genome.fa.s13.2.7.7.80.10.50.1000.160.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  160  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)
47573878--47573950	10	7.7	10	70	11	55	45	1	9	43	1.45
47575837--47576002	44	3.8	44	74	7	158	22	23	24	30	1.99
47576149--47576499	44	7.9	45	72	11	222	27	23	20	28	1.99
47576195--47576499	134	2.3	133	83	8	358	26	24	20	28	1.99
47576017--47576485	44	10.6	44	71	7	209	26	24	20	28	1.99
47577974--47578027	7	8.0	7	79	8	58	16	16	0	66	1.25
47577969--47578026	20	2.9	20	84	5	82	15	18	0	65	1.27
47578960--47578988	6	4.8	6	100	0	58	17	0	13	68	1.20
47583423--47583495	10	7.7	10	70	11	55	45	1	9	43	1.45
47583782--47583816	2	17.5	2	100	0	70	51	0	0	48	1.00
47586068--47586111	18	2.4	19	85	11	65	25	9	0	65	1.21
47586134--47586186	3	17.7	3	82	0	52	33	5	1	58	1.32
47592785--47592830	20	2.3	20	100	0	92	52	4	30	13	1.59
47604019--47604277	128	2.0	129	92	1	430	33	12	24	29	1.92
47608949--47608986	16	2.2	18	86	9	53	65	0	10	23	1.23
47609995--47610040	24	1.9	24	86	8	67	52	0	0	47	1.00
47612428--47612509	42	2.0	42	92	0	137	30	12	8	48	1.70
47614371--47614397	12	2.2	12	100	0	54	33	29	14	22	1.94
47618869--47618961	46	2.0	46	95	0	168	29	21	11	37	1.89
47622655--47622684	6	5.2	6	92	8	53	16	0	0	83	0.65
47636533--47636590	22	2.6	22	81	5	64	25	17	18	37	1.93
47636557--47636612	20	2.7	22	81	10	64	25	17	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47638828--47638995	62	2.6	65	86	8	227	20	20	19	39	1.93
47638828--47639035	67	3.2	66	85	6	246	22	20	19	38	1.94
47640385--47640460	2	39.5	2	80	7	68	55	2	0	42	1.14
47641630--47641754	17	6.7	17	69	21	81	38	2	0	59	1.11
47641659--47641774	11	11.3	11	68	25	60	38	2	0	58	1.12
47641738--47641770	13	2.7	13	90	9	52	45	0	0	54	0.99
47641973--47641997	13	1.9	13	100	0	50	32	44	0	24	1.54
47642740--47642828	44	2.0	43	84	2	115	24	26	20	28	1.99
47642594--47643627	132	7.8	132	88	3	1423	28	24	17	29	1.97
47643639--47643770	44	3.0	45	79	2	158	26	24	20	28	1.99
47650315--47650367	22	2.4	21	78	9	61	54	5	0	39	1.24
47650583--47650671	3	29.7	3	88	0	133	62	2	2	32	1.19
47651751--47651816	33	2.0	33	100	0	132	27	27	9	36	1.87
47651952--47652083	44	3.0	44	82	5	158	22	18	13	44	1.85
47653388--47653438	3	17.0	3	100	0	102	66	0	0	33	0.92
47653487--47653523	2	19.0	2	94	5	67	51	0	0	48	1.00
47658187--47658444	109	2.4	108	90	0	399	35	18	15	31	1.91
47658748--47658810	23	2.6	26	75	12	62	52	0	6	41	1.27
47658801--47658834	16	2.2	16	89	5	52	35	5	11	47	1.65
47658823--47658919	42	2.3	40	76	10	95	52	3	7	37	1.45
47658995--47659055	15	4.1	14	75	10	50	54	1	4	39	1.32
47659145--47659221	29	2.5	29	76	21	77	58	1	11	28	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47664894--47664936	17	2.5	17	88	3	59	27	30	25	16	1.97
47664893--47664959	18	3.8	17	76	5	62	29	26	23	19	1.98
47673826--47673915	36	2.5	36	83	0	108	18	12	24	44	1.84
47676742--47676766	13	1.9	13	100	0	50	8	16	40	36	1.77
47685585--47685617	2	16.0	2	93	6	57	48	0	3	48	1.17
47686083--47686130	21	2.4	19	74	16	51	33	2	2	62	1.18
47687285--47687381	20	5.2	20	63	14	71	43	18	6	31	1.75
47687305--47687365	17	3.4	17	70	12	59	50	16	3	29	1.61
47687258--47687408	37	4.0	37	94	1	257	45	16	5	32	1.70
47687258--47687425	75	2.2	75	90	6	252	46	16	5	32	1.69
47688324--47688353	12	2.5	12	94	0	51	83	6	0	10	0.81
47688358--47688511	30	5.2	30	81	6	181	32	20	5	41	1.76
47688357--47688511	59	2.6	59	84	6	190	32	20	5	41	1.76
47688870--47688908	12	3.2	12	89	7	53	56	0	43	0	0.99
47689189--47689241	11	4.9	10	77	22	54	83	0	16	0	0.66
47689195--47689242	22	2.3	22	82	7	64	81	0	18	0	0.70
47689194--47689240	7	6.9	7	76	13	53	82	0	17	0	0.66
47689645--47689716	35	2.1	33	87	10	101	27	15	11	45	1.80
47689645--47689716	17	4.2	17	88	10	103	27	15	11	45	1.80
47689659--47689731	35	2.1	35	85	10	96	26	15	10	47	1.77
47695897--47695951	10	5.5	10	78	22	53	87	7	0	5	0.68
47695898--47695957	14	4.2	13	78	18	57	85	8	1	5	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47696820--47697483	79	8.5	78	82	7	749	28	15	19	35	1.93
47696820--47697502	156	4.4	155	82	8	767	28	16	19	35	1.93
47696798--47697489	236	2.9	234	83	9	870	28	15	18	37	1.92
47697658--47697683	10	2.6	10	100	0	52	84	7	0	7	0.77
47697688--47697841	30	5.2	29	83	8	195	33	18	6	41	1.76
47697686--47697841	59	2.6	58	86	7	208	33	18	6	41	1.76
47698199--47698241	22	1.9	23	90	4	70	55	0	44	0	0.99
47698463--47698512	26	2.0	25	88	4	73	36	46	18	0	1.49
47698518--47698584	15	4.6	14	78	12	73	82	0	17	0	0.68
47698519--47698584	30	2.3	29	89	10	100	81	0	18	0	0.68
47698515--47698584	9	8.0	8	77	17	68	82	0	17	0	0.66
47698990--47699044	16	3.2	16	85	14	83	27	14	10	47	1.78
47698992--47699050	18	3.4	17	86	13	84	30	11	10	47	1.73
47698992--47699059	35	1.9	35	88	5	102	27	13	11	47	1.78
47700451--47700477	6	4.5	6	100	0	54	55	0	0	44	0.99
47714455--47714829	50	7.5	50	72	7	303	30	20	24	24	1.99
47714400--47714897	100	5.0	100	92	0	800	29	21	24	24	1.99
47714451--47714913	50	9.3	50	67	10	264	29	20	24	24	1.99
47718149--47718188	21	1.9	21	94	0	71	27	0	27	45	1.54
47718238--47718292	21	2.7	20	80	8	65	21	3	27	47	1.68
47718646--47718673	12	2.3	12	100	0	56	28	0	25	46	1.53
47719008--47719188	63	2.8	64	84	5	240	28	20	7	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47719873--47719970	19	5.1	19	86	4	133	37	10	16	35	1.82
47721819--47721951	63	2.1	64	85	1	178	27	19	7	45	1.77
47728998--47729055	29	2.0	29	100	0	116	24	20	13	41	1.89
47729250--47729428	44	4.1	44	64	18	104	29	17	26	25	1.98
47729391--47729839	44	10.2	44	64	13	145	30	20	24	24	1.99
47729154--47729930	132	5.9	132	93	0	1326	29	20	25	24	1.99
47729917--47730209	44	6.7	43	76	13	219	27	20	23	27	1.99
47729966--47730121	84	1.8	84	84	9	210	26	19	24	28	1.99
47730219--47731057	132	6.4	132	96	0	1493	27	16	27	29	1.97
47730219--47731057	263	3.2	264	95	0	1502	27	16	27	29	1.97
47731333--47731445	19	5.8	19	84	4	154	40	9	15	34	1.80
47731334--47731439	40	2.7	40	91	2	171	40	10	14	34	1.80
47732899--47733087	98	1.9	98	94	0	333	28	10	24	37	1.88
47737309--47737334	13	2.0	13	100	0	52	53	23	7	15	1.67
47738841--47738946	45	2.3	43	77	13	106	56	0	7	34	1.34
47740471--47740706	115	2.1	115	87	1	339	21	22	20	35	1.96
47740794--47740878	44	1.9	44	85	4	118	25	27	20	27	1.99
47740801--47740893	44	2.1	44	82	4	107	29	26	17	26	1.97
47741042--47741561	45	12.0	45	73	11	356	23	21	24	30	1.99
47741132--47741194	31	2.0	31	93	0	108	26	23	26	22	2.00
47741040--47741285	121	2.1	119	83	1	303	25	19	23	30	1.98
47741161--47741561	89	4.5	89	87	1	581	22	20	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47741581--47742740	580	2.0	580	96	0	2140	29	20	16	33	1.94
47743386--47743473	3	29.7	3	80	15	62	0	22	0	77	0.77
47743400--47743456	4	15.5	4	79	20	63	0	22	0	77	0.77
47743383--47743475	19	4.2	21	80	17	100	0	21	0	78	0.75
47743382--47743474	28	3.4	28	84	10	113	0	22	0	77	0.77
47743385--47743474	22	3.8	24	81	14	107	0	22	0	77	0.76
47743383--47743477	25	3.6	24	79	14	91	0	21	0	78	0.74
47743556--47743588	14	2.3	15	89	5	50	24	30	15	30	1.95
47744937--47745200	41	6.4	41	92	0	429	21	28	21	28	1.98
47746139--47746178	2	20.0	2	100	0	80	50	0	0	50	1.00

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