genome.fa.s20.2.7.7.80.10.50.1000.105.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  105  of  189  ( 22580 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)
29310248--29310575	165	2.0	165	90	2	516	30	12	15	42	1.83
29310752--29311626	164	5.3	163	87	2	1164	28	14	16	40	1.87
29310752--29311626	324	2.7	324	86	1	1194	28	14	16	40	1.87
29312053--29312929	165	5.3	163	75	8	614	28	13	18	40	1.88
29316538--29316590	23	2.3	23	80	0	61	43	18	11	26	1.84
29319017--29319058	22	2.0	21	85	4	57	45	23	0	30	1.53
29319015--29319084	21	3.3	21	78	9	63	42	28	1	27	1.64
29319295--29319350	28	2.0	28	100	0	112	50	0	0	50	1.00
29319296--29319359	28	2.4	27	92	5	103	50	0	1	48	1.10
29319621--29319646	6	4.3	6	100	0	52	50	0	0	50	1.00
29324588--29324627	19	2.1	19	86	9	55	35	0	0	65	0.93
29331914--29332011	28	3.5	28	88	0	142	30	12	26	30	1.92
29332743--29333025	23	12.0	24	71	18	161	24	13	18	43	1.85
29332768--29333054	70	4.1	70	89	2	405	24	12	19	43	1.86
29332741--29333007	47	5.7	47	71	17	157	24	13	18	43	1.87
29332797--29333081	141	2.0	141	84	1	365	25	11	19	43	1.85
29339440--29339537	28	3.5	28	88	0	142	30	12	26	30	1.92
29340293--29340569	70	3.9	70	89	2	412	24	12	18	44	1.85
29340288--29340559	23	11.7	23	72	12	191	25	13	17	44	1.85
29340317--29340606	141	2.1	141	83	1	359	25	12	18	43	1.85
29341195--29341358	43	3.9	43	81	6	192	28	15	26	29	1.96
29342016--29342083	34	2.0	34	100	0	136	44	5	17	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29347821--29347848	6	4.7	6	100	0	56	17	0	28	53	1.44
29347865--29347907	15	2.9	15	78	0	59	32	6	0	60	1.23
29349374--29349445	21	3.5	19	80	10	72	33	29	11	26	1.91
29349371--29349465	34	2.8	34	76	6	95	33	27	10	28	1.90
29349478--29349548	21	3.5	21	75	11	76	23	7	29	39	1.81
29349490--29349545	28	2.0	27	89	3	85	25	5	32	37	1.78
29349633--29349672	21	1.9	21	84	0	53	55	5	5	35	1.44
29356248--29356313	29	2.2	30	89	5	98	22	13	13	50	1.77
29356782--29356840	25	2.3	26	82	8	68	32	1	13	52	1.50
29356952--29357108	83	1.9	82	92	3	262	23	1	16	58	1.45
29359577--29359848	49	5.6	49	84	3	336	42	11	11	33	1.78
29359577--29359845	146	1.8	145	84	4	371	43	11	11	33	1.78
29362709--29362744	17	2.1	17	89	0	54	11	19	0	69	1.18
29362809--29362882	27	2.7	27	80	0	85	21	24	31	22	1.99
29366246--29366305	30	2.0	30	100	0	120	36	23	16	23	1.94
29372600--29372636	9	4.1	9	89	0	56	32	10	8	48	1.67
29372689--29372719	9	3.4	9	90	0	53	38	22	12	25	1.90
29380721--29380763	13	3.4	13	80	3	52	25	13	23	37	1.92
29381152--29381209	29	2.0	29	89	0	89	46	8	3	41	1.51
29391489--29391551	30	2.1	31	90	3	101	33	11	0	55	1.35
29396895--29396935	21	2.0	21	90	0	64	68	0	26	4	1.10
29399790--29399902	33	3.4	33	78	7	113	29	2	43	24	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29400039--29400141	51	2.0	51	88	0	152	29	6	27	36	1.82
29405414--29405511	37	2.6	40	75	20	97	40	4	5	50	1.44
29405448--29405499	25	2.0	26	82	10	63	38	5	5	50	1.51
29406828--29406884	28	2.0	28	100	0	114	35	7	10	47	1.65
29422094--29422124	15	2.1	15	94	5	55	35	12	9	41	1.76
29425093--29425167	25	2.9	26	82	7	91	42	9	17	30	1.80
29438115--29438154	19	2.2	19	86	8	57	32	22	2	42	1.67
29447413--29447473	23	2.6	22	75	12	59	40	6	1	50	1.38
29449142--29449196	20	2.8	20	82	0	65	49	10	7	32	1.65
29457874--29458239	47	7.7	47	95	1	635	32	8	29	29	1.86
29457921--29457999	25	3.3	25	61	10	65	32	5	29	32	1.79
29457874--29458239	143	2.6	141	93	2	635	32	8	29	29	1.86
29457874--29458239	190	1.9	188	94	2	653	32	8	29	29	1.86
29458358--29458436	37	2.1	37	88	0	113	25	18	30	25	1.98
29459652--29460244	40	14.8	40	92	2	940	23	20	28	26	1.99
29463946--29464311	47	7.7	47	94	1	599	32	8	30	28	1.87
29463967--29464311	190	1.8	190	94	0	609	32	8	30	28	1.87
29464430--29464508	37	2.1	37	90	0	122	24	18	31	25	1.98
29466711--29466743	17	2.0	16	94	5	57	63	0	0	36	0.95
29471035--29471076	21	2.0	21	95	0	75	59	0	9	30	1.29
29473247--29473301	20	2.7	20	88	2	74	32	23	30	12	1.92
29478810--29478862	26	2.0	26	85	7	72	47	13	9	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29484451--29484495	20	2.2	20	84	0	54	28	22	24	24	1.99
29485200--29485226	6	4.5	6	100	0	54	85	14	0	0	0.61
29487611--29487635	9	2.8	9	100	0	50	76	0	0	24	0.80
29487594--29487631	16	2.2	18	86	9	53	71	2	0	26	1.00
29487765--29487802	13	2.7	15	80	16	53	42	2	7	47	1.46
29487765--29487808	15	3.1	15	80	12	56	45	2	6	45	1.42
29490358--29490415	30	1.9	30	85	0	80	22	39	27	10	1.86
29495038--29495112	26	2.8	26	84	9	98	20	5	0	74	1.00
29495043--29495112	9	6.9	11	73	17	55	21	4	0	74	0.99
29496872--29496912	21	2.0	21	90	0	64	14	2	4	78	1.03
29496857--29496929	27	2.7	27	83	8	78	13	4	5	76	1.11
29496877--29496930	15	3.9	14	77	18	58	14	1	5	77	1.03
29496865--29496930	6	10.0	6	74	18	51	13	3	6	77	1.08
29508993--29509068	26	2.9	26	82	0	80	34	26	26	13	1.93
29509241--29509392	27	5.7	27	82	4	173	19	16	18	45	1.86
29509242--29509392	53	2.8	54	85	4	198	19	15	18	45	1.85
29509421--29509485	27	2.4	27	92	0	103	23	21	18	36	1.95
29516135--29516173	20	2.0	20	89	0	60	30	12	12	43	1.81
29516659--29516717	30	1.9	31	86	3	84	30	23	25	20	1.98
29517072--29517247	27	6.5	27	82	7	171	22	15	17	44	1.86
29518157--29518194	18	2.1	19	85	5	51	73	5	21	0	1.02
29529711--29529834	50	2.5	50	74	7	126	23	25	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29530003--29530120	46	2.6	46	93	0	191	29	18	22	29	1.97
29529947--29530244	46	6.8	43	74	8	181	28	21	20	29	1.98
29537990--29538122	69	1.9	70	90	1	214	32	14	16	36	1.89
29539595--29539905	47	6.6	47	93	1	496	33	8	29	28	1.86
29551174--29551203	14	2.1	14	93	0	51	40	0	16	43	1.48
29552566--29553209	44	14.9	43	70	13	315	25	20	22	31	1.98
29552566--29553212	130	5.0	130	92	0	1062	25	20	21	31	1.98
29553220--29553774	100	5.6	99	87	1	655	27	22	19	30	1.98
29553223--29553766	50	10.9	50	70	2	313	27	22	20	30	1.98
29559990--29560020	16	1.9	16	93	0	53	48	3	9	38	1.52
29560120--29560158	18	2.0	19	85	14	53	69	5	7	17	1.32
29566399--29566492	39	2.4	39	87	1	127	52	7	4	36	1.49
29569656--29569686	6	5.0	6	96	4	53	80	0	19	0	0.71
29570918--29570966	20	2.6	18	83	9	53	30	0	4	65	1.11
29570870--29570989	9	12.8	9	72	13	73	30	0	3	65	1.15
29570969--29571029	22	2.8	22	82	5	70	34	3	6	55	1.42
29574273--29574345	30	2.4	29	80	10	76	36	12	2	47	1.55
29574766--29574902	71	1.9	70	91	4	222	31	20	16	31	1.95
29575220--29575264	22	2.0	22	87	8	65	44	11	6	37	1.66
29581742--29581799	22	2.6	22	77	2	62	24	20	34	20	1.97
29581871--29582159	26	11.2	26	70	14	152	34	16	23	25	1.95
29581864--29582160	52	5.8	52	74	4	260	34	15	23	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29581872--29582181	154	2.0	155	81	5	369	34	15	23	25	1.95
29582086--29582182	26	3.7	25	77	8	77	34	13	25	26	1.93
29585288--29585347	31	2.0	30	86	3	84	51	5	33	10	1.57
29588145--29588184	19	2.1	19	86	9	55	0	25	0	75	0.81
29588153--29588190	20	1.9	20	84	10	51	0	31	0	68	0.90
29588589--29588685	30	3.2	30	92	0	149	26	26	29	16	1.97
29598267--29598291	13	1.9	13	100	0	50	32	24	8	36	1.84
29600548--29600581	3	11.3	3	93	0	59	64	0	2	32	1.08
29601502--29601538	17	2.2	16	90	4	56	0	21	5	72	1.04
29602378--29603133	46	16.5	46	88	1	1041	30	25	16	27	1.96

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