genome.fa.s25.2.7.7.80.10.50.1000.138.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  138  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)
40944435--40944491	3	18.7	3	96	3	105	66	1	0	31	1.02
40945427--40945591	85	1.9	85	88	2	251	44	20	16	18	1.86
40953130--40953167	20	1.9	20	94	0	67	50	0	2	47	1.15
40953268--40953376	39	2.8	39	90	2	157	40	3	3	52	1.37
40953268--40953391	39	3.2	38	86	2	149	39	3	4	52	1.39
40966975--40967041	31	2.2	31	83	5	82	38	8	16	35	1.80
40969162--40969211	22	2.5	19	81	12	57	8	6	8	78	1.11
40976597--40976623	11	2.5	11	100	0	54	0	0	7	92	0.38
40980772--40980844	37	2.0	37	86	0	101	23	16	9	50	1.74
40982939--40982963	11	2.3	11	100	0	50	68	0	0	32	0.90
40982991--40983036	21	2.1	22	84	11	60	71	15	6	6	1.27
40983545--40983597	27	1.9	27	84	3	70	24	11	1	62	1.39
40983672--40983704	11	2.9	11	95	4	57	45	0	33	21	1.52
40986280--40986413	68	2.0	68	84	0	178	44	20	6	29	1.77
40986982--40987048	22	2.8	24	75	11	66	50	1	5	41	1.36
41001587--41001616	13	2.3	13	100	0	60	40	43	0	16	1.48
41001758--41001816	9	6.4	9	80	3	64	22	8	25	44	1.81
41002709--41002737	2	14.5	2	100	0	58	48	0	0	51	1.00
41003080--41003104	13	1.9	13	100	0	50	40	8	8	44	1.63
41003542--41003572	13	2.4	13	100	0	62	29	0	12	58	1.35
41011264--41011296	3	11.0	3	100	0	66	33	0	0	66	0.92
41016875--41016918	22	2.0	21	83	12	54	50	11	15	22	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41017912--41017959	13	3.7	13	77	0	51	10	0	39	50	1.37
41018501--41018567	29	2.3	29	75	10	66	49	5	2	41	1.42
41026718--41026787	26	2.7	26	74	22	67	60	2	2	34	1.26
41028407--41028446	20	2.0	20	90	0	62	27	10	12	50	1.72
41028392--41028458	34	1.9	35	90	3	109	31	8	13	46	1.74
41028386--41028462	14	5.0	15	71	20	52	33	9	14	42	1.77
41032634--41032719	3	29.7	3	72	19	67	62	0	5	31	1.18
41032634--41032691	20	2.9	21	82	12	68	65	0	5	29	1.14
41033722--41033764	20	2.2	20	83	8	52	6	4	46	41	1.51
41034055--41034296	44	5.7	42	75	8	211	26	21	23	29	1.99
41034060--41034310	129	1.9	129	94	0	439	25	20	23	29	1.99
41034055--41034327	44	6.3	44	72	11	163	26	20	22	30	1.99
41034307--41035622	100	13.1	100	88	1	1704	23	21	23	31	1.98
41034391--41035622	50	24.6	49	66	7	416	23	21	23	31	1.98
41040502--41040529	14	2.0	14	100	0	56	57	0	0	42	0.99
41040660--41040739	3	27.7	3	73	20	64	62	0	5	32	1.17
41040662--41040711	17	2.9	17	88	8	66	66	0	4	30	1.10
41041367--41041407	21	2.0	21	100	0	82	41	19	34	4	1.73
41041610--41042017	204	2.0	204	97	0	762	19	17	30	32	1.95
41046164--41046196	17	1.9	17	100	0	66	42	9	0	48	1.35
41052235--41052296	32	2.0	32	90	3	99	59	0	1	38	1.07
41052235--41052367	11	12.9	11	71	18	92	59	0	2	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41052235--41052377	41	3.5	41	95	3	254	60	0	2	37	1.09
41052283--41052376	40	2.7	32	74	23	84	63	0	2	34	1.06
41053617--41053720	38	2.8	37	77	16	108	60	1	0	37	1.08
41053649--41053706	17	3.2	17	77	18	64	60	1	0	37	1.07
41053637--41053709	20	3.8	20	68	17	55	61	2	0	35	1.10
41056593--41056631	19	1.9	19	90	10	60	66	2	7	23	1.30
41060196--41060254	30	2.0	30	89	0	91	27	3	10	59	1.46
41064710--41064814	42	2.5	42	83	6	124	40	20	26	11	1.87
41064614--41064955	165	2.1	165	97	0	639	41	19	26	12	1.87
41075141--41075207	25	2.7	25	83	4	73	28	16	20	34	1.95
41078200--41078276	40	1.9	39	82	15	95	38	20	7	32	1.81
41078464--41078603	41	3.4	41	89	5	196	20	29	18	32	1.96
41086381--41086502	41	3.0	41	87	1	163	21	28	21	28	1.98
41086393--41086532	41	3.4	40	80	11	142	22	27	20	29	1.98
41086393--41086543	82	1.8	81	82	10	191	21	27	21	28	1.99
41099758--41099822	8	8.0	8	75	10	51	84	4	3	7	0.85
41099757--41099820	24	2.7	22	79	13	74	85	3	3	7	0.79
41101202--41101407	45	4.6	46	86	7	273	26	16	25	31	1.97
41101461--41102018	50	11.2	50	65	6	263	31	21	20	25	1.98
41101461--41102039	100	5.8	99	81	4	574	30	21	20	26	1.98
41101461--41102041	199	2.9	197	82	3	675	31	21	20	26	1.98
41102060--41102361	44	7.0	44	70	9	194	30	21	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41102055--41102361	129	2.4	129	86	1	427	30	22	19	27	1.98
41106761--41106788	3	9.3	3	100	0	56	0	32	0	67	0.91
41107477--41107562	28	2.9	30	82	8	95	26	23	27	22	1.99
41107669--41107771	26	4.0	26	81	0	125	37	24	21	16	1.93
41108382--41108432	14	3.6	14	74	7	50	68	0	13	17	1.21
41109153--41109196	3	15.0	3	80	4	54	34	0	4	61	1.16
41109551--41109646	39	2.5	39	80	6	108	20	23	28	27	1.99
41110687--41110857	27	6.3	27	84	9	206	23	16	19	39	1.92
41110661--41110846	54	3.5	53	82	4	194	23	18	18	39	1.92
41110661--41110857	81	2.4	82	84	8	244	22	17	19	40	1.92
41110687--41110857	54	3.2	54	86	6	231	23	16	19	39	1.92
41110855--41110884	7	4.3	7	95	0	51	16	0	36	46	1.47
41110990--41111628	27	23.7	27	81	4	614	22	16	19	41	1.90
41111000--41111628	81	7.8	81	81	6	677	22	16	18	41	1.89
41116219--41116264	22	2.1	22	87	0	65	45	10	4	39	1.59
41126140--41126177	19	2.1	19	90	5	60	68	2	0	28	1.03
41126616--41126794	98	1.8	98	90	0	286	37	9	15	37	1.80
41128107--41128175	29	2.4	30	83	9	90	33	21	10	34	1.87
41129438--41129595	43	3.7	42	86	2	217	27	29	19	23	1.98
41129438--41129615	43	4.2	43	83	3	144	28	29	18	23	1.98
41129620--41129662	13	2.9	14	83	16	52	55	4	0	39	1.20
41129889--41129921	12	2.6	13	85	4	50	72	3	0	24	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41133113--41133174	28	2.2	29	94	2	108	24	8	20	46	1.77
41133142--41134308	149	7.9	148	92	2	1876	29	16	16	36	1.91
41133142--41134308	594	2.0	595	92	1	1948	29	16	16	36	1.91
41133142--41134316	148	7.9	145	91	3	1694	30	16	16	36	1.91
41134732--41134817	15	5.8	15	73	19	56	36	39	0	24	1.56
41135040--41135093	15	3.6	15	80	7	56	29	44	3	22	1.70
41135109--41135157	14	3.4	14	83	5	62	34	38	0	26	1.57
41135311--41135460	73	2.1	73	89	0	228	25	27	20	26	1.99
41135364--41135574	114	1.9	114	88	2	325	26	27	21	24	1.99
41135478--41135651	73	2.4	72	89	3	258	25	27	21	25	1.99
41135310--41135765	187	2.4	187	92	1	745	26	26	21	25	1.99
41135551--41135877	114	2.9	113	87	4	478	27	26	22	24	2.00
41137306--41137359	27	2.0	27	82	7	65	20	0	29	50	1.49
41137339--41137402	21	3.0	21	84	8	76	17	0	37	45	1.48
41139508--41139533	10	2.6	10	100	0	52	26	11	19	42	1.85
41140878--41141046	44	3.9	42	82	5	133	31	20	24	24	1.98
41140905--41141046	44	3.2	44	85	1	196	30	19	25	24	1.98
41146232--41146285	26	2.1	26	83	10	67	12	22	24	40	1.89
41147868--41147921	26	2.1	26	83	10	67	14	22	22	40	1.90
41147868--41147931	25	2.6	24	79	15	69	14	23	18	43	1.86
41163457--41163496	19	2.2	19	86	4	55	22	0	0	77	0.77
41167051--41167103	19	2.8	20	83	13	67	30	22	5	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41171431--41171707	43	6.5	43	84	3	308	27	30	16	25	1.97
41171426--41171666	129	1.9	129	86	3	351	26	30	17	25	1.97
41171420--41171707	129	2.2	129	82	5	343	28	30	16	25	1.96
41177145--41177173	15	2.0	15	93	6	51	34	34	0	31	1.58
41177575--41177727	41	3.8	40	89	3	209	28	30	23	18	1.98
41177575--41177728	82	1.9	81	89	4	238	27	30	23	18	1.97
41182611--41182640	11	2.7	11	94	0	51	80	13	0	6	0.91
41187633--41187675	20	2.2	20	86	0	59	65	6	0	27	1.18
41189745--41189800	29	1.9	29	89	7	87	41	0	8	50	1.34
41193294--41193325	15	2.1	15	100	0	64	62	0	15	21	1.32

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