genome.fa.s17.2.7.7.80.10.50.1000.176.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  176  of  185  ( 22116 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)
53520011--53520068	28	2.1	28	93	3	100	72	0	1	25	0.94
53519987--53520072	39	2.3	35	86	9	109	70	1	2	25	1.06
53524704--53524775	17	4.0	16	69	23	54	45	18	8	27	1.77
53530566--53530637	17	4.0	16	69	23	54	45	19	8	26	1.78
53531327--53531355	14	2.1	14	100	0	58	34	6	6	51	1.55
53545351--53545674	166	2.0	166	91	1	524	41	18	15	24	1.89
53547050--53547119	26	2.8	25	86	4	79	25	0	10	64	1.25
53547074--53547146	26	3.1	23	84	13	78	17	1	8	72	1.16
53547059--53547119	26	2.4	26	91	2	97	27	0	8	63	1.22
53554464--53554506	3	14.3	3	90	0	68	62	2	2	32	1.20
53556890--53557143	46	5.6	46	93	1	406	29	20	14	34	1.93
53563013--53563333	166	1.9	166	91	0	525	42	17	16	23	1.89
53567394--53567460	21	3.2	22	75	14	61	43	1	2	52	1.25
53573227--53573258	16	2.0	16	93	0	55	31	0	3	65	1.08
53581265--53581297	5	6.6	5	100	0	66	18	0	0	81	0.68
53587583--53587767	101	1.8	102	84	5	259	27	17	23	31	1.97
53587642--53587767	51	2.5	51	80	2	146	27	17	22	32	1.96
53587771--53587865	45	2.1	45	90	0	154	27	18	23	30	1.98
53587940--53588012	37	1.9	38	86	8	105	43	2	20	32	1.66
53593531--53593597	34	1.9	35	87	3	100	44	14	8	31	1.76
53595447--53595506	31	1.9	32	90	10	97	26	8	18	46	1.77
53597418--53597457	11	4.0	10	87	12	64	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53597614--53597682	30	2.3	30	84	0	93	42	1	0	56	1.08
53599087--53599112	12	2.2	12	100	0	52	26	26	7	38	1.83
53599847--53599891	22	2.0	22	86	0	63	64	8	6	20	1.44
53612609--53612668	20	2.8	21	73	19	52	30	3	8	58	1.44
53612607--53612668	21	2.9	21	75	20	65	29	3	8	59	1.42
53612607--53612672	23	3.0	22	73	22	66	28	3	7	60	1.39
53612720--53612761	14	2.9	14	85	7	57	35	7	21	35	1.81
53619269--53619301	3	11.0	3	100	0	66	33	0	0	66	0.92
53619917--53619952	18	2.0	19	89	10	58	61	11	0	27	1.30
53620037--53620095	30	2.0	30	89	0	91	55	13	5	25	1.58
53620122--53620160	14	2.8	14	84	0	51	64	10	5	20	1.44
53620856--53620884	9	3.3	9	95	4	51	68	10	0	20	1.18
53623943--53623977	16	2.1	17	89	5	54	42	5	0	51	1.25
53633653--53633683	10	3.1	10	100	0	62	0	0	9	90	0.46
53636448--53636521	29	2.5	31	86	4	98	18	12	16	52	1.74
53637992--53638021	13	2.3	13	94	0	51	70	3	0	26	1.03
53639774--53639978	44	4.6	44	68	14	127	30	23	16	28	1.96
53639706--53639978	133	2.1	132	84	6	347	30	22	18	28	1.97
53639909--53639994	44	2.0	44	90	0	136	27	25	17	29	1.97
53639997--53640907	88	10.4	88	89	0	1297	25	24	22	27	2.00
53641759--53641783	13	1.9	13	100	0	50	72	0	12	16	1.13
53643352--53643387	13	2.8	13	86	0	54	0	22	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53643397--53643444	12	3.8	12	89	8	69	4	0	14	81	0.84
53652751--53652794	17	2.4	17	88	11	61	77	0	2	20	0.88
53652750--53652794	6	7.3	6	90	7	56	77	0	2	20	0.87
53659073--53659149	30	2.6	30	91	0	118	11	18	37	32	1.87
53659524--53659589	26	2.8	22	75	16	69	25	12	27	34	1.91
53660208--53660268	31	2.0	31	90	6	97	44	11	9	34	1.74
53662716--53662913	98	2.0	98	100	0	396	29	21	13	36	1.91
53669840--53669881	14	3.0	14	89	6	59	76	0	2	21	0.90
53669840--53669872	7	4.7	7	92	0	57	75	0	0	24	0.80
53670143--53670197	27	2.0	27	86	6	76	30	0	3	65	1.10
53670160--53670224	14	4.9	13	71	16	53	33	0	1	64	1.03
53671970--53672034	30	2.2	31	86	10	91	46	1	1	50	1.20
53671978--53672027	17	3.2	17	70	21	54	42	2	0	56	1.11
53672004--53672053	26	1.9	25	84	15	66	40	2	2	56	1.22
53675103--53675135	17	1.9	17	93	0	57	27	0	12	60	1.32
53676346--53676404	23	2.6	22	79	10	66	40	18	6	33	1.77
53679816--53679856	2	20.5	2	89	0	64	48	46	2	2	1.28
53679812--53679858	10	4.5	10	84	10	58	48	42	2	6	1.40
53682707--53682760	16	3.5	15	78	12	56	66	0	1	31	1.02
53686579--53686642	20	3.2	19	79	16	67	65	0	1	32	1.02
53686566--53686642	40	1.9	40	86	5	111	59	0	1	38	1.06
53686562--53686689	51	2.6	49	74	16	138	56	0	1	42	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53703622--53703670	22	2.3	21	82	10	55	30	2	4	63	1.24
53710208--53710275	35	1.9	35	91	5	111	42	2	14	39	1.61
53715031--53715070	5	7.8	5	83	5	53	12	7	0	80	0.91
53715031--53715070	10	3.9	10	96	3	71	12	7	0	80	0.91
53715672--53715727	3	18.3	3	78	10	60	35	5	0	58	1.21
53715672--53715726	24	2.4	22	88	8	83	34	5	0	60	1.20
53715674--53715727	27	2.0	27	85	0	72	35	5	0	59	1.21
53715766--53715827	26	2.5	24	82	10	70	33	6	8	51	1.57
53716029--53716071	22	2.0	21	86	8	61	32	4	2	60	1.30
53719839--53719906	35	1.9	35	91	5	111	42	2	14	39	1.61
53721185--53721231	15	3.1	15	74	17	51	29	4	0	65	1.11
53730003--53730038	13	2.7	14	87	12	58	22	0	0	77	0.76
53730003--53730035	12	2.8	12	90	9	50	21	0	0	78	0.75
53737350--53737379	11	2.7	11	100	0	60	33	0	40	26	1.57
53740232--53740264	15	2.1	16	94	5	59	33	6	0	60	1.21
53741362--53741412	26	2.0	25	84	3	66	35	21	15	27	1.94
53746848--53746895	24	2.0	24	87	0	69	22	18	8	50	1.74
53749027--53749058	14	2.3	14	94	0	55	84	0	15	0	0.63
53749337--53749396	30	2.0	30	90	0	93	38	13	8	40	1.75
53763910--53763955	3	15.3	3	100	0	92	67	0	0	32	0.91
53766107--53766385	50	5.8	48	78	12	277	27	19	31	21	1.97
53766112--53766389	97	2.8	97	89	2	414	27	20	31	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53767611--53767657	17	2.8	16	81	9	58	78	0	21	0	0.75
53767610--53767667	23	2.8	20	80	12	71	79	0	20	0	0.74
53767613--53767667	22	2.6	19	81	18	65	80	0	20	0	0.72
53767620--53767667	10	4.7	10	80	14	62	81	0	18	0	0.70
53767924--53767967	12	3.4	13	87	9	63	81	0	18	0	0.68
53767924--53767976	11	4.4	12	83	11	65	81	0	18	0	0.70
53767935--53767976	21	2.0	21	86	9	59	83	0	16	0	0.65
53768465--53768506	20	2.2	20	86	4	59	45	11	9	33	1.73
53768465--53768524	19	3.2	19	75	13	61	43	11	6	38	1.68
53768442--53768947	53	9.5	53	70	14	192	32	11	9	47	1.71
53768442--53768947	17	28.6	17	71	11	297	32	11	9	47	1.71
53768442--53768947	35	14.3	35	70	13	198	32	11	9	47	1.71
53768918--53768984	36	1.9	34	84	6	89	40	5	7	46	1.57
53771635--53771778	69	2.1	70	81	6	168	57	2	2	38	1.22
53771728--53771756	14	2.1	14	93	6	51	62	0	0	37	0.96
53773219--53773271	17	3.4	16	75	21	58	60	1	13	24	1.43
53776360--53776387	3	9.3	3	100	0	56	67	0	0	32	0.91
53777795--53777819	3	8.3	3	100	0	50	0	32	0	68	0.90
53777920--53777955	19	1.9	18	88	5	54	61	0	2	36	1.11
53778500--53778528	14	2.1	14	93	6	51	62	0	0	37	0.96
53778964--53778991	6	4.7	6	100	0	56	14	0	0	85	0.59
53779132--53779169	3	12.7	3	100	0	76	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53781055--53781209	5	30.8	5	90	7	235	41	0	0	56	1.08
53782872--53782950	31	2.5	32	85	10	108	32	5	1	60	1.26
53785871--53785917	17	2.8	17	83	3	60	42	6	2	48	1.40
53792765--53792821	23	2.5	23	91	0	96	29	24	21	24	1.99
53792785--53792889	37	2.8	37	98	0	201	30	26	19	23	1.98
53794353--53794425	26	2.9	25	82	8	76	20	24	19	35	1.95
53794387--53794552	24	6.8	24	69	10	86	16	25	19	37	1.93
53794501--53794548	25	2.0	24	91	4	78	14	25	18	41	1.88
53796008--53796047	9	4.4	9	93	0	71	25	12	22	40	1.89
53796100--53796136	9	4.1	9	92	0	65	48	10	8	32	1.67

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