genome.fa.s26.2.7.7.80.10.50.1000.19.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  19  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)
5559738--5559805	20	3.4	20	79	0	82	44	19	2	33	1.66
5559971--5560029	22	2.6	22	81	7	66	35	20	23	20	1.96
5563936--5564025	45	2.0	45	91	0	144	23	23	21	32	1.98
5569557--5569610	28	1.9	28	100	0	108	38	11	20	29	1.87
5569553--5569630	28	2.6	29	84	12	104	38	7	23	30	1.83
5571927--5571959	12	2.6	13	90	9	59	57	0	0	42	0.98
5571936--5571984	16	3.2	16	69	19	50	51	0	0	48	1.00
5575520--5575641	62	2.0	62	96	0	226	24	15	12	47	1.80
5577768--5577799	4	8.0	4	100	0	64	75	0	25	0	0.81
5579395--5579428	17	1.9	18	88	5	52	50	0	2	47	1.16
5582513--5582611	41	2.4	40	81	3	99	40	1	25	33	1.62
5592763--5592809	3	15.7	3	100	0	94	65	0	0	34	0.93
5594258--5594296	20	1.9	21	89	5	62	56	7	5	30	1.49
5594434--5594489	22	2.5	22	82	8	60	42	5	5	46	1.49
5595637--5595767	66	2.0	66	83	5	167	12	22	18	45	1.83
5603947--5604038	36	2.7	35	83	11	102	39	3	30	27	1.72
5603943--5604038	33	2.8	33	77	17	97	38	3	32	26	1.72
5610307--5610466	67	2.4	66	90	4	250	58	21	5	15	1.56
5610308--5610443	67	2.0	67	97	0	254	57	22	5	15	1.58
5613857--5613888	16	1.9	17	93	6	57	40	0	31	28	1.57
5614159--5614220	30	2.1	30	84	6	81	43	1	35	19	1.61
5614261--5614297	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5616780--5616903	29	4.2	29	83	1	149	32	20	5	41	1.75
5617251--5617293	21	2.0	21	90	0	68	76	0	23	0	0.78
5617532--5617575	17	2.7	15	83	13	52	20	40	22	15	1.90
5617577--5617623	8	5.9	8	87	7	69	85	0	14	0	0.61
5617579--5617616	11	3.4	11	88	3	58	89	0	10	0	0.49
5629822--5629879	30	2.0	29	82	3	71	27	12	6	53	1.63
5629852--5630847	232	4.3	232	84	8	1043	27	16	19	36	1.93
5629850--5630847	77	12.9	76	85	8	1024	27	16	19	36	1.93
5631045--5631160	29	4.0	29	79	1	133	31	22	6	39	1.78
5631631--5631676	13	3.5	13	77	11	58	78	2	8	10	1.05
5631833--5631890	9	6.4	9	82	13	75	86	0	13	0	0.58
5631831--5631881	15	3.5	15	84	7	70	86	0	13	0	0.58
5632024--5632066	22	1.9	23	86	13	63	23	4	2	69	1.18
5632359--5632498	29	4.8	29	75	5	122	30	21	6	41	1.78
5632832--5632871	3	13.7	3	85	15	57	70	0	30	0	0.88
5632832--5632871	11	3.4	12	87	12	57	70	0	30	0	0.88
5632831--5632878	21	2.3	21	82	7	62	72	0	27	0	0.84
5633158--5633200	18	2.4	18	96	0	77	86	0	13	0	0.58
5633157--5633192	11	3.3	11	92	7	56	91	0	8	0	0.41
5633159--5633200	6	7.0	6	80	20	52	85	0	14	0	0.59
5633157--5633199	10	4.3	10	82	8	52	88	0	11	0	0.52
5633334--5633376	22	1.9	23	86	13	63	23	4	2	69	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5636624--5636775	53	2.9	53	84	0	214	34	7	15	42	1.76
5643331--5643368	18	2.2	18	90	4	60	84	0	15	0	0.63
5649984--5650014	15	2.1	14	94	5	53	54	19	6	19	1.65
5655605--5655670	33	2.0	33	100	0	132	30	21	6	42	1.77
5657857--5657929	38	1.9	37	86	8	103	31	21	1	45	1.61
5657917--5657960	23	1.9	22	82	17	54	38	22	0	38	1.55
5658059--5658191	23	6.3	23	86	10	164	31	24	23	21	1.98
5658107--5658159	17	3.1	17	100	0	106	28	18	28	24	1.98
5661350--5661388	19	2.1	18	85	4	51	64	5	2	28	1.28
5664816--5664870	27	2.0	27	86	6	76	54	1	3	40	1.28
5665738--5665776	15	2.5	16	83	8	53	51	5	0	43	1.24
5670762--5670795	17	1.9	18	94	5	61	58	0	8	32	1.29
5672484--5672633	44	3.4	42	72	17	135	26	20	22	30	1.98
5672432--5672632	88	2.3	86	90	1	303	25	22	21	30	1.99
5672864--5673323	50	9.2	50	68	5	273	25	23	20	30	1.99
5672890--5673685	100	7.9	100	92	0	1196	26	22	20	30	1.98
5673364--5673623	50	5.2	50	65	5	148	28	22	18	30	1.97
5678245--5678287	19	2.2	20	87	4	61	67	6	4	20	1.33
5678278--5678310	7	4.7	7	96	0	57	48	30	0	21	1.50
5681158--5681210	16	3.2	16	72	2	52	49	5	5	39	1.50
5686864--5686907	14	3.2	14	83	3	54	40	31	6	20	1.79
5686915--5686944	14	2.1	14	93	0	51	33	3	20	43	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5687383--5687468	27	3.2	27	68	14	70	48	25	4	20	1.69
5687438--5687474	19	1.9	19	89	10	58	45	32	5	16	1.70
5687452--5687530	28	2.9	28	78	14	83	51	25	2	20	1.59
5687910--5687977	28	2.5	28	75	15	70	51	25	1	22	1.56
5688181--5688206	7	3.7	7	100	0	52	57	15	0	26	1.38
5688232--5688295	27	2.3	27	81	7	76	57	21	0	20	1.40
5688252--5688289	20	1.9	20	88	0	58	57	21	0	21	1.40
5688356--5688468	27	4.1	27	76	10	111	52	30	0	17	1.45
5688356--5688406	13	3.6	14	76	7	50	58	25	0	15	1.37
5688356--5688462	20	5.1	21	69	16	69	52	30	0	16	1.44
5688371--5688480	56	2.0	55	83	5	141	51	30	0	17	1.45
5688590--5688636	14	3.4	14	82	8	51	53	23	0	23	1.47
5688675--5688756	28	2.9	28	77	10	80	51	25	3	19	1.63
5688701--5688761	14	4.4	14	73	8	52	50	27	1	19	1.57
5688731--5688825	7	13.7	7	69	12	54	44	37	1	16	1.55
5693312--5693614	164	1.8	164	99	0	597	29	14	15	40	1.87
5702767--5702838	23	3.0	25	78	15	62	22	22	19	36	1.95
5707735--5707760	7	3.7	7	100	0	52	15	0	23	61	1.33
5709448--5709486	20	2.0	20	94	0	69	46	7	0	46	1.31
5710708--5711327	159	3.9	159	92	1	981	28	10	40	21	1.86
5712960--5712993	17	2.0	17	88	0	50	52	32	0	14	1.42
5716545--5716573	10	2.9	10	100	0	58	72	0	10	17	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5717237--5717439	109	1.8	111	88	2	311	32	23	12	32	1.92
5718405--5718451	19	2.5	19	96	0	85	14	4	42	38	1.66
5718602--5718642	20	2.1	19	90	4	64	75	0	2	21	0.92
5718601--5718656	16	3.2	16	83	16	60	76	0	3	19	0.93
5718605--5718654	20	2.4	21	83	9	59	78	0	4	18	0.91
5721099--5721406	155	2.0	155	97	0	580	18	20	20	40	1.92
5724677--5724838	9	17.2	9	67	17	62	62	2	4	29	1.29
5724711--5724838	19	6.7	19	68	13	66	60	2	4	32	1.30
5724710--5724781	28	2.5	29	82	13	87	62	0	2	34	1.10
5724749--5724809	20	3.1	21	81	11	67	65	4	4	24	1.32
5724712--5724790	29	2.8	28	78	3	86	60	2	3	32	1.28
5725131--5725214	31	2.8	31	85	5	111	33	0	0	66	0.92
5725113--5725215	10	10.4	10	75	6	93	32	0	2	65	1.08
5725180--5725216	19	1.9	19	100	0	74	21	0	0	78	0.75
5727433--5727466	5	6.8	5	100	0	68	61	0	0	38	0.96
5733399--5733447	23	2.1	23	92	0	80	42	22	8	26	1.81
5741145--5741186	20	2.1	20	90	0	66	33	7	7	52	1.56
5741151--5741194	20	2.2	20	87	0	61	34	6	9	50	1.61
5741812--5742376	87	6.5	87	85	4	649	31	13	10	44	1.78
5741814--5742551	174	4.3	174	79	8	691	31	13	10	45	1.77
5741812--5742551	262	2.9	257	81	7	762	31	13	10	45	1.77
5742439--5742623	82	2.3	82	80	3	194	29	14	14	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5745803--5745872	30	2.3	30	83	11	90	38	0	0	61	0.96
5745816--5745870	12	4.9	11	76	14	51	32	0	0	67	0.91
5750446--5750498	22	2.3	24	75	18	58	45	0	3	50	1.19
5753761--5753847	26	3.3	25	76	12	77	22	4	3	68	1.23
5755219--5755278	27	2.3	26	91	5	95	65	1	0	33	1.03
5756728--5756773	24	2.0	23	82	4	56	67	10	10	10	1.43
5764103--5764140	20	1.9	20	88	0	58	60	2	5	31	1.33
5771845--5771873	10	2.7	11	94	5	51	41	0	20	37	1.53
5772412--5772569	25	6.4	24	77	2	127	18	29	18	32	1.95
5772412--5772569	73	2.1	74	83	4	194	18	29	18	32	1.95

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