genome.fa.s23.2.7.7.80.10.50.1000.180.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   

This is table  180  of  228  ( 27298 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)
53866626--53866687	29	2.2	28	83	13	76	41	4	9	43	1.59
53868290--53868327	18	2.1	18	95	0	67	21	15	34	28	1.94
53879056--53879185	64	2.0	64	84	0	170	23	20	22	34	1.97
53879368--53879441	23	3.1	24	79	16	75	16	17	22	43	1.88
53879400--53879459	26	2.3	27	80	11	72	15	15	21	48	1.81
53883521--53883545	13	1.9	13	100	0	50	48	0	40	12	1.40
53883883--53883919	9	4.1	9	92	0	65	29	10	13	45	1.77
53884034--53884065	16	2.0	16	93	0	55	25	28	25	21	1.99
53889578--53889625	24	2.0	23	84	4	60	33	18	29	18	1.95
53891807--53891866	22	2.8	21	85	12	77	28	3	3	65	1.25
53895367--53895425	29	2.0	29	93	0	100	38	3	3	54	1.34
53897611--53897710	30	3.4	28	75	14	85	39	2	12	47	1.52
53897638--53897710	30	2.4	31	77	8	89	35	0	13	50	1.42
53897762--53898032	126	2.2	126	93	0	470	35	18	17	28	1.94
53901458--53901500	18	2.4	18	88	0	59	39	11	27	20	1.88
53902219--53902243	7	3.6	7	100	0	50	60	12	0	28	1.32
53903108--53903135	10	2.8	10	100	0	56	64	0	0	35	0.94
53903320--53903384	30	2.2	30	94	0	112	40	3	27	29	1.71
53905899--53905943	23	2.0	23	82	4	56	64	2	0	33	1.06
53906886--53906916	8	3.9	8	95	0	53	35	0	9	54	1.33
53911705--53911786	41	2.0	41	92	0	137	30	6	14	48	1.68
53920235--53920291	3	19.0	3	85	7	80	38	29	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53921465--53921501	9	3.9	10	86	10	51	62	2	0	35	1.10
53921465--53921501	19	1.9	19	88	0	56	62	2	0	35	1.10
53921428--53921519	48	1.9	48	86	6	134	55	2	1	41	1.19
53925279--53925337	30	1.9	32	86	6	86	30	1	10	57	1.42
53928748--53928996	50	4.8	50	85	4	284	20	29	24	26	1.99
53928747--53928996	100	2.4	104	88	6	357	20	29	24	26	1.99
53929091--53929122	13	2.5	13	94	0	55	56	12	0	31	1.37
53929334--53929391	30	1.9	30	89	0	89	31	24	3	41	1.71
53938497--53938527	16	1.9	16	93	0	53	25	22	16	35	1.94
53939123--53939186	31	2.1	31	93	0	110	37	15	10	35	1.83
53945739--53945779	11	3.8	11	78	18	50	73	0	0	26	0.84
53945741--53945783	21	2.0	22	90	4	70	72	0	0	27	0.85
53945751--53945875	27	4.2	28	69	17	81	63	0	0	35	1.06
53945767--53945804	20	1.9	20	94	0	67	57	0	2	39	1.12
53945737--53945880	19	7.6	19	66	23	56	63	0	0	35	1.05
53946396--53946586	9	20.0	9	63	17	64	34	3	4	58	1.35
53946438--53946490	22	2.4	22	81	12	65	35	0	7	56	1.28
53946438--53946588	20	7.8	19	69	19	73	34	1	5	58	1.32
53946507--53946611	38	2.8	37	71	12	88	31	2	5	60	1.35
53949816--53950128	93	3.3	94	94	3	517	29	6	19	44	1.75
53964807--53965351	114	4.8	112	75	9	442	30	17	24	26	1.98
53965454--53965489	18	2.0	18	89	10	56	25	0	5	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53965811--53965867	29	2.0	29	82	0	69	28	5	31	35	1.79
53966435--53966495	7	8.6	7	87	3	68	8	0	45	45	1.33
53966444--53966503	7	8.6	7	87	7	59	13	0	41	45	1.43
53967003--53967230	74	3.1	74	66	17	211	23	14	23	38	1.92
53966946--53967272	147	2.2	147	96	0	591	25	14	22	37	1.92
53966945--53967176	73	3.1	74	66	17	183	24	12	21	40	1.89
53967021--53967273	73	3.5	71	67	13	181	25	15	24	35	1.94
53966946--53967326	147	2.6	146	90	2	543	24	13	22	38	1.91
53966946--53967398	147	3.1	146	87	3	482	24	13	24	37	1.92
53968820--53968856	10	3.7	10	92	0	56	43	0	0	56	0.99
53968871--53968903	17	1.9	17	93	0	57	42	6	0	51	1.26
53968899--53968934	16	2.2	16	90	0	54	30	8	8	52	1.61
53969323--53969381	13	4.5	13	87	8	75	40	10	1	47	1.47
53969629--53969953	16	19.8	16	62	24	90	46	19	2	32	1.62
53969722--53969952	9	26.4	9	70	14	153	46	20	1	30	1.61
53969657--53969748	39	2.4	38	85	5	114	48	15	2	33	1.57
53969734--53969856	43	2.8	45	79	10	121	48	22	0	27	1.56
53969764--53969814	25	2.0	25	84	0	66	52	21	0	25	1.47
53969864--53969968	25	4.2	25	78	4	95	45	19	2	32	1.65
53969864--53969968	51	2.1	50	83	5	131	45	19	2	32	1.65
53974212--53974244	7	4.9	7	92	7	59	87	0	0	12	0.53
53974211--53974245	13	2.5	15	86	13	56	88	0	0	11	0.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53978395--53978444	21	2.4	21	82	0	64	38	18	42	2	1.61
53978726--53978841	41	2.8	41	74	1	115	32	18	20	27	1.97
53978814--53978911	42	2.3	42	89	0	160	23	21	22	32	1.98
53979832--53979873	15	2.9	15	82	10	52	52	0	0	47	1.00
53979963--53979997	18	2.0	17	88	5	52	54	0	0	45	0.99
53979829--53980236	120	3.4	120	95	1	723	49	4	2	43	1.36
53980175--53980317	26	5.7	26	66	16	86	49	1	2	46	1.25
53980277--53980330	15	3.9	15	72	16	53	51	1	0	46	1.11
53980282--53980417	71	1.9	73	92	4	231	47	3	2	46	1.35
53987540--53987575	6	6.0	6	86	0	54	36	13	16	33	1.89
53988034--53988115	32	2.6	32	80	3	94	19	40	23	17	1.91
53989131--53989189	32	1.9	32	83	10	79	74	1	3	20	1.05
53995242--53995352	46	2.4	46	85	7	147	43	8	8	40	1.64
53998979--53999311	115	2.9	115	81	3	377	33	20	19	27	1.96
53999414--53999576	84	1.9	84	86	4	231	30	23	20	25	1.99
54000397--54000717	114	2.8	115	79	6	314	23	14	20	41	1.89
54000897--54000973	40	1.9	40	89	0	118	16	41	2	38	1.63
54000920--54000961	15	2.7	16	85	7	59	14	45	2	38	1.58
54002453--54002485	15	2.2	15	100	0	66	39	0	6	54	1.25
54002434--54002545	45	2.5	45	89	2	165	37	3	7	51	1.47
54002653--54002736	17	5.2	17	84	11	122	34	5	8	51	1.57
54002805--54002860	24	2.2	26	87	6	80	53	17	1	26	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54002789--54003083	9	34.4	9	74	13	205	49	19	2	28	1.61
54002811--54002853	16	2.6	16	88	3	59	53	18	2	25	1.56
54002826--54002870	19	2.3	19	84	3	54	51	20	4	24	1.66
54002903--54003094	16	11.4	17	76	14	150	47	20	1	30	1.60
54002903--54003074	25	6.8	25	88	1	245	47	21	1	29	1.61
54004914--54004982	21	3.3	21	85	4	86	36	20	40	2	1.67
54005355--54005455	43	2.3	43	80	6	116	28	15	23	31	1.96
54005415--54005643	43	5.4	42	76	5	183	24	22	20	32	1.98
54005448--54005605	85	1.8	86	83	4	212	25	22	17	34	1.96
54005415--54005622	85	2.5	84	75	5	204	24	22	19	33	1.97
54006123--54006174	24	2.1	25	85	3	70	67	3	0	28	1.08
54009743--54009826	42	2.0	42	97	0	159	48	19	13	19	1.80
54011946--54011979	4	8.0	4	90	9	50	23	0	2	73	0.97
54011929--54011988	22	2.7	22	73	19	61	26	0	6	66	1.16
54015771--54015804	4	8.0	4	90	9	50	23	0	2	73	0.97
54015754--54015813	22	2.7	22	73	19	61	26	0	6	66	1.16
54019466--54019500	6	5.8	6	100	0	70	51	17	0	31	1.45
54019468--54019508	18	2.3	18	91	0	64	51	21	0	26	1.48
54019576--54019610	16	2.2	16	89	0	52	45	22	8	22	1.79
54032189--54032275	18	4.8	18	85	0	120	27	24	16	32	1.96
54042574--54042615	22	2.0	21	85	4	57	47	0	4	47	1.23
54048461--54048620	48	3.3	48	92	1	250	19	15	15	50	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54053594--54053646	3	18.0	3	96	3	99	66	0	0	33	0.92
54066075--54066120	13	3.5	13	78	0	56	32	4	34	28	1.77
54066068--54066120	26	2.0	26	92	0	88	28	5	32	33	1.81
54069128--54069165	18	2.2	18	90	4	60	21	15	7	55	1.66
54071798--54071823	1	26.0	1	100	0	52	100	0	0	0	0.00
54074342--54074379	3	12.7	3	100	0	76	34	0	0	65	0.93
54074513--54074597	32	2.4	35	81	15	95	65	0	1	32	1.00
54074547--54074576	11	2.7	11	89	0	51	56	0	3	40	1.16
54076908--54076934	3	9.0	3	100	0	54	33	0	0	66	0.92
54077689--54077991	126	2.4	126	80	3	318	35	14	27	22	1.93

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228