genome.fa.s16.2.7.7.80.10.50.1000.139.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  139  of  175  ( 20966 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)
42948519--42948882	178	2.0	178	85	2	489	21	28	21	28	1.99
42954083--42954119	18	2.1	18	94	0	65	45	16	13	24	1.83
42954129--42954178	17	2.8	18	90	6	75	42	42	0	16	1.47
42954185--42954266	38	2.3	33	76	21	94	53	26	1	18	1.52
42954164--42954276	39	2.9	39	96	1	201	52	27	1	18	1.56
42954405--42954479	37	2.0	37	89	0	96	37	5	13	44	1.66
42955078--42955130	26	2.0	26	100	0	106	22	28	7	41	1.81
42955165--42955224	31	1.9	32	83	10	79	68	3	8	20	1.30
42959811--42959842	16	1.9	17	93	6	57	78	6	15	0	0.95
42969122--42969314	99	1.9	99	90	0	305	30	17	28	23	1.97
42971684--42971730	2	23.5	2	100	0	94	0	48	0	51	1.00
42979084--42979119	3	12.0	3	93	0	63	63	0	2	33	1.08
42981949--42982075	54	2.3	55	76	1	130	25	22	25	25	2.00
42990271--42990374	43	2.4	43	85	6	140	26	16	26	29	1.97
42993218--42993247	15	2.0	15	100	0	60	20	6	6	66	1.38
42993350--42993474	37	3.6	37	68	16	122	30	14	3	52	1.57
42993354--42993485	66	2.0	66	100	0	264	30	15	3	51	1.58
42995082--42995171	26	3.2	26	63	22	65	2	20	28	48	1.61
42995080--42995195	58	2.0	58	100	0	232	3	18	27	50	1.63
42995093--42995180	26	3.2	26	62	22	61	3	18	29	48	1.64
42998263--42998302	2	20.0	2	90	10	64	50	47	0	2	1.14
43000328--43000364	18	2.1	18	94	0	65	27	5	13	54	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43004165--43004238	34	2.2	34	85	7	98	47	12	1	39	1.49
43008605--43008648	19	2.3	19	77	14	54	59	6	0	34	1.24
43013545--43013583	20	1.9	20	89	5	60	61	2	0	35	1.10
43013574--43013604	15	2.1	15	93	0	53	48	0	6	45	1.28
43014767--43014819	8	7.0	8	74	20	51	39	0	1	58	1.09
43014764--43014829	29	2.3	29	85	10	91	45	0	3	51	1.16
43015281--43015311	15	2.0	15	93	6	53	64	9	19	6	1.45
43015268--43015311	16	2.8	16	83	13	56	68	9	18	4	1.34
43015264--43015350	26	3.3	26	77	6	79	71	4	21	2	1.16
43016220--43016328	38	2.8	39	76	6	105	21	20	26	32	1.97
43024349--43024441	25	3.8	25	71	12	77	18	21	24	35	1.95
43026024--43026185	41	4.0	40	78	10	166	33	28	19	18	1.95
43026833--43026867	17	2.1	17	89	5	54	31	14	5	48	1.67
43028976--43029077	41	2.5	40	85	9	134	28	25	18	27	1.98
43030661--43030685	13	1.9	13	100	0	50	68	24	0	8	1.16
43030728--43030762	17	2.1	17	100	0	70	22	20	22	34	1.97
43034497--43034690	49	3.9	49	81	2	210	22	27	21	28	1.99
43034504--43034690	99	1.9	99	83	2	241	21	27	21	28	1.99
43034499--43034742	49	4.8	50	80	4	186	23	27	20	28	1.99
43041099--43041144	24	1.9	24	100	0	92	45	17	15	21	1.85
43042999--43043055	10	6.1	9	77	18	55	33	1	1	63	1.15
43042987--43043052	19	3.6	19	80	11	68	28	3	3	65	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43043001--43043075	19	3.8	20	76	16	77	37	1	1	60	1.14
43045668--43045696	3	9.7	3	100	0	58	68	0	31	0	0.89
43054591--43054632	22	1.9	22	95	0	75	30	23	16	28	1.96
43056576--43056618	20	2.2	20	83	8	52	67	2	9	20	1.30
43057240--43057471	127	1.8	126	80	6	279	35	12	16	35	1.86
43059329--43059970	127	5.1	125	91	2	987	23	21	23	32	1.98
43059524--43059985	87	5.5	84	71	16	294	22	21	23	31	1.98
43059381--43059985	40	14.4	40	68	16	284	22	22	22	31	1.98
43073035--43073074	16	2.6	15	82	17	55	77	2	2	17	0.99
43073737--43073807	3	23.7	3	80	13	67	66	1	4	28	1.19
43076024--43076076	26	2.0	27	88	3	81	30	7	13	49	1.69
43077033--43077090	18	3.2	18	78	9	64	36	1	0	62	1.06
43077018--43077090	37	2.0	36	84	10	94	41	1	0	57	1.07
43077018--43077101	19	4.4	19	75	10	64	38	2	0	59	1.10
43077077--43077120	19	2.3	19	88	4	61	25	6	0	68	1.14
43086652--43086698	20	2.3	20	86	13	62	34	2	4	59	1.29
43087002--43087032	16	1.9	16	93	0	53	29	0	0	70	0.87
43087028--43087053	10	2.6	10	100	0	52	50	7	0	42	1.31
43093530--43093678	67	2.2	67	80	4	167	32	17	15	34	1.91
43093601--43094115	131	3.9	131	83	1	620	33	16	13	36	1.88
43093666--43093879	64	3.3	64	72	14	186	32	14	13	38	1.86
43109619--43109663	23	2.0	23	90	0	72	11	26	22	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43109622--43109671	23	2.2	23	81	0	55	12	28	22	38	1.89
43110839--43110892	6	9.0	6	100	0	108	33	0	16	50	1.46
43113656--43113710	24	2.3	23	84	12	67	30	7	1	60	1.35
43120260--43120808	44	12.5	45	72	9	400	28	16	25	30	1.96
43120260--43120808	265	2.1	260	86	3	760	28	16	25	30	1.96
43120260--43120795	132	4.1	132	85	3	715	29	15	25	29	1.96
43120789--43121106	88	3.6	88	90	0	501	28	29	23	18	1.98
43120385--43120920	265	2.0	265	78	3	560	29	19	24	27	1.98
43121106--43121271	44	3.8	43	83	3	197	28	16	24	30	1.96
43121237--43121404	88	1.9	88	81	0	201	29	20	23	27	1.99
43121926--43122434	44	11.7	44	69	12	214	29	19	23	28	1.98
43121924--43122377	217	2.1	216	87	2	635	29	20	22	27	1.98
43122054--43122261	89	2.4	88	82	6	226	31	20	21	26	1.98
43124317--43124358	19	2.2	20	82	4	50	30	7	11	50	1.66
43139867--43139902	16	2.2	16	90	0	54	80	2	13	2	0.93
43140267--43140319	3	17.7	3	100	0	106	67	0	0	32	0.91
43140724--43140763	19	2.1	19	90	0	62	27	2	2	67	1.16
43140720--43140763	10	4.4	10	82	8	54	27	2	2	68	1.14
43140924--43140978	24	2.3	24	96	0	101	40	14	12	32	1.84
43152578--43152649	28	2.6	28	84	0	90	33	11	25	30	1.90
43153373--43153689	23	13.5	23	72	7	242	25	15	16	42	1.87
43153371--43153689	71	4.5	71	84	3	392	26	15	16	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43153371--43153706	48	7.1	47	74	7	234	26	14	17	42	1.87
43156588--43156638	23	2.2	23	82	10	59	39	13	3	43	1.63
43166989--43167083	47	2.0	47	100	0	190	30	10	10	48	1.71
43167003--43167077	23	3.2	23	62	23	57	32	6	10	50	1.63
43172572--43172641	29	2.3	29	85	4	86	22	14	15	47	1.82
43176004--43176264	129	2.0	129	84	1	335	16	15	15	52	1.76
43180229--43180282	29	2.0	26	82	10	63	50	16	12	20	1.78
43180417--43180459	21	2.1	21	86	4	61	9	0	37	53	1.33
43180675--43181091	126	3.3	126	92	0	656	34	18	20	26	1.96
43182835--43182902	34	2.0	35	94	2	120	47	10	2	39	1.53
43183969--43183994	7	3.7	7	100	0	52	57	15	0	26	1.38
43185200--43185291	11	8.4	11	77	12	100	45	0	32	21	1.52
43185216--43185291	33	2.3	33	90	4	118	44	0	31	23	1.54
43186125--43186162	13	2.8	14	80	8	51	65	2	0	31	1.06
43204328--43204574	76	3.2	76	97	0	467	43	15	19	21	1.88
43211715--43211885	76	2.2	76	98	0	333	43	14	20	21	1.87
43217859--43217895	11	3.4	11	96	0	65	18	8	43	29	1.79
43218462--43218537	38	2.0	38	92	0	125	50	7	3	38	1.50
43221253--43221293	21	1.9	22	85	5	57	43	19	7	29	1.78
43225533--43225566	14	2.4	14	90	9	52	35	26	0	38	1.57
43231133--43231171	20	2.0	20	84	0	51	25	17	10	46	1.80
43234370--43235166	70	11.4	70	73	5	322	26	18	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43234487--43234817	141	2.4	140	80	5	346	25	19	23	30	1.98
43234759--43235025	139	1.9	139	79	4	297	26	18	20	35	1.95
43236728--43236777	20	2.5	20	86	0	64	26	30	8	36	1.85
43238953--43239270	167	1.9	167	94	0	555	26	17	16	39	1.91
43240268--43240341	16	4.7	16	80	8	71	28	14	4	52	1.60
43252078--43252122	13	3.4	13	82	14	56	26	0	2	71	0.98
43253602--43253649	21	2.3	21	77	0	51	35	31	8	25	1.85
43253644--43253704	21	2.9	21	78	9	54	27	31	16	24	1.96
43254971--43255295	43	7.6	43	89	0	472	26	32	16	23	1.96
43255504--43255541	19	2.0	19	94	0	67	57	2	10	28	1.45

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