genome.fa.s17.2.7.7.80.10.50.1000.40.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  40  of  173  ( 20651 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)
10832832--10832869	17	2.2	18	85	4	51	63	2	23	10	1.39
10832851--10832905	12	4.6	12	73	15	51	63	0	23	12	1.29
10838917--10839014	23	4.3	23	90	2	162	31	26	21	20	1.98
10838924--10839012	45	2.0	45	95	0	160	31	26	22	19	1.97
10846281--10846378	23	4.3	23	90	2	162	31	26	21	20	1.98
10846288--10846376	45	2.0	45	95	0	160	31	26	22	19	1.97
10848614--10848719	42	2.5	42	87	0	149	31	46	3	18	1.67
10851516--10851754	41	5.8	41	88	6	299	28	24	20	27	1.99
10859117--10859314	41	4.8	41	84	7	226	27	24	20	27	1.99
10863396--10863564	91	1.9	91	98	0	329	24	21	19	34	1.97
10875215--10875252	14	2.7	15	84	12	53	42	7	15	34	1.76
10875909--10875969	26	2.4	27	81	15	76	57	0	0	42	0.98
10881707--10881771	16	3.5	18	73	24	55	66	1	0	32	1.01
10883296--10883356	29	2.2	29	83	16	76	3	9	11	75	1.16
10885763--10885787	12	2.1	12	100	0	50	16	32	24	28	1.96
10886901--10886925	13	1.9	13	100	0	50	40	48	0	12	1.40
10887710--10887784	37	2.0	37	94	0	132	45	14	5	34	1.68
10887710--10887801	37	2.5	37	87	7	116	46	14	5	33	1.67
10891876--10891992	39	3.0	38	92	3	198	18	3	27	50	1.63
10895387--10895457	36	2.0	36	91	0	115	46	15	12	25	1.81
10900990--10901032	21	2.0	21	82	8	52	60	0	11	27	1.31
10916223--10916252	15	2.0	15	100	0	60	33	20	26	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10917088--10917172	31	2.8	30	73	21	77	60	2	0	37	1.10
10920416--10920459	14	2.9	16	83	10	56	45	0	9	45	1.35
10920702--10920739	17	2.2	17	100	0	76	36	10	13	39	1.79
10926446--10926472	13	2.1	13	100	0	54	48	0	22	29	1.51
10929215--10929258	22	2.0	22	95	0	79	27	15	0	56	1.40
10929215--10929285	27	2.9	25	81	10	76	25	15	0	59	1.37
10929473--10929506	17	1.9	17	94	5	59	47	0	0	52	1.00
10929473--10929580	18	5.9	18	66	17	62	41	2	2	52	1.30
10929546--10929584	18	2.1	19	95	4	71	46	0	0	53	1.00
10929358--10929679	74	4.4	74	92	3	514	38	7	3	51	1.45
10929358--10929679	147	2.2	143	90	4	504	38	7	3	51	1.45
10929620--10929658	18	2.1	18	90	4	60	43	2	0	53	1.14
10940804--10940888	27	3.1	27	81	3	100	35	11	24	28	1.91
10940954--10941016	26	2.4	27	84	10	85	22	12	28	36	1.91
10943175--10943207	17	1.9	18	88	11	52	42	9	0	48	1.35
10946981--10947009	14	2.0	15	93	6	51	55	0	3	41	1.17
10947688--10947735	25	2.0	24	84	12	62	45	2	4	47	1.33
10949113--10949191	22	3.7	21	89	5	122	34	27	0	37	1.57
10949163--10949221	30	2.0	30	93	0	100	30	35	0	33	1.58
10949141--10949243	52	2.0	51	86	5	145	33	33	0	33	1.58
10949193--10949234	22	1.9	22	90	0	66	33	33	0	33	1.58
10949276--10949331	29	2.0	28	85	3	76	41	1	1	55	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10949430--10949463	15	2.3	15	90	5	52	26	0	5	67	1.13
10951620--10951662	23	2.0	20	95	4	59	48	20	4	25	1.69
10951597--10952300	143	5.0	141	84	10	819	46	23	1	28	1.60
10952189--10952363	23	7.5	23	73	16	112	44	26	1	26	1.64
10952261--10952323	18	3.2	18	74	20	54	44	28	0	26	1.55
10951597--10952300	28	25.0	28	83	11	802	46	23	1	28	1.60
10952266--10952363	46	2.2	44	87	10	137	42	31	2	23	1.65
10952516--10952575	27	2.2	27	100	0	120	38	6	13	41	1.70
10955595--10955861	125	2.1	125	86	2	367	32	23	15	28	1.95
10956158--10956212	28	1.9	29	85	3	76	40	20	12	27	1.88
10956289--10956316	8	3.5	8	100	0	56	64	0	0	35	0.94
10956824--10958343	506	3.0	506	99	0	2988	38	15	9	35	1.81
10959770--10959825	25	2.3	25	76	11	64	17	37	3	41	1.67
10965788--10965976	95	2.0	95	92	1	317	32	15	21	30	1.94
10972262--10972355	25	3.5	27	89	5	129	40	9	0	50	1.35
10972348--10972382	18	1.9	18	88	0	52	80	8	0	11	0.92
10972395--10972469	27	2.8	27	83	4	89	29	24	26	20	1.99
10972404--10972480	27	2.9	27	84	5	95	27	23	28	20	1.99
10972548--10972617	19	3.7	19	80	3	88	37	11	0	51	1.38
10972553--10972623	37	1.9	37	97	0	133	39	12	0	47	1.42
10972933--10972973	19	2.1	19	86	4	55	53	0	9	36	1.34
10973186--10973243	19	3.1	19	80	5	82	48	0	12	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10973180--10973239	18	3.3	18	81	4	75	50	0	11	38	1.39
10973328--10973413	27	3.2	26	85	4	102	19	26	23	30	1.98
10973453--10973547	26	3.5	28	87	9	135	49	0	10	40	1.37
10973453--10973547	27	3.5	27	88	7	131	49	0	10	40	1.37
10979072--10979200	18	6.6	18	67	26	59	38	0	3	56	1.23
10979360--10979457	49	2.0	51	91	4	164	36	30	3	29	1.73
10979439--10979508	16	4.4	16	87	0	95	27	31	1	40	1.65
10979852--10979920	17	4.4	15	73	23	54	69	1	1	27	1.05
10979863--10979918	17	3.3	17	80	11	62	66	1	1	30	1.12
10979889--10979987	19	5.2	19	76	11	87	63	1	4	31	1.19
10979885--10979958	10	7.8	10	78	13	52	64	0	2	32	1.07
10979889--10980078	68	2.8	65	74	7	155	61	1	5	31	1.29
10979943--10980080	38	3.6	37	75	14	91	59	2	7	31	1.36
10980104--10980136	16	2.0	17	88	5	50	21	6	0	72	1.05
10980237--10980353	9	12.4	9	71	15	76	34	2	0	62	1.15
10986029--10986072	22	2.2	19	88	12	61	50	18	0	31	1.47
10986619--10986656	20	1.9	20	94	0	67	47	18	26	7	1.76
10986588--10986707	60	2.0	60	83	0	150	43	17	24	15	1.87
10987576--10987703	64	2.0	64	100	0	256	50	18	14	17	1.79
10995794--10995868	32	2.3	32	95	0	132	46	2	28	22	1.65
10995878--10995966	39	2.3	39	98	0	169	38	14	17	29	1.90
11000691--11000731	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11005082--11005106	13	1.9	13	100	0	50	68	0	16	16	1.22
11007942--11010663	511	5.4	506	84	6	3331	39	13	17	30	1.88
11010384--11010431	24	2.0	24	95	0	87	50	6	8	35	1.58
11009868--11011484	889	1.8	862	84	5	2179	40	12	15	31	1.85
11011824--11011888	27	2.4	27	92	0	103	29	24	30	15	1.96
11012175--11012344	19	8.4	19	74	19	132	29	1	13	55	1.45
11012157--11012339	101	1.8	100	91	5	305	28	1	14	55	1.46
11012290--11012395	27	4.0	27	80	13	123	29	0	13	56	1.43
11012277--11012341	22	3.0	22	91	4	107	27	1	13	56	1.46
11012276--11012395	56	2.0	63	77	16	125	30	0	13	55	1.44
11012306--11012394	27	3.1	29	83	8	128	31	1	12	55	1.44
11012388--11012506	60	2.0	60	88	3	177	32	0	13	52	1.46
11014285--11014318	6	5.7	6	92	0	59	32	32	32	2	1.73
11014287--11014324	12	3.2	12	88	0	58	31	26	34	7	1.85
11016060--11016113	21	2.5	23	74	20	62	3	25	1	68	1.16
11016130--11016204	27	2.8	27	83	4	98	22	34	22	20	1.96
11021062--11021099	3	12.3	3	94	5	67	31	2	0	65	1.06
11022168--11022210	23	1.9	23	90	4	70	55	6	11	25	1.60
11025613--11025673	32	1.9	32	83	12	81	50	0	4	44	1.23
11025632--11025673	20	2.1	20	86	0	57	47	0	7	45	1.30
11027717--11027750	15	2.2	16	89	5	52	38	0	14	47	1.45
11033644--11033699	21	2.7	21	81	13	53	71	5	12	10	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11036510--11036596	34	2.5	34	90	1	129	40	14	26	18	1.89
11037580--11037621	20	2.1	20	86	0	57	47	0	7	45	1.30
11039173--11039245	32	2.3	33	88	7	114	36	21	8	32	1.83
11053659--11053751	40	2.3	40	84	0	141	30	26	20	22	1.98
11053676--11053777	40	2.5	40	88	3	141	23	25	28	22	1.99
11054520--11054837	96	3.3	97	91	1	482	38	17	1	41	1.61
11066556--11066605	26	1.9	26	84	15	68	56	6	4	34	1.43
11068240--11068282	17	2.5	17	77	11	52	37	6	0	55	1.27
11070106--11070164	30	1.9	31	83	10	77	11	15	11	61	1.58
11070511--11070541	16	1.9	16	93	0	53	9	6	9	74	1.23

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