39444884--39444923	19	2.1	19	85	0	53	35	2	7	55	1.42
39452816--39452893	29	2.7	29	83	0	102	32	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39457648--39457723	26	2.9	26	84	7	109	32	14	9	43	1.77
39457866--39457890	12	2.1	12	100	0	50	16	24	0	60	1.36
39461208--39461274	31	2.1	33	86	5	93	55	7	14	22	1.65
39461847--39461886	12	3.3	12	93	6	64	32	0	0	67	0.91
39463463--39463490	6	4.7	6	100	0	56	64	0	17	17	1.30
39485499--39485550	21	2.4	21	78	12	61	59	0	3	36	1.16
39485499--39485553	22	2.5	21	83	13	67	58	0	3	38	1.16
39490455--39490489	17	2.0	18	88	5	54	11	5	14	68	1.37
39494102--39494128	12	2.2	12	100	0	54	37	25	0	37	1.57
39498328--39498386	23	2.6	21	77	15	64	27	22	15	35	1.94
39505127--39505345	25	8.7	24	69	11	86	22	26	20	30	1.98
39505101--39505196	50	1.9	50	82	4	122	16	28	20	34	1.95
39505235--39505310	27	2.8	27	93	0	125	27	30	17	25	1.97
39507363--39507408	23	2.0	23	84	12	60	45	10	6	36	1.65
39507370--39507414	23	2.0	23	82	8	56	40	13	8	37	1.76
39515304--39515399	49	1.9	50	83	6	124	19	29	17	33	1.95
39515329--39515481	74	2.1	74	84	9	197	20	27	18	33	1.96
39515437--39515519	25	3.4	24	81	1	76	22	27	20	28	1.99
39515378--39515516	74	1.9	74	79	8	158	22	26	20	30	1.98
39515462--39515531	25	2.8	25	84	0	77	21	25	20	32	1.97
39516775--39516828	20	2.7	19	83	11	63	25	29	0	44	1.54
39516782--39516831	20	2.5	20	90	0	73	26	26	0	48	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39523356--39523394	7	5.6	7	100	0	78	74	0	12	12	1.08
39530166--39530227	31	2.0	31	100	0	124	22	9	25	41	1.84
39531111--39531151	21	1.9	22	85	5	57	31	24	4	39	1.76
39532766--39532961	98	2.0	98	94	0	347	39	16	7	36	1.76
39533342--39534493	383	3.0	382	98	0	2205	37	6	20	35	1.78
39534907--39534984	33	2.4	33	79	12	88	29	17	28	24	1.98
39540441--39540601	80	2.0	80	98	0	313	27	12	34	24	1.92
39540886--39540933	25	1.9	25	86	0	69	33	25	16	25	1.96
39540981--39541036	11	5.5	11	71	16	57	35	12	19	32	1.89
39540970--39541036	20	3.3	20	93	0	116	34	11	20	32	1.90
39541087--39541204	23	5.1	23	88	4	175	30	18	19	31	1.96
39541086--39541221	23	5.8	24	86	6	129	30	19	21	28	1.98
39541420--39541483	31	2.1	31	93	0	110	37	15	23	23	1.93
39547951--39547998	25	1.9	25	91	0	78	35	25	14	25	1.94
39548046--39548101	11	5.5	11	71	16	57	35	12	19	32	1.89
39548035--39548101	20	3.3	20	93	0	116	34	11	20	32	1.90
39548152--39548246	23	4.1	22	90	8	145	28	17	22	31	1.97
39548461--39548524	31	2.1	31	93	0	110	37	15	23	23	1.93
39551086--39551134	21	2.1	24	85	14	68	48	14	4	32	1.62
39555714--39555787	37	2.0	37	100	0	148	43	16	21	18	1.88
39558017--39558139	38	3.2	38	88	3	185	23	24	18	33	1.97
39562586--39562700	44	2.6	44	85	2	149	35	13	22	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39562586--39562719	46	3.0	45	82	4	153	35	14	23	26	1.93
39564543--39564701	79	2.0	79	85	0	210	47	9	11	30	1.72
39568498--39568605	52	2.1	52	92	1	191	25	13	14	46	1.82
39569815--39569852	20	1.9	20	84	10	51	26	5	7	60	1.46
39570336--39570408	36	2.0	36	86	5	103	30	1	34	34	1.67
39571338--39572729	697	2.0	693	90	2	2209	29	13	18	39	1.89
39579093--39579117	7	3.6	7	100	0	50	12	0	60	28	1.32
39579093--39579126	14	2.4	14	90	0	50	14	2	55	26	1.53
39585690--39585719	8	3.6	8	91	8	51	20	0	3	76	0.92
39586680--39586837	73	2.2	73	83	4	194	34	21	15	28	1.94
39594815--39594858	18	2.4	18	88	0	70	6	27	47	18	1.73
39594902--39594979	6	12.3	6	81	14	68	0	25	0	74	0.82
39594912--39594980	3	24.0	3	82	5	81	0	27	0	72	0.85
39594997--39595039	18	2.4	18	81	11	54	0	44	32	23	1.54
39595058--39595115	20	3.0	20	82	14	68	0	37	0	62	0.96
39595358--39595452	30	3.2	30	80	3	111	44	3	23	29	1.69
39595455--39595508	25	2.2	25	86	6	74	29	0	3	66	1.09
39604154--39604631	119	4.0	119	94	0	814	32	16	20	29	1.95
39604555--39604824	83	3.2	83	86	1	360	32	19	19	28	1.96
39604579--39604811	84	2.8	83	90	0	340	33	20	20	25	1.96
39606308--39606348	18	2.3	18	87	4	57	41	0	4	53	1.22
39606316--39606358	18	2.3	19	88	4	61	34	0	4	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39606316--39606394	16	4.6	16	74	14	59	32	2	3	60	1.28
39606425--39606476	12	4.3	12	76	16	54	36	0	1	61	1.07
39606428--39606489	12	5.3	12	72	18	51	33	1	1	62	1.14
39606529--39606576	18	2.6	19	80	12	55	22	0	6	70	1.09
39609488--39609531	22	2.0	22	86	0	61	45	0	4	50	1.22
39609507--39609540	17	1.9	18	88	5	52	41	2	0	55	1.15
39612287--39612323	18	2.1	18	89	0	56	35	2	0	62	1.10
39617270--39617322	21	2.5	21	90	0	79	28	37	9	24	1.86
39626232--39626450	46	4.7	46	79	13	209	27	16	30	25	1.97
39630598--39630659	21	3.0	21	83	9	65	33	4	3	58	1.36

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