genome.fa.s26.2.7.7.80.10.50.1000.12.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   197   198   199   200   201   202   203   204   

This is table  12  of  204  ( 24404 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)
3738029--3738254	117	1.9	118	84	4	305	43	15	17	23	1.87
3738220--3738254	14	2.5	14	95	0	61	62	5	17	14	1.49
3738416--3738478	14	4.5	14	82	7	65	61	3	12	22	1.45
3738419--3738451	15	2.2	15	94	0	57	69	0	9	21	1.15
3738435--3738478	13	3.3	13	81	6	52	63	4	13	18	1.46
3738462--3739963	73	20.0	73	74	13	922	32	20	17	30	1.95
3738687--3738721	14	2.5	14	95	0	61	60	0	20	20	1.37
3738610--3738798	89	2.1	92	87	4	267	35	17	19	27	1.94
3738867--3739168	75	4.1	73	79	10	330	32	19	16	30	1.94
3738889--3739963	146	7.3	146	82	9	1184	31	20	16	31	1.95
3739085--3739255	90	1.9	91	88	5	260	34	17	15	32	1.92
3739179--3739963	74	11.0	73	84	7	979	31	20	16	31	1.95
3750007--3750051	16	2.8	16	90	6	65	64	2	2	31	1.18
3750007--3750065	8	7.1	8	78	9	57	64	1	1	32	1.13
3750167--3750220	23	2.5	22	75	13	60	57	5	5	31	1.45
3750183--3750268	25	3.7	24	79	10	81	55	5	6	31	1.50
3750289--3750344	25	2.3	24	84	3	67	58	0	3	37	1.15
3750947--3751035	30	3.0	30	90	6	144	20	3	47	29	1.66
3751404--3751477	14	5.1	14	83	6	94	18	6	10	63	1.48
3751402--3751463	30	2.1	30	93	0	106	19	6	9	64	1.45
3751404--3751489	44	2.0	44	97	0	163	20	6	9	62	1.48
3751405--3751504	44	2.3	44	89	0	146	22	7	9	62	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3752444--3752508	33	2.0	33	90	0	103	21	30	20	27	1.98
3758470--3758504	15	2.4	15	95	4	63	34	2	5	57	1.37
3765437--3765577	45	3.2	45	68	8	119	25	26	24	24	2.00
3765388--3765919	88	6.1	88	79	1	494	28	25	23	22	1.99
3765499--3765640	43	3.3	43	65	3	104	27	28	25	18	1.98
3765384--3765909	176	3.0	175	80	5	555	28	25	23	22	1.99
3765420--3765951	175	3.0	173	82	4	586	28	25	24	22	1.99
3765962--3766059	44	2.2	44	87	0	133	26	18	23	31	1.97
3766045--3766156	44	2.5	44	83	8	138	30	20	19	29	1.97
3767746--3767780	15	2.4	15	95	4	63	34	2	5	57	1.37
3769496--3769555	27	2.2	27	93	3	102	68	0	0	31	0.90
3772994--3773054	24	2.4	25	86	8	79	60	0	32	6	1.22
3780851--3780945	48	2.0	48	91	0	154	31	16	21	30	1.95
3782804--3782863	30	2.0	31	86	3	86	40	0	40	20	1.52
3786684--3787170	172	2.8	172	83	5	545	39	18	11	30	1.86
3799573--3799741	31	5.5	30	70	15	98	40	2	4	52	1.36
3799579--3799743	61	2.7	60	89	3	249	41	3	4	51	1.37
3799599--3799750	30	5.0	30	74	8	137	40	2	4	51	1.36
3800890--3800966	9	8.6	9	88	0	109	23	11	25	38	1.89
3800890--3800966	27	2.9	27	92	0	127	23	11	25	38	1.89
3801309--3801364	26	2.2	25	81	12	69	42	8	14	33	1.77
3808227--3808276	24	2.0	26	88	7	77	26	2	0	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808824--3808876	23	2.2	24	83	10	63	58	0	0	41	0.98
3809346--3809414	33	2.1	33	100	0	138	28	2	23	44	1.67
3810674--3810707	16	2.0	17	88	11	52	47	0	0	52	1.00
3811612--3811783	54	3.2	52	75	18	181	61	2	2	33	1.24
3811715--3811753	10	4.0	10	83	6	53	69	0	0	30	0.89
3811715--3811778	29	2.1	32	85	8	89	64	1	0	34	1.03
3811714--3811787	28	2.6	29	80	2	87	59	1	0	39	1.06
3811789--3811813	6	4.2	6	100	0	50	52	0	0	48	1.00
3813456--3813495	21	1.9	21	89	0	62	30	2	0	67	1.04
3818813--3818846	16	2.2	15	89	5	50	52	0	2	44	1.16
3819043--3819101	28	2.3	27	83	16	72	45	1	0	52	1.10
3825676--3825712	14	2.6	14	91	0	56	56	10	0	32	1.34
3825904--3825956	3	17.7	3	80	7	63	62	1	5	30	1.29
3827614--3827874	87	3.0	84	70	11	219	25	21	19	32	1.97
3827478--3827874	174	2.3	169	85	6	512	25	23	20	31	1.98
3827436--3827768	43	7.6	43	74	9	212	25	23	21	29	1.99
3827518--3827809	41	6.8	41	73	11	167	27	22	19	30	1.98
3829144--3829170	1	27.0	1	100	0	54	0	0	0	100	0.00
3840676--3840728	3	17.7	3	80	7	63	62	1	5	30	1.29
3842451--3842478	11	2.5	11	100	0	56	0	7	0	92	0.37
3842577--3842613	14	2.6	15	91	8	60	13	0	35	51	1.41
3858892--3859033	30	4.7	30	98	0	266	47	7	20	25	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3863614--3863695	30	2.7	30	90	0	119	47	7	19	25	1.75
3878579--3878633	21	2.6	21	88	0	83	23	9	38	29	1.85
3882777--3882826	25	2.0	25	96	0	91	62	4	30	4	1.32
3883081--3883177	49	2.0	48	87	2	140	40	20	17	21	1.92
3883403--3883475	36	2.0	36	91	0	119	41	16	9	32	1.81
3890486--3890530	11	3.9	11	77	11	54	40	0	2	57	1.11
3891642--3891689	24	2.0	24	83	0	60	31	10	39	18	1.85
3892248--3892286	18	2.1	18	85	4	51	23	10	20	46	1.81
3892880--3892909	11	2.7	11	94	0	51	10	3	6	80	1.01
3894188--3894216	3	9.7	3	100	0	58	31	0	0	68	0.89
3897155--3897179	7	3.6	7	100	0	50	88	0	12	0	0.53
3904002--3904036	3	11.7	3	100	0	70	34	0	34	31	1.58
3908288--3908334	19	2.4	19	82	10	51	31	2	4	61	1.27
3908794--3908915	56	2.2	56	79	8	140	51	4	0	42	1.29
3912012--3912175	43	3.8	43	83	1	184	25	27	17	29	1.97
3911999--3912175	87	2.0	86	81	1	201	25	26	19	28	1.98
3914281--3914375	9	11.2	9	69	17	69	32	1	21	45	1.59
3914279--3914375	25	3.9	24	73	16	90	32	1	20	45	1.58
3914314--3914420	34	3.3	34	75	11	91	28	3	23	43	1.71
3914586--3914971	9	44.7	9	65	18	126	34	2	18	45	1.63
3914612--3914924	25	13.4	25	70	14	204	35	2	17	45	1.61
3914692--3914752	20	3.1	20	81	9	72	36	0	14	49	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3914711--3914921	93	2.3	89	86	4	287	36	0	16	46	1.53
3914643--3914907	113	2.3	115	85	4	342	34	2	17	45	1.61
3914852--3914921	21	3.1	21	73	15	77	34	0	12	52	1.40
3914884--3914971	25	3.5	25	76	6	72	30	3	19	46	1.66
3915003--3915074	30	2.4	31	80	15	96	52	0	4	43	1.20
3915057--3915101	23	2.0	22	86	4	63	46	0	6	46	1.29
3915050--3915110	30	2.0	30	84	6	79	47	0	6	45	1.28
3917544--3917675	65	2.0	65	92	0	219	31	10	9	47	1.71
3918374--3918439	14	4.6	15	76	12	50	34	39	1	24	1.65
3918698--3918747	22	2.3	21	80	10	57	42	32	0	26	1.56
3918822--3919380	115	4.9	114	82	5	646	27	25	22	25	2.00
3920082--3920121	20	2.0	20	95	0	71	57	5	5	32	1.42
3920933--3920970	16	2.4	17	82	13	53	55	0	0	44	0.99
3920929--3920980	15	3.6	15	80	12	56	53	0	0	46	1.00
3920920--3921119	59	3.3	59	67	18	160	52	2	2	43	1.28
3921087--3921253	47	3.6	46	71	12	146	47	4	2	45	1.35
3921146--3921217	28	2.6	28	84	8	85	51	4	0	44	1.20
3931278--3931329	4	13.0	4	95	0	95	26	0	25	48	1.52
3937054--3937085	16	2.0	16	100	0	64	43	0	25	31	1.55
3943026--3943058	15	2.3	15	89	5	50	18	3	0	78	0.87
3953573--3953952	44	8.8	44	70	13	182	26	21	20	30	1.98
3970643--3970698	24	2.3	24	87	0	85	23	12	14	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3980313--3980424	43	2.6	43	81	5	120	31	22	16	29	1.96
3985793--3986123	178	1.9	178	87	1	484	37	19	11	31	1.87
3994295--3994319	9	2.8	9	100	0	50	88	0	0	12	0.53
3994282--3994354	28	2.5	30	82	11	96	67	0	0	32	0.91
3996548--3996601	18	2.9	18	78	8	56	55	1	1	40	1.21
4008704--4008732	8	3.6	8	100	0	58	10	37	0	51	1.36
4020271--4020316	24	2.0	24	86	4	67	26	19	10	43	1.84
4023959--4023995	16	2.3	16	95	0	65	54	16	5	24	1.63
4033015--4033057	18	2.4	18	80	7	52	51	0	2	46	1.13
4036149--4036187	3	13.0	3	94	0	69	35	33	0	30	1.58

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   197   198   199   200   201   202   203   204