genome.fa.s9.2.7.7.80.10.50.1000.185.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_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   

This is table  185  of  250  ( 29906 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)
58380330--58380398	19	3.7	19	90	7	115	36	11	14	37	1.83
58380320--58380397	36	2.2	35	82	15	97	35	11	14	38	1.82
58386835--58386863	7	4.1	7	100	0	58	55	0	0	44	0.99
58390482--58390511	3	10.0	3	100	0	60	66	0	0	33	0.92
58393027--58393142	50	2.3	52	88	5	166	34	16	12	36	1.87
58398805--58398860	13	4.2	13	74	17	53	46	10	1	41	1.49
58400610--58400662	20	2.7	20	79	2	63	28	1	3	66	1.20
58402235--58402388	42	3.7	41	83	4	184	32	15	22	29	1.95
58409767--58409919	42	3.7	41	84	4	191	32	15	21	30	1.95
58412839--58412908	27	2.6	27	86	2	97	22	20	21	35	1.96
58414871--58414910	8	5.0	8	82	11	55	60	0	0	40	0.97
58414901--58414950	23	2.1	25	85	7	68	78	4	8	10	1.09
58415803--58415996	93	2.1	93	92	0	316	20	18	22	39	1.92
58415782--58415946	44	3.6	44	69	13	136	20	19	23	37	1.94
58419480--58419520	11	3.7	11	80	0	55	19	14	9	56	1.66
58419551--58419607	30	1.9	30	88	0	87	28	3	14	54	1.56
58419731--58419764	11	3.0	12	87	12	54	67	0	0	32	0.91
58422934--58423156	47	4.8	47	73	13	149	28	17	29	24	1.97
58422889--58423150	140	1.9	140	82	4	332	29	17	28	24	1.97
58426085--58426130	8	6.0	8	76	19	53	63	0	0	36	0.95
58426083--58426129	13	3.1	16	76	20	55	61	0	0	38	0.96
58428213--58428269	21	2.7	21	73	7	62	33	26	24	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58429651--58429800	3	49.7	3	74	13	96	34	5	1	58	1.29
58429682--58429785	17	6.0	17	73	16	79	30	5	1	61	1.30
58429651--58429801	32	4.9	31	72	14	86	35	5	1	58	1.29
58429689--58429783	49	1.9	49	87	8	140	31	5	2	61	1.30
58429880--58429912	17	1.9	17	88	11	50	18	3	0	78	0.87
58431941--58431992	15	3.3	15	82	12	52	48	13	13	25	1.79
58432993--58433102	26	4.2	26	97	0	184	33	5	24	36	1.79
58434581--58434632	25	2.0	26	85	3	70	38	23	13	25	1.91
58438763--58438846	26	3.2	26	96	0	150	33	4	25	36	1.77
58444396--58444441	19	2.5	19	80	13	53	58	4	0	36	1.18
58444383--58444474	44	2.1	43	80	11	98	58	3	2	35	1.26
58448504--58448679	46	3.8	46	76	11	180	21	20	29	28	1.98
58448500--58448672	93	1.9	93	91	2	285	21	20	30	27	1.98
58454547--58454617	35	2.1	34	91	2	115	36	9	22	30	1.87
58463841--58463902	10	6.1	10	88	1	61	67	0	8	24	1.17
58463843--58463902	20	3.0	20	85	0	84	68	0	8	23	1.16
58465524--58465579	25	2.2	25	87	0	76	75	0	3	21	0.96
58465519--58465580	15	4.3	14	78	12	63	75	0	3	20	0.94
58465539--58465580	5	8.4	5	84	10	59	78	0	2	19	0.86
58467732--58467809	38	2.1	38	97	0	147	21	24	15	38	1.92
58469310--58469379	10	7.0	10	87	9	99	68	1	8	21	1.24
58469326--58469378	16	3.4	16	72	25	51	69	0	9	20	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58477686--58477719	17	2.0	17	100	0	68	52	17	11	17	1.73
58482876--58482906	14	2.3	13	94	5	53	38	9	0	51	1.35
58485764--58485828	25	2.6	25	81	11	71	26	21	23	29	1.99
58485811--58485898	23	3.8	22	80	10	95	32	21	23	21	1.98
58488471--58488546	34	2.2	34	83	4	100	32	21	22	23	1.98
58488969--58489003	18	1.9	18	88	11	54	20	42	25	11	1.85
58496890--58496975	43	2.0	43	82	13	106	24	18	29	27	1.98
58503950--58504004	6	9.0	6	84	4	74	78	1	1	18	0.94
58503950--58504004	24	2.2	25	90	3	85	78	1	1	18	0.94
58512607--58512646	18	2.2	18	100	0	80	25	17	5	52	1.64
58524748--58524830	41	2.0	41	92	0	139	32	18	27	21	1.96
58525556--58525600	23	1.9	23	82	13	56	31	0	28	40	1.57
58527125--58527440	49	6.7	45	78	11	262	21	28	20	28	1.98
58527225--58527439	95	2.3	93	84	6	276	21	28	20	28	1.98
58536350--58536574	44	5.1	44	81	2	236	34	19	19	27	1.95
58539512--58539559	20	2.4	20	89	0	78	14	35	33	16	1.89
58540041--58540077	13	2.8	13	91	4	56	51	21	0	27	1.48
58540174--58540329	48	3.1	48	77	16	188	41	23	1	33	1.65
58541545--58541592	19	2.6	18	83	9	53	2	27	2	68	1.11
58541813--58541862	26	1.9	26	87	0	73	58	6	2	34	1.34
58542951--58543000	19	2.6	19	80	0	64	14	6	2	78	1.03
58542983--58543017	16	2.2	16	89	0	52	22	0	2	74	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58543023--58543065	13	3.2	13	86	3	50	18	0	4	76	0.95
58543019--58543052	9	3.8	9	85	14	52	17	0	2	79	0.86
58543069--58543135	22	3.0	23	79	14	68	41	0	4	53	1.21
58543085--58543238	36	4.5	32	85	11	139	41	0	1	55	1.15
58543119--58543225	13	8.8	12	69	21	64	40	0	1	57	1.16
58543090--58543145	23	2.4	25	82	17	75	41	0	0	58	0.98
58543140--58543274	22	5.8	23	63	24	61	42	0	1	54	1.14
58543132--58543175	22	2.1	20	87	8	61	38	0	2	59	1.10
58543107--58543245	36	4.0	35	90	3	203	41	0	1	56	1.13
58543107--58543245	71	2.0	68	87	6	199	41	0	1	56	1.13
58543202--58543280	21	3.5	21	72	16	61	45	0	1	53	1.08
58543213--58543263	20	2.4	21	90	6	77	43	0	0	56	0.99
58543255--58543313	14	4.4	13	78	6	55	50	0	0	49	1.00
58543278--58543314	13	2.7	14	84	15	51	54	0	0	45	1.00
58543343--58543444	13	7.8	13	67	16	50	78	1	4	14	1.01
58543349--58543460	17	6.3	17	76	20	88	78	2	4	14	1.01
58545583--58545611	2	14.5	2	100	0	58	48	0	51	0	1.00
58548985--58549009	12	2.1	12	100	0	50	72	0	0	28	0.86
58550058--58550087	14	2.1	14	100	0	60	0	40	6	53	1.27
58556221--58556286	28	2.4	27	80	5	71	56	3	6	34	1.40
58557968--58558165	90	2.2	88	80	8	213	27	23	20	28	1.99
58574082--58574213	39	3.5	37	77	10	133	49	3	15	31	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58574082--58574217	38	3.6	38	79	7	143	50	3	15	30	1.61
58575634--58575693	25	2.4	25	94	2	102	38	10	10	41	1.72
58579096--58579143	21	2.2	22	96	3	89	16	10	12	60	1.58
58582274--58582317	22	2.1	22	87	8	65	47	13	9	29	1.74
58589445--58589491	20	2.3	20	88	0	67	6	21	14	57	1.60
58600131--58600200	34	2.1	34	94	0	122	27	30	15	27	1.96
58603771--58603813	13	3.3	12	87	9	50	41	0	6	51	1.29
58603792--58603842	14	3.7	14	75	15	52	41	1	13	43	1.55
58604218--58604260	21	2.0	22	86	4	61	58	11	2	27	1.46
58606333--58606357	3	8.3	3	100	0	50	68	0	0	32	0.90
58606348--58606387	14	2.7	15	84	7	55	65	2	10	22	1.35
58607839--58607882	12	3.6	12	82	14	54	13	0	6	79	0.92
58607839--58607876	19	2.0	20	89	5	60	13	0	7	78	0.94
58609513--58609578	10	6.8	10	71	13	57	0	56	0	43	0.99
58609508--58609579	19	3.8	19	82	15	96	0	56	0	43	0.99
58610025--58610067	19	2.3	19	100	0	86	34	0	4	60	1.17
58610448--58610519	20	3.5	20	74	12	58	33	5	4	56	1.41
58611128--58611183	21	2.6	22	81	13	71	28	8	0	62	1.25
58611139--58611179	22	1.9	21	90	5	64	26	12	0	60	1.31
58611098--58611193	37	2.5	37	79	12	97	31	7	1	60	1.31
58615175--58615208	9	3.8	9	88	0	50	47	2	32	17	1.63
58623693--58624105	87	4.7	87	85	7	548	26	15	19	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58623855--58623889	14	2.5	14	90	0	52	22	8	2	65	1.34
58625442--58625477	18	2.0	18	88	0	54	86	0	5	8	0.72
58625778--58625803	3	8.7	3	100	0	52	69	0	0	30	0.89
58629612--58629661	23	2.1	24	85	3	66	28	0	16	56	1.41
58629756--58629789	16	2.1	17	88	5	52	17	0	38	44	1.49
58629610--58630407	156	5.1	157	86	5	1069	34	1	19	44	1.61
58630222--58630281	24	2.5	25	79	15	74	21	0	28	50	1.49
58630238--58630287	24	2.1	24	82	10	59	16	0	30	54	1.42
58629610--58630407	313	2.5	313	87	4	1094	34	1	19	44	1.61
58630428--58630862	126	3.5	126	90	0	638	37	15	19	28	1.91

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250