genome.fa.s16.2.7.7.80.10.50.1000.143.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  143  of  175  ( 20966 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)
43870461--43870551	11	8.5	11	70	18	59	24	28	2	45	1.65
43872390--43872432	18	2.4	18	84	0	50	20	25	9	44	1.81
43876109--43876411	126	2.4	126	88	0	444	27	21	18	32	1.97
43882949--43883000	9	5.8	9	95	0	95	36	30	9	23	1.87
43891202--43891242	21	2.0	21	90	0	64	29	21	29	19	1.98
43894757--43894781	4	6.2	4	100	0	50	76	0	0	24	0.80
43902423--43902501	36	2.2	37	95	2	142	40	5	0	54	1.22
43902539--43902606	25	2.7	24	77	11	66	50	1	2	45	1.26
43902534--43902590	30	1.9	29	86	10	80	49	1	1	47	1.22
43902788--43902822	19	1.9	17	88	11	52	40	0	14	45	1.45
43904326--43904369	20	2.2	20	88	8	63	56	2	0	40	1.11
43904330--43904368	9	4.1	9	84	12	51	56	2	0	41	1.13
43905901--43905930	16	1.9	16	93	6	53	40	0	6	53	1.27
43906679--43906717	3	13.0	3	100	0	78	66	0	33	0	0.92
43907322--43907351	9	3.3	9	90	0	51	13	0	26	60	1.34
43913689--43913724	19	1.9	19	88	5	56	58	8	0	33	1.28
43914300--43914346	24	1.9	25	82	4	60	46	2	0	51	1.13
43914659--43914727	32	2.2	32	84	5	88	44	5	20	28	1.74
43918787--43918828	14	3.0	14	82	0	57	52	4	11	30	1.59
43918859--43919173	127	2.5	126	88	1	461	39	13	19	27	1.90
43919273--43919334	25	2.5	25	91	0	106	53	3	24	19	1.60
43922344--43922474	59	2.2	60	89	6	196	54	6	4	34	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43923448--43923487	20	2.0	21	90	5	64	70	17	0	12	1.18
43924673--43924709	19	1.9	19	94	0	65	37	10	8	43	1.69
43924726--43924793	17	3.6	18	75	16	66	42	10	13	33	1.78
43924689--43924792	22	5.5	17	72	20	66	42	11	11	34	1.77
43924676--43924960	39	7.5	37	68	16	140	43	10	11	34	1.75
43924851--43924958	18	6.3	18	75	10	93	41	9	13	35	1.77
43925060--43925096	16	2.2	17	86	13	51	67	2	2	27	1.17
43925453--43925498	20	2.4	19	86	13	67	0	15	0	84	0.62
43925849--43925897	21	2.4	20	86	6	71	2	24	0	73	0.94
43925857--43925893	18	2.1	17	95	5	65	0	24	0	75	0.80
43926000--43926070	22	3.2	22	74	4	72	1	15	4	78	0.97
43925998--43926070	15	5.2	14	77	19	73	1	16	4	78	0.98
43926388--43926447	28	2.1	29	84	3	77	36	6	26	30	1.82
43926425--43926508	30	2.8	30	82	5	91	47	4	19	28	1.69
43926677--43927350	76	8.6	79	83	5	761	34	19	16	29	1.94
43935570--43935612	16	2.5	17	81	7	52	37	16	11	34	1.85
43935600--43935688	39	2.2	40	82	5	101	41	10	11	37	1.75
43935570--43935688	18	6.4	17	69	19	69	40	11	11	36	1.79
43935729--43935771	19	2.1	22	87	12	65	32	9	11	46	1.72
43935749--43935804	18	3.2	18	84	5	69	46	8	10	33	1.70
43935750--43935811	18	3.5	17	78	6	61	48	8	12	30	1.70
43935749--43935847	36	2.8	35	77	7	85	44	8	13	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43936344--43936389	16	2.8	16	81	12	58	0	15	0	84	0.62
43936344--43936392	17	2.9	17	81	3	64	0	16	0	83	0.64
43936722--43936803	14	5.7	14	77	14	71	1	19	0	79	0.80
43936727--43936808	27	2.7	31	77	17	84	1	21	0	76	0.85
43936728--43936809	28	3.1	25	80	19	87	1	23	0	75	0.87
43937359--43937415	30	1.9	30	85	0	78	50	3	19	26	1.63
43939796--43939822	10	2.7	10	100	0	54	74	0	0	25	0.83
43948285--43948359	38	2.0	38	100	0	150	40	10	10	38	1.75
43949336--43949360	13	1.9	13	100	0	50	0	16	0	84	0.63
43949739--43949803	20	3.3	20	85	8	89	55	6	0	38	1.25
43951259--43951303	19	2.2	21	84	7	58	53	0	2	44	1.13
43951436--43951480	19	2.4	18	85	14	56	22	8	8	60	1.55
43952525--43952550	7	3.7	7	100	0	52	73	0	0	26	0.84
43957091--43957177	45	2.0	44	88	2	129	51	2	2	43	1.26
43959523--43959547	8	3.1	8	100	0	50	36	0	0	64	0.94
43963746--43963771	4	6.5	4	100	0	52	76	0	0	23	0.78
43963846--43963882	4	9.2	4	100	0	74	75	0	0	24	0.80
43964319--43964411	3	31.0	3	69	4	53	54	5	3	36	1.39
43965374--43965399	11	2.4	11	100	0	52	7	26	7	57	1.54
43965727--43965751	12	2.1	12	100	0	50	76	8	8	8	1.18
43967653--43967713	29	2.1	29	100	0	122	37	19	0	42	1.52
43967954--43967978	5	5.0	5	100	0	50	80	20	0	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43971482--43971534	21	2.5	21	90	0	79	30	35	9	24	1.87
43977334--43977373	20	2.0	20	95	0	71	32	10	10	47	1.70
43977364--43977449	33	2.7	32	75	13	95	26	5	18	48	1.70
43980793--43980874	35	2.3	36	85	4	112	48	3	7	40	1.48
43984136--43984164	5	5.8	5	100	0	58	82	0	0	17	0.66
43985812--43985947	51	2.7	51	91	0	218	30	16	26	26	1.97
43988003--43988102	36	2.7	37	80	11	107	47	1	21	31	1.58
43988306--43988378	21	3.5	21	84	1	85	17	24	24	32	1.97
43992433--43992474	21	2.0	21	90	0	66	47	0	7	45	1.30
43992965--43993118	57	2.7	57	82	2	186	50	15	9	24	1.74
43992965--43993114	55	2.7	55	83	4	167	50	16	8	25	1.73
43995937--43995990	26	2.1	25	86	10	74	29	12	5	51	1.63
43996286--43996387	42	2.4	43	75	12	104	42	18	16	22	1.89
43998002--43998050	23	2.1	22	82	14	55	26	4	16	53	1.61
43998296--43998320	13	1.9	13	100	0	50	24	0	4	72	1.02
44004800--44004825	3	8.7	3	100	0	52	0	34	0	65	0.93
44010017--44010092	38	2.0	38	100	0	152	42	23	10	23	1.85
44012786--44012813	14	2.0	14	100	0	56	35	0	0	64	0.94
44012769--44012812	13	3.3	13	78	6	52	38	2	0	59	1.10
44013421--44013460	15	2.8	14	85	7	53	55	5	5	35	1.44
44013427--44013471	14	3.1	14	87	3	54	55	4	4	35	1.40
44014864--44015007	66	2.2	65	85	3	182	30	13	27	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44021560--44021587	4	7.0	4	100	0	56	25	0	25	50	1.50
44022627--44022670	21	2.1	20	83	8	52	40	4	9	45	1.56
44029633--44029675	6	7.2	6	100	0	86	51	0	0	48	1.00
44029633--44029680	18	2.7	18	93	3	71	54	0	0	45	0.99
44040581--44040687	11	10.3	11	74	15	77	59	0	2	37	1.12
44040554--44040696	41	3.5	40	80	4	160	61	1	2	34	1.16
44041003--44041039	3	12.3	3	100	0	74	32	0	0	67	0.91
44041262--44041353	42	2.2	42	78	3	96	25	4	6	64	1.36
44046957--44047098	50	2.8	50	93	0	230	20	31	22	25	1.98
44047198--44047224	13	2.1	13	100	0	54	62	7	0	29	1.22
44051524--44051662	50	2.8	50	80	5	154	23	29	21	25	1.99
44058695--44058839	51	2.8	51	92	0	236	35	15	18	30	1.92
44058804--44058889	41	2.1	41	88	0	127	36	17	13	32	1.89
44058939--44059091	44	3.4	44	79	4	144	32	17	19	30	1.95
44060699--44060751	3	17.7	3	100	0	106	0	0	32	67	0.91
44060930--44060955	13	2.0	13	100	0	52	30	0	7	61	1.24
44061098--44061148	3	17.0	3	100	0	102	33	0	0	66	0.92
44062338--44062378	12	3.4	12	82	0	55	34	4	4	56	1.42
44062911--44063451	109	5.0	109	90	2	811	30	15	19	34	1.93
44067239--44067286	7	7.1	7	78	21	50	75	0	25	0	0.81
44067235--44067275	18	2.3	18	91	8	66	80	0	19	0	0.71
44067240--44067282	14	3.3	14	84	15	65	76	0	23	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44068509--44068994	88	5.5	88	93	0	828	26	24	23	24	2.00
44069024--44069283	52	5.4	51	65	20	171	30	17	23	28	1.97
44068996--44069337	95	3.6	95	93	0	567	28	17	23	29	1.97
44069025--44069414	190	2.1	190	83	6	488	31	17	22	28	1.96
44069327--44069589	132	2.0	132	88	0	391	33	19	22	25	1.97
44070276--44070314	19	2.0	20	90	5	62	10	12	0	76	1.01
44070340--44070378	6	6.7	6	82	5	53	15	2	2	79	0.95
44070966--44071006	12	3.4	12	89	0	64	34	2	4	58	1.32
44071543--44072084	110	5.0	109	90	1	793	31	15	18	35	1.92
44071543--44072071	219	2.4	220	91	2	852	31	14	18	35	1.91

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