genome.fa.s20.2.7.7.80.10.50.1000.110.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  110  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)
30776558--30776739	38	4.8	38	81	0	202	16	19	29	35	1.93
30778830--30779037	106	2.0	106	93	0	353	32	9	20	37	1.84
30789152--30790187	345	3.0	345	99	0	2054	30	11	22	35	1.90
30790537--30790598	23	2.8	22	78	7	72	20	1	32	45	1.61
30814757--30814817	18	3.3	18	65	17	52	26	21	18	34	1.96
30819055--30819103	20	2.5	20	81	15	66	57	6	24	12	1.58
30825059--30825113	28	2.0	28	92	0	92	38	23	21	16	1.93
30825273--30825337	27	2.4	28	75	7	73	35	21	20	23	1.96
30825561--30826004	55	8.1	55	79	9	396	30	7	19	42	1.79
30825621--30826045	82	5.2	82	82	7	377	30	8	20	41	1.81
30825561--30826045	27	17.7	27	75	13	325	30	8	20	41	1.81
30830018--30830063	15	3.0	16	82	17	62	15	47	0	36	1.45
30830028--30830069	19	2.2	19	86	0	57	14	47	0	38	1.44
30838196--30838224	11	2.6	11	100	0	58	27	0	0	72	0.85
30838932--30838966	15	2.4	15	90	4	54	48	0	8	42	1.33
30838991--30839038	10	4.9	10	76	2	53	25	6	2	66	1.26
30844474--30844508	15	2.4	15	90	4	54	48	0	8	42	1.33
30844533--30844580	10	4.9	10	82	2	62	22	8	2	66	1.29
30853498--30853634	50	2.7	50	95	0	238	20	34	21	24	1.97
30854318--30854357	17	2.3	18	86	4	55	35	25	0	40	1.56
30855186--30855215	15	2.0	15	93	0	51	33	16	0	50	1.46
30855960--30856201	127	1.9	127	100	0	484	27	18	8	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30859633--30859879	50	4.8	50	79	6	212	29	21	26	23	1.99
30866531--30866679	56	2.8	54	81	9	164	26	19	29	24	1.98
30866531--30866724	50	3.8	50	77	6	183	28	19	27	24	1.98
30868826--30868850	6	4.2	6	100	0	50	68	0	32	0	0.90
30870180--30870216	20	1.9	18	89	10	56	43	0	21	35	1.53
30870777--30870948	46	3.7	46	77	13	181	20	18	29	30	1.97
30870770--30870940	93	1.8	93	89	0	270	21	19	29	29	1.98
30881157--30881218	5	12.2	5	93	3	106	61	0	0	38	0.96
30882384--30882437	26	2.1	26	100	0	108	33	7	0	59	1.25
30885357--30885389	15	2.2	15	94	0	57	63	9	12	15	1.51
30885762--30885805	21	2.1	22	79	12	56	65	9	2	22	1.32
30892008--30892045	20	1.9	20	89	10	60	60	5	0	34	1.19
30907174--30907211	17	2.2	17	90	9	60	36	0	47	15	1.46
30907177--30907218	15	2.7	15	83	16	59	35	0	50	14	1.43
30909422--30909473	23	2.3	23	93	0	86	50	9	32	7	1.64
30919611--30919639	6	4.8	6	100	0	58	86	0	0	13	0.58
30925958--30926173	39	5.5	40	82	8	237	26	27	19	26	1.99
30932885--30932945	27	2.3	27	91	0	104	40	14	22	21	1.90
30943672--30943843	79	2.2	78	83	7	213	25	22	28	24	1.99
30943619--30943841	40	5.6	39	79	7	207	25	21	27	24	1.99
30943699--30943876	79	2.2	80	82	3	200	25	22	28	23	1.99
30951573--30951744	79	2.2	78	83	7	213	25	22	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30951520--30951742	40	5.6	39	79	7	207	25	21	27	24	1.99
30955061--30955088	14	2.0	14	100	0	56	57	7	14	21	1.61
30965230--30965271	15	2.8	15	85	0	57	52	2	2	42	1.27
30969280--30969320	3	13.7	3	94	0	73	0	31	0	68	0.90
30971116--30971176	30	2.1	30	84	3	79	49	11	6	32	1.65
30976949--30976984	8	4.5	8	92	0	63	52	25	0	22	1.47
30980940--30981160	53	4.1	52	83	4	244	43	17	16	22	1.88
30980940--30981159	80	2.7	78	84	7	280	43	17	16	21	1.88
30980940--30981171	27	8.7	27	80	3	236	42	18	16	22	1.89
30981319--30981399	26	3.1	26	87	0	117	19	18	23	38	1.93
30981510--30981580	28	2.6	27	84	6	90	25	22	25	26	2.00
30986795--30986825	15	2.1	15	100	0	62	25	25	12	35	1.92
30986798--30986832	15	2.3	15	90	0	52	34	28	8	28	1.87
30987818--30987859	20	2.2	19	87	12	59	16	21	4	57	1.58
30992850--30992900	23	2.3	23	86	3	68	33	7	21	37	1.82
30997489--30997527	19	1.9	19	85	10	51	33	7	7	51	1.59
30999744--30999783	21	1.9	21	85	10	55	37	2	5	55	1.35
31001075--31001115	18	2.3	17	87	8	55	14	24	41	19	1.89
31003718--31003754	19	1.9	19	88	0	56	40	2	5	51	1.39
31008637--31008703	19	3.3	19	69	15	62	34	8	10	46	1.70
31008623--31008707	42	2.0	42	100	0	170	32	11	9	45	1.73
31008623--31008684	19	2.9	23	65	18	60	33	12	9	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31017673--31017771	23	4.3	23	92	0	162	20	21	27	31	1.98
31022217--31022268	26	2.0	26	85	11	70	59	0	3	36	1.16
31022963--31023001	19	2.1	19	86	13	55	69	0	28	2	1.02
31022983--31023029	12	3.8	12	76	18	51	76	0	23	0	0.78
31023146--31023194	6	7.8	6	82	15	55	83	0	4	12	0.77
31023133--31023195	16	4.1	15	75	17	58	82	0	7	9	0.84
31023363--31023509	75	2.0	75	82	5	181	24	38	28	8	1.85
31023533--31023584	15	3.4	16	73	7	54	78	5	15	0	0.92
31023888--31023932	21	2.1	22	87	4	65	42	8	4	44	1.56
31023993--31024204	18	11.4	17	72	19	133	31	10	10	47	1.72
31024008--31024205	17	11.6	18	76	18	176	31	10	11	46	1.74
31024071--31024199	43	3.1	44	75	22	136	24	11	12	51	1.73
31024035--31024198	79	2.0	81	89	4	253	27	10	12	50	1.72
31024114--31024255	37	3.9	37	81	9	150	33	11	10	45	1.74
31023993--31024255	36	7.1	37	77	15	233	32	11	10	46	1.73
31024666--31024691	9	2.9	9	100	0	52	46	19	0	34	1.50
31032006--31032091	35	2.5	35	85	9	106	67	0	32	0	0.91
31032003--31032094	39	2.4	35	80	15	85	66	0	33	0	0.92
31032531--31032576	9	5.8	8	85	12	51	80	0	19	0	0.71
31032532--31032577	25	1.9	23	86	8	65	80	0	19	0	0.71
31032528--31032580	7	7.6	7	80	12	56	83	0	16	0	0.66
31032528--31032588	25	2.5	25	78	7	63	81	1	16	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31032528--31032586	23	2.5	23	77	2	64	83	1	15	0	0.74
31032731--31032788	29	2.0	29	83	6	73	27	17	13	41	1.87
31033151--31033204	23	2.3	23	96	3	99	40	12	18	27	1.87
31033030--31033330	149	2.0	150	95	0	541	30	15	21	32	1.94
31034106--31034276	33	5.8	29	72	22	133	27	0	26	46	1.53
31034161--31034214	25	2.2	24	83	9	65	25	0	31	42	1.55
31034115--31034282	87	1.9	86	93	1	291	26	0	27	46	1.53
31034145--31034234	24	3.5	23	69	22	72	26	0	27	45	1.54
31034295--31034334	6	6.7	6	100	0	80	15	0	50	35	1.44
31034327--31034368	13	3.2	13	86	6	59	26	0	21	52	1.47
31034261--31034434	79	2.3	72	88	9	258	22	0	32	45	1.53
31034374--31034407	6	5.7	6	92	0	59	17	0	47	35	1.48
31034400--31034434	13	2.7	13	95	0	61	20	0	28	51	1.47
31034376--31034505	50	2.6	50	85	4	167	22	0	33	44	1.53
31034261--31034457	73	2.6	75	84	8	249	21	0	33	44	1.53
31034370--31034457	18	5.4	18	76	18	63	19	0	37	43	1.51
31034533--31034563	13	2.4	13	94	0	53	25	0	25	48	1.52
31034633--31034684	27	1.9	27	96	0	95	36	11	0	51	1.38
31035085--31035119	18	1.9	18	94	0	61	34	8	31	25	1.86
31035770--31035794	7	3.6	7	100	0	50	60	12	0	28	1.32
31036959--31037059	11	8.6	11	68	23	64	44	0	31	23	1.54
31036909--31037027	51	2.4	51	87	4	161	46	0	24	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31037010--31037059	10	4.6	11	77	22	61	46	0	34	20	1.51
31036994--31037059	22	3.0	22	84	2	80	42	0	33	24	1.55
31037331--31037396	29	2.3	29	79	7	73	43	13	19	22	1.86
31037704--31037806	17	5.7	18	75	19	81	38	8	10	41	1.71
31037708--31037840	36	3.7	36	79	4	144	37	10	10	41	1.74
31037696--31037837	19	7.8	19	70	19	90	36	9	10	42	1.73
31040469--31040514	17	2.8	18	84	15	64	28	41	30	0	1.56
31042147--31042181	7	5.0	7	85	0	52	28	51	0	20	1.47
31042147--31042185	14	2.8	14	88	0	60	30	46	0	23	1.53
31042149--31042214	21	3.1	22	86	4	82	37	40	0	21	1.53

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