genome.fa.s9.2.7.7.80.10.50.1000.16.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   

This is table  16  of  131  ( 15627 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)
5467865--5467889	13	1.9	13	100	0	50	0	0	20	80	0.72
5467815--5467922	11	9.9	10	69	17	56	0	15	5	78	0.92
5473870--5473900	9	3.4	9	100	0	62	67	9	0	22	1.19
5473866--5473897	9	3.4	10	91	8	50	68	9	0	21	1.17
5473864--5473911	18	2.7	18	78	12	62	68	8	0	22	1.16
5476993--5477048	21	2.7	20	83	8	76	12	19	19	48	1.80
5485391--5485426	16	2.2	17	90	5	56	25	2	5	66	1.27
5486396--5486592	98	2.0	98	97	0	376	27	14	14	43	1.84
5486802--5486968	54	3.1	54	97	1	309	37	16	11	35	1.84
5496144--5496405	127	2.1	127	97	0	497	33	20	20	24	1.97
5500731--5500757	10	2.7	10	100	0	54	74	0	7	18	1.05
5508948--5508989	20	2.1	20	86	0	57	47	0	7	45	1.30
5511016--5511055	13	2.9	14	82	17	57	67	5	5	22	1.30
5511359--5511424	9	7.2	9	86	10	98	21	10	30	37	1.87
5511359--5511424	20	3.6	18	87	8	98	21	10	30	37	1.87
5512676--5512961	19	14.7	21	94	2	143	38	16	9	36	1.80
5512676--5512733	22	2.6	22	81	7	64	41	17	5	36	1.72
5512712--5512974	19	13.8	19	99	0	517	36	15	10	36	1.82
5516369--5516652	144	2.0	144	94	1	498	35	16	9	38	1.81
5522085--5522323	119	2.0	119	91	1	390	26	11	25	35	1.91
5522926--5522966	20	2.0	21	86	9	59	34	4	17	43	1.70
5524950--5525043	41	2.3	42	87	5	138	19	23	15	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5524969--5525032	21	3.1	21	67	10	60	18	21	15	43	1.87
5525024--5525064	21	2.0	21	100	0	82	19	29	17	34	1.94
5528950--5529007	3	19.3	3	74	0	53	31	1	5	62	1.27
5534773--5534813	19	2.3	17	87	8	55	26	4	2	65	1.25
5534890--5534938	19	2.5	20	80	9	57	38	2	0	59	1.09
5550081--5550346	132	2.0	133	99	0	525	33	16	6	43	1.72
5553410--5553451	20	2.1	20	86	0	57	47	0	7	45	1.30
5557778--5557819	22	1.9	22	90	9	68	71	7	2	19	1.20
5560297--5560326	2	15.5	2	93	6	53	50	0	0	50	1.00
5567570--5567615	23	2.0	23	86	0	65	34	28	26	10	1.90
5572056--5572101	23	2.0	23	91	0	74	32	28	28	10	1.91
5575390--5575443	20	2.7	20	83	13	67	38	0	3	57	1.17
5590159--5590222	24	2.7	24	87	2	94	25	42	12	20	1.87
5591226--5591260	15	2.3	15	100	0	70	51	5	20	22	1.68
5603809--5603854	24	2.0	24	86	4	67	47	4	21	26	1.69
5604031--5604150	36	3.3	36	90	0	195	45	25	10	18	1.80
5604083--5604145	20	3.3	20	65	24	55	47	23	7	20	1.76
5607397--5607482	42	2.1	41	93	2	145	20	18	19	40	1.91
5611644--5611673	9	3.3	9	95	0	51	40	10	10	40	1.72
5626603--5626672	27	2.7	25	78	8	68	32	20	25	21	1.97
5626603--5626694	25	3.6	25	77	8	78	31	20	26	21	1.98
5626734--5626794	24	2.5	25	81	2	79	36	21	24	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5626746--5626792	25	1.9	24	91	4	76	40	21	23	14	1.90
5628941--5629016	26	2.9	26	82	7	91	30	18	11	39	1.87
5631751--5631780	15	2.0	15	100	0	60	66	6	0	26	1.16
5632927--5632960	14	2.3	15	90	5	52	8	17	32	41	1.80
5633296--5633813	267	1.9	267	86	1	743	27	23	20	28	1.99
5633890--5634025	44	3.1	44	71	12	134	27	26	19	26	1.99
5638889--5638946	29	2.0	29	96	0	107	34	15	10	39	1.81
5646016--5646064	13	3.6	13	79	17	55	71	4	2	22	1.13
5646606--5646638	16	2.1	16	100	0	66	66	6	0	27	1.15
5647788--5647821	14	2.3	15	90	5	52	8	17	32	41	1.80
5655281--5655313	16	2.0	17	88	5	50	48	6	9	36	1.60
5668448--5668485	20	1.9	20	94	0	67	36	26	26	10	1.89
5669264--5669326	21	3.2	18	78	17	56	71	0	7	20	1.11
5670252--5670370	39	3.0	39	83	2	139	16	16	26	39	1.90
5674390--5674635	122	2.0	122	97	1	467	44	11	16	27	1.82
5674790--5674850	29	2.0	30	93	6	106	47	0	14	37	1.45
5681808--5681890	11	7.5	11	78	8	96	3	1	33	61	1.21
5681810--5681892	35	2.5	31	84	9	103	3	2	32	61	1.26
5681811--5681890	21	3.6	22	85	8	117	3	1	32	62	1.21
5681931--5682021	41	2.2	42	78	5	105	18	2	12	67	1.33
5682342--5682384	22	2.0	22	86	9	61	30	4	4	60	1.37
5686195--5686293	49	2.0	49	100	0	198	55	8	14	22	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5690249--5690405	71	2.2	71	96	0	287	36	16	9	36	1.81
5703996--5704022	14	1.9	14	100	0	54	14	0	3	81	0.82
5712364--5712388	2	12.5	2	100	0	50	48	0	0	52	1.00
5714632--5714663	2	16.0	2	93	0	55	50	3	0	46	1.17
5716497--5716526	2	15.0	2	92	0	51	46	0	3	50	1.18
5719194--5719229	2	18.0	2	100	0	72	50	0	0	50	1.00
5719315--5719350	2	18.0	2	100	0	72	50	0	0	50	1.00
5737140--5737473	100	3.3	100	83	5	379	28	17	25	28	1.98
5737140--5737473	51	6.6	50	75	7	291	28	17	25	28	1.98
5737140--5737507	202	1.8	202	79	5	431	29	17	25	27	1.97
5740180--5740476	50	5.8	50	79	5	240	23	26	21	28	1.99
5744070--5744104	18	1.9	18	88	0	52	42	20	0	37	1.52
5746316--5746407	29	3.2	29	83	6	98	19	30	23	26	1.98
5747292--5747360	36	1.9	36	82	5	86	21	17	21	39	1.93
5750996--5751075	30	2.6	30	80	11	83	48	1	5	45	1.32
5774568--5774606	20	1.9	21	84	5	53	61	20	17	0	1.34
5776979--5777004	12	2.2	12	100	0	52	61	0	0	38	0.96
5779942--5779972	15	2.1	15	93	0	53	29	29	6	35	1.82
5780595--5780733	72	2.0	68	90	5	215	35	12	9	41	1.76
5785569--5785627	10	6.3	10	75	15	54	66	3	0	30	1.08
5785569--5785618	18	2.8	18	87	0	64	68	4	0	28	1.08
5785582--5785637	28	2.0	28	85	3	76	69	1	0	28	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5785740--5785769	11	2.7	11	89	0	51	33	0	10	56	1.32
5788232--5788274	22	1.9	23	90	4	70	41	4	23	30	1.74
5788660--5788720	29	2.1	29	85	11	81	60	0	3	36	1.13
5792523--5792598	9	8.4	9	79	0	89	26	14	21	38	1.91
5792538--5792598	27	2.3	27	94	0	104	24	14	22	37	1.92
5794199--5794266	25	2.6	27	86	13	97	26	27	7	38	1.83
5800137--5800280	72	2.0	72	93	0	243	27	8	18	45	1.78
5800330--5800414	32	2.6	33	77	5	93	44	18	10	25	1.82
5800391--5800467	14	5.0	15	71	20	52	42	15	9	32	1.78
5800407--5800446	20	2.0	20	90	0	62	50	12	10	27	1.72
5800395--5800461	34	1.9	35	90	3	109	46	13	8	31	1.74
5800430--5800469	14	2.9	14	84	0	53	42	17	7	32	1.77
5817296--5817342	20	2.3	21	78	14	53	46	2	4	46	1.34
5825588--5825671	35	2.4	35	85	0	114	36	33	13	16	1.87
5827894--5827997	50	2.1	50	94	0	181	32	19	21	26	1.97
5835075--5835732	44	15.0	44	84	4	855	33	22	12	32	1.91
5835079--5835730	88	7.4	88	92	2	1103	33	22	12	31	1.91
5836980--5837028	21	2.3	21	89	6	73	14	16	0	69	1.19
5836980--5837028	7	7.0	7	82	17	66	14	16	0	69	1.19
5839932--5839975	19	2.3	20	84	7	56	38	9	22	29	1.85
5844936--5844965	15	2.0	15	93	0	51	30	0	6	63	1.20
5845675--5845733	22	2.6	24	74	17	63	42	3	0	54	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5846761--5847023	131	2.0	132	99	0	519	36	9	6	47	1.64
5849579--5849637	28	2.1	28	84	9	77	42	0	10	47	1.37
5849579--5849653	28	2.7	28	80	13	68	38	1	9	50	1.43
5850389--5850429	20	2.0	20	100	0	82	31	19	9	39	1.84
5851565--5851616	11	4.9	11	73	17	56	55	0	1	42	1.10
5851565--5851646	31	2.7	31	85	9	98	58	1	2	37	1.19
5851586--5851647	14	4.5	14	71	18	58	61	1	3	33	1.22
5851790--5851881	46	2.0	46	97	0	175	35	21	4	38	1.74
5852067--5852106	2	20.0	2	94	0	71	47	2	0	50	1.14
5861637--5861807	44	3.9	45	71	15	151	28	15	22	33	1.94

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