genome.fa.s9.2.7.7.80.10.50.1000.11.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  11  of  97  ( 11551 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)
5321892--5321954	24	2.5	24	72	23	58	57	1	1	39	1.18
5321817--5322167	193	1.8	194	89	4	557	52	3	1	42	1.29
5322163--5322204	22	1.9	22	85	0	57	50	7	0	42	1.30
5322137--5322306	53	3.3	53	67	10	152	55	5	1	37	1.32
5322175--5322330	49	3.1	49	67	10	143	53	4	1	40	1.29
5322145--5322356	102	2.1	101	96	0	388	56	5	0	36	1.29
5322192--5322346	49	3.1	49	67	10	150	56	4	1	37	1.28
5322192--5322348	53	3.0	53	67	16	157	57	4	1	36	1.27
5322199--5322363	49	3.3	48	67	12	134	57	4	1	36	1.28
5334098--5334144	22	2.1	22	84	7	60	51	0	0	48	1.00
5346876--5346915	16	2.5	16	100	0	80	40	10	15	35	1.80
5347330--5347379	26	1.9	26	95	0	91	24	12	22	42	1.87
5349410--5349443	17	1.9	18	88	5	52	29	8	0	61	1.26
5349907--5349948	17	2.6	16	77	7	50	30	9	7	52	1.61
5349907--5349944	16	2.3	17	81	4	51	28	10	7	52	1.64
5352261--5352408	80	1.9	80	86	0	215	41	8	16	33	1.78
5353850--5353928	2	40.5	2	80	14	94	46	1	0	50	1.09
5364010--5364065	21	2.8	19	76	10	60	39	1	1	57	1.20
5370436--5370528	5	19.2	5	73	8	68	70	0	0	29	0.87
5370436--5370482	20	2.3	20	100	0	94	70	0	0	29	0.88
5370437--5370538	20	5.0	20	78	14	86	69	0	0	30	0.89
5376255--5376495	120	2.0	120	92	3	405	38	22	9	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376501--5376596	48	2.0	48	93	0	165	39	15	10	34	1.82
5384712--5384748	18	2.1	18	94	0	65	54	8	0	37	1.30
5386204--5386260	21	2.6	22	81	10	73	22	10	21	45	1.82
5386294--5386498	26	8.7	23	76	10	132	36	26	12	24	1.91
5386406--5386607	95	2.1	95	78	3	235	40	22	11	25	1.87
5393805--5393859	26	2.1	26	82	0	65	29	0	5	65	1.15
5395414--5395467	28	2.0	28	89	7	85	66	7	0	25	1.17
5395458--5395497	18	2.2	19	95	4	73	60	0	0	40	0.97
5400526--5400591	33	2.0	33	100	0	132	36	9	9	45	1.68
5405019--5405103	42	2.0	42	86	4	118	34	16	15	34	1.90
5411165--5411228	29	2.2	30	86	13	89	51	0	0	48	1.00
5421489--5421521	2	16.5	2	93	0	57	48	3	0	48	1.17
5432150--5432184	3	11.7	3	87	0	52	65	0	28	5	1.15
5435622--5435647	2	13.0	2	100	0	52	50	0	0	50	1.00
5438755--5438811	25	2.1	29	87	12	86	64	17	8	8	1.46
5446041--5446066	12	2.2	12	100	0	52	38	23	7	30	1.83
5446789--5446825	18	2.1	18	100	0	74	37	10	37	13	1.80
5456526--5456565	21	2.0	20	85	5	53	65	15	20	0	1.28
5480273--5480303	15	2.1	15	94	5	55	51	0	0	48	1.00
5480387--5480461	22	3.2	22	77	19	80	52	0	0	48	1.00
5480385--5480459	8	9.4	8	72	16	66	53	0	0	46	1.00
5493984--5494026	15	2.8	16	82	10	54	69	0	30	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5510594--5510707	51	2.2	49	80	14	124	58	0	1	38	1.14
5511884--5511928	19	2.4	19	96	0	81	60	0	2	37	1.09
5515593--5515679	41	2.1	41	84	0	111	36	2	20	40	1.65
5516228--5516293	23	3.0	22	78	12	64	65	0	6	28	1.17
5518106--5518147	19	2.2	19	87	8	59	66	0	2	30	1.04
5533262--5533328	2	33.5	2	100	0	134	50	0	0	49	1.00
5548503--5548534	12	2.6	13	90	9	50	50	0	37	12	1.41
5550226--5550259	12	2.8	12	90	0	50	50	0	0	50	1.00
5550218--5550257	14	3.0	14	80	20	50	47	0	0	52	1.00
5550216--5550256	16	2.5	17	80	15	50	46	0	0	53	1.00
5552073--5552288	109	1.9	113	79	11	241	32	4	3	59	1.34
5552871--5552932	29	2.1	30	84	6	81	61	3	9	25	1.42
5552868--5552939	29	2.4	29	77	8	74	61	2	8	27	1.39
5560277--5560309	2	16.5	2	100	0	66	51	48	0	0	1.00
5560673--5560700	2	14.0	2	100	0	56	50	0	50	0	1.00
5561131--5561232	31	3.3	31	98	0	195	34	12	15	37	1.86
5585637--5585674	15	2.4	16	86	4	51	42	2	0	55	1.14
5586759--5586802	2	22.5	2	95	4	81	50	0	0	50	1.00
5610611--5610669	16	3.6	16	73	13	57	71	0	1	27	0.96
5611302--5611337	14	2.6	14	90	0	54	61	0	0	38	0.96
5624604--5624636	2	17.0	2	93	6	59	48	0	0	51	1.00
5629674--5629706	15	2.2	15	89	10	50	36	3	0	60	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5629674--5629707	16	2.2	15	89	5	50	38	2	0	58	1.13
5629891--5629952	17	3.9	16	75	12	56	45	0	1	53	1.10
5633710--5633766	29	2.0	29	83	10	73	50	10	15	22	1.74
5638915--5638948	15	2.2	16	89	5	52	50	0	0	50	1.00
5641146--5641192	15	3.0	15	84	12	51	53	2	0	44	1.12
5641148--5641211	22	2.8	22	76	21	69	51	3	0	45	1.17
5646697--5646735	20	2.0	20	84	0	51	23	12	20	43	1.86
5652325--5652377	27	2.0	27	96	0	97	41	11	24	22	1.86
5660444--5660486	20	2.2	20	83	8	52	27	9	11	51	1.69
5668137--5668169	4	8.2	4	100	0	66	75	0	24	0	0.80
5668483--5668565	40	2.1	40	100	0	166	33	12	16	37	1.86
5676554--5676596	17	2.3	18	84	11	52	4	11	0	83	0.78
5677824--5677857	2	17.0	2	100	0	68	50	0	0	50	1.00
5690770--5690794	8	3.1	8	100	0	50	12	0	0	88	0.53
5694896--5694958	31	2.0	31	100	0	126	25	11	28	34	1.90
5718477--5718517	20	2.0	20	85	0	55	46	2	2	48	1.28
5721344--5721423	42	1.9	42	89	0	124	32	15	23	28	1.95
5731307--5732514	38	32.0	38	71	5	307	16	24	16	42	1.88
5732204--5732262	19	3.2	17	76	17	64	10	18	25	45	1.81
5734757--5734789	14	2.3	15	89	5	50	33	6	3	57	1.38
5748397--5748485	45	2.0	45	80	8	101	53	10	3	32	1.51
5748526--5748656	46	2.8	44	73	7	109	49	10	1	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5749138--5749188	26	2.0	26	88	0	75	37	29	5	27	1.80
5751154--5751199	24	2.0	23	82	4	56	45	50	2	2	1.26
5760353--5760400	2	24.5	2	83	12	64	45	2	2	50	1.25
5765584--5765635	21	2.5	20	84	9	68	15	9	63	11	1.52
5776245--5776283	19	2.1	19	85	0	51	53	0	2	43	1.14
5776285--5776352	30	2.3	30	92	0	109	35	1	5	57	1.32
5776539--5776592	24	2.2	23	78	12	54	40	0	3	55	1.17
5776546--5776586	21	2.0	20	85	4	55	48	0	0	51	1.00
5778409--5778448	19	2.2	18	86	4	53	0	27	0	72	0.85
5796933--5796962	2	15.0	2	100	0	60	0	50	0	50	1.00
5799254--5799317	2	32.0	2	87	6	94	48	3	0	46	1.18
5810450--5810485	7	4.9	7	90	10	54	75	0	0	25	0.81
5810439--5810486	15	2.9	16	82	14	62	77	0	0	22	0.78
5810440--5810490	25	2.0	27	88	7	79	76	0	0	23	0.79
5811251--5811280	13	2.2	14	94	5	53	63	0	30	6	1.20
5812191--5812229	20	2.0	20	84	0	51	48	7	7	35	1.61
5816971--5816995	2	12.5	2	100	0	50	0	48	0	52	1.00
5822270--5822316	2	23.5	2	95	0	85	51	2	0	46	1.13
5824238--5824314	39	2.0	40	86	2	111	24	22	15	37	1.93
5829172--5829252	39	2.0	40	83	2	101	22	20	18	38	1.94
5829282--5829350	33	2.1	33	100	0	138	21	46	11	20	1.82
5831118--5831161	15	3.1	15	78	18	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5833039--5833102	11	5.7	11	78	21	55	71	0	0	28	0.86
5833039--5833103	12	5.8	11	77	15	62	72	0	0	27	0.85
5835156--5835209	25	2.2	25	83	6	65	31	11	12	44	1.78
5841898--5841956	27	2.2	27	81	3	66	37	18	15	28	1.91
5841906--5841958	27	2.0	27	88	0	79	33	22	15	28	1.94
5847621--5847649	2	14.5	2	100	0	58	51	0	0	48	1.00
5849381--5849492	22	5.1	21	72	15	84	49	1	6	42	1.38
5851668--5851692	3	8.3	3	100	0	50	68	0	0	32	0.90
5875894--5876006	49	2.3	49	100	0	226	30	30	24	15	1.95
5879966--5880037	20	3.8	20	80	14	89	50	1	2	45	1.25

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