genome.fa.s25.2.7.7.80.10.50.1000.37.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  37  of  196  ( 23409 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)
10197335--10197371	19	1.9	19	100	0	74	35	5	0	59	1.20
10197382--10197426	18	2.5	18	85	0	63	15	13	4	66	1.39
10197471--10197534	5	11.6	5	81	18	74	28	17	0	54	1.43
10197471--10197534	28	2.3	28	100	0	128	28	17	0	54	1.43
10197624--10197672	22	2.3	22	80	13	59	24	14	0	61	1.33
10197608--10197650	15	2.9	15	92	0	68	20	13	0	65	1.27
10197697--10197739	20	2.0	21	82	8	52	32	4	0	62	1.15
10197934--10198018	5	15.6	5	89	7	98	17	21	1	60	1.43
10197934--10198018	22	3.9	21	87	7	116	17	21	1	60	1.43
10198013--10198058	20	2.3	21	85	11	69	26	10	0	63	1.27
10198034--10198124	26	3.3	26	70	14	76	26	13	0	60	1.33
10198033--10198139	56	1.9	56	88	3	162	24	16	0	58	1.38
10201100--10201313	113	1.9	111	79	3	241	35	18	16	29	1.93
10201196--10201449	139	1.8	138	85	6	354	33	19	16	31	1.94
10204272--10204296	6	4.2	6	100	0	50	20	0	0	80	0.72
10208346--10208542	98	2.0	98	93	0	340	37	23	10	28	1.88
10210805--10210909	44	2.4	43	79	4	111	30	19	21	28	1.97
10210878--10210996	45	2.7	46	78	12	122	25	26	20	28	1.99
10211075--10211196	45	2.7	46	82	9	153	25	26	20	27	1.99
10212389--10212447	31	1.9	31	100	0	118	28	8	23	38	1.84
10222497--10222693	98	2.0	98	93	2	333	37	24	10	27	1.88
10226586--10226612	14	1.9	14	100	0	54	37	11	14	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10227628--10227684	24	2.5	23	81	15	66	40	1	1	56	1.20
10227686--10227746	19	3.1	20	81	13	65	50	1	0	47	1.10
10232537--10232600	27	2.4	27	81	0	65	28	32	28	10	1.91
10232805--10232842	19	1.9	20	89	10	60	36	21	0	42	1.53
10233349--10233374	13	2.0	13	100	0	52	46	0	7	46	1.31
10233805--10234285	158	3.0	158	90	3	716	55	9	8	26	1.60
10234366--10234427	16	3.8	16	72	8	52	25	6	4	62	1.39
10234300--10234555	129	2.0	128	86	4	363	25	8	8	57	1.56
10251502--10251613	3	36.7	3	65	13	50	58	3	0	38	1.16
10251502--10251551	11	4.5	11	75	9	57	58	6	0	36	1.23
10251484--10251596	10	11.8	10	76	17	71	53	4	0	42	1.21
10251482--10251576	29	3.0	30	81	15	102	54	5	0	40	1.23
10251513--10251596	10	8.8	10	81	15	97	54	2	0	42	1.13
10251500--10251614	57	2.0	57	91	3	187	56	3	0	40	1.16
10251483--10251607	30	4.3	29	79	13	109	54	4	0	40	1.22
10255780--10255860	29	2.8	29	76	0	81	19	23	16	40	1.90
10257162--10257298	43	3.0	46	70	22	126	26	18	28	27	1.98
10261183--10261226	22	2.0	23	90	4	72	68	9	0	22	1.18
10267142--10267219	42	1.9	40	82	7	95	21	30	28	19	1.97
10268414--10268483	30	2.3	30	100	0	140	74	0	5	20	1.02
10268446--10268486	21	1.9	22	90	5	66	73	0	7	19	1.07
10268633--10268673	12	3.4	12	83	12	57	53	0	9	36	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10269802--10269826	5	5.0	5	100	0	50	60	0	0	40	0.97
10275650--10275706	26	2.2	26	78	3	62	64	0	10	24	1.24
10277534--10277577	17	2.6	16	82	7	52	63	0	2	34	1.07
10278652--10278707	23	2.5	23	85	5	71	30	5	3	60	1.36
10284362--10284422	19	3.3	19	82	11	65	72	0	6	21	1.07
10292363--10292415	22	2.5	22	84	3	63	60	5	5	28	1.42
10295404--10295507	30	3.4	30	69	13	86	39	1	21	37	1.64
10298639--10298688	17	2.7	20	78	18	70	10	0	44	46	1.37
10303267--10303316	17	2.7	20	78	18	70	10	0	44	46	1.37
10306593--10306674	5	16.2	5	88	7	121	37	17	23	21	1.93
10315128--10315173	18	2.6	17	86	10	65	15	2	30	52	1.55
10320771--10320808	16	2.4	16	86	0	58	2	21	2	73	1.07
10328479--10328546	28	2.5	27	76	11	66	25	27	14	32	1.95
10328534--10328634	27	3.7	27	83	1	121	33	22	10	32	1.89
10330324--10330467	41	3.5	41	91	0	216	31	23	18	26	1.98
10342657--10342705	3	16.0	3	83	12	64	32	2	0	65	1.04
10342656--10342701	15	3.0	16	90	9	78	32	4	0	63	1.14
10342733--10342815	22	3.7	23	77	6	89	32	7	6	54	1.52
10346061--10346085	13	1.9	13	100	0	50	12	24	24	40	1.88
10346020--10346126	54	2.0	54	88	0	160	16	23	20	39	1.92
10346074--10346162	41	2.1	41	83	10	108	19	21	20	39	1.93
10355865--10355892	6	4.7	6	100	0	56	85	0	14	0	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10356526--10356570	14	3.4	14	87	9	67	68	13	17	0	1.20
10357633--10357729	47	2.1	47	98	0	185	38	9	9	43	1.69
10361560--10362029	244	1.9	244	93	0	807	42	13	15	28	1.85
10380021--10380060	22	1.9	21	85	10	55	47	20	2	30	1.63
10380547--10380711	35	4.8	36	75	9	155	37	24	20	18	1.94
10380547--10380732	35	5.4	35	74	10	139	37	24	20	18	1.94
10380544--10380767	69	3.2	69	84	1	288	34	24	21	19	1.97
10380805--10380851	20	2.4	21	86	10	64	42	19	0	38	1.51
10383410--10383451	17	2.3	18	80	12	50	33	0	9	57	1.31
10383863--10383903	18	2.3	18	80	12	50	24	0	2	73	0.96
10392138--10392168	6	5.2	6	96	0	53	16	54	12	16	1.71
10394945--10394982	19	2.0	19	94	0	67	57	10	7	23	1.58
10395209--10395250	15	2.7	16	82	10	52	59	9	23	7	1.53
10399492--10399533	15	2.7	16	82	10	52	59	9	23	7	1.53
10402018--10402059	21	2.0	21	85	0	57	30	7	0	61	1.22
10409822--10409891	34	2.1	35	86	5	99	64	1	2	31	1.17
10413724--10413893	55	3.0	56	82	8	168	51	4	1	42	1.28
10413865--10413901	19	1.9	19	100	0	74	64	0	0	35	0.94
10422878--10422903	2	13.0	2	100	0	52	0	0	50	50	1.00
10433289--10433337	25	2.0	25	91	0	80	32	18	20	28	1.96
10449567--10450111	47	11.4	49	92	4	884	32	7	31	28	1.85
10449806--10450060	16	16.1	15	62	22	69	32	7	31	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10449567--10450111	145	3.8	145	93	2	917	32	7	31	28	1.85
10449927--10450001	22	3.3	22	64	14	62	30	10	32	26	1.90
10451959--10452230	40	6.8	40	94	1	458	20	22	31	25	1.98
10456277--10456821	47	11.4	49	92	4	893	32	7	31	28	1.85
10456277--10456821	145	3.8	145	94	2	926	32	7	31	28	1.85
10456637--10456711	22	3.3	22	64	14	62	30	10	32	26	1.90
10458672--10458942	40	6.8	40	93	2	449	21	22	31	25	1.98
10458672--10458942	119	2.3	120	92	2	449	21	22	31	25	1.98
10462990--10463534	47	11.4	49	92	4	902	32	7	31	28	1.85
10462990--10463534	145	3.8	145	94	2	935	32	7	31	28	1.85
10463350--10463424	22	3.3	22	64	14	62	30	10	32	26	1.90
10472823--10472863	18	2.3	18	87	8	57	58	2	0	39	1.11
10473596--10473639	20	2.2	20	88	8	63	65	0	0	34	0.93
10474968--10475024	30	1.9	30	89	7	89	36	1	1	59	1.18
10475032--10475082	10	5.4	9	76	15	50	33	0	0	66	0.92
10475038--10475084	20	2.3	20	85	10	60	31	0	0	68	0.90
10475030--10475091	20	3.2	19	72	18	56	38	0	0	61	0.96
10485750--10485811	21	3.0	21	86	4	83	16	25	16	41	1.88
10493409--10493468	21	3.0	21	80	4	70	16	23	18	41	1.90
10499130--10499172	11	3.8	11	80	17	52	65	2	2	30	1.18
10500973--10501045	26	2.8	26	82	0	74	38	8	20	32	1.82
10501179--10501324	73	2.0	73	100	0	292	31	20	26	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10502877--10502984	30	3.6	30	78	9	112	31	2	19	46	1.64
10515551--10515594	21	2.0	22	82	4	54	38	15	6	38	1.75
10515545--10515596	21	2.5	20	75	9	50	40	17	7	34	1.78
10527115--10527153	5	7.8	5	100	0	78	38	0	20	41	1.53
10538615--10538747	68	2.0	67	93	1	230	41	14	13	30	1.84
10540721--10540764	23	1.9	23	95	0	79	36	18	6	38	1.77
10541642--10541691	25	2.0	25	100	0	100	24	28	8	40	1.83
10541599--10541737	71	2.0	68	92	4	233	26	25	13	34	1.93
10541667--10541831	46	3.6	46	96	0	294	29	22	13	34	1.93
10548090--10548408	50	6.4	50	82	3	381	26	21	30	21	1.99

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