genome.fa.s8.2.7.7.80.10.50.1000.115.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:  48574783

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   

This is table  115  of  135  ( 16172 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)
42201406--42202752	438	3.1	437	87	6	1849	30	16	14	38	1.88
42202556--42202749	95	2.0	95	84	8	248	31	17	14	36	1.91
42201447--42202752	439	3.0	433	83	11	1617	30	16	14	39	1.88
42204357--42204416	3	20.0	3	100	0	120	33	0	0	66	0.92
42206520--42206589	3	23.3	3	89	5	106	30	2	0	67	1.05
42211438--42211468	9	3.6	9	91	8	55	80	0	9	9	0.90
42211438--42211474	8	4.6	8	93	6	58	81	0	8	10	0.89
42212888--42213477	44	13.5	43	69	11	224	30	21	20	27	1.98
42212839--42213434	87	6.8	86	78	9	593	30	20	20	27	1.98
42212839--42213470	175	3.6	175	87	4	954	30	21	20	27	1.98
42213168--42213389	41	5.2	41	68	14	169	30	21	19	28	1.98
42214111--42214425	44	7.2	43	64	18	139	27	24	23	24	2.00
42214059--42214439	88	4.3	88	91	0	627	26	23	24	25	2.00
42214542--42214713	88	2.0	88	88	0	254	27	23	25	23	2.00
42214744--42215025	96	2.9	96	93	0	476	30	18	21	29	1.97
42215035--42215190	44	3.5	44	70	10	147	32	17	21	28	1.96
42215030--42215239	88	2.4	88	93	1	350	33	16	20	29	1.95
42215079--42215230	44	3.5	44	71	8	148	34	16	19	30	1.94
42215245--42215371	44	2.9	44	76	6	123	32	21	19	26	1.97
42215118--42215382	142	1.9	142	87	1	397	32	18	20	28	1.96
42215717--42215749	17	2.0	16	94	5	57	54	36	9	0	1.32
42216695--42217644	110	8.6	110	99	0	1830	31	16	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42219084--42219117	10	3.2	10	91	8	50	0	14	0	85	0.60
42219080--42219119	15	2.7	15	88	3	55	0	15	0	85	0.61
42223120--42223144	13	1.9	13	100	0	50	28	0	0	72	0.86
42225682--42225757	27	2.8	27	91	0	116	26	23	15	34	1.95
42228165--42228217	13	4.1	13	80	9	72	30	5	26	37	1.79
42230058--42230114	19	3.2	19	88	11	77	43	0	0	56	0.99
42230030--42230114	10	8.3	10	75	19	70	40	0	3	56	1.16
42230058--42230114	2	32.5	2	74	25	58	43	0	0	56	0.99
42230058--42230114	7	8.1	8	76	23	58	43	0	0	56	0.99
42239641--42239931	145	2.0	145	99	0	573	26	18	17	38	1.92
42241386--42241416	8	3.9	8	100	0	62	51	0	0	48	1.00
42243890--42243945	2	28.0	2	96	0	103	50	1	0	48	1.11
42244080--42244186	53	2.0	54	98	1	207	22	14	28	35	1.93
42252168--42252217	16	3.2	16	82	2	57	32	6	0	62	1.20
42254207--42254318	42	2.6	44	85	5	149	24	16	26	32	1.96
42260505--42260548	20	2.2	21	84	11	58	34	0	13	52	1.41
42265908--42265933	11	2.4	11	100	0	52	38	7	0	53	1.30
42269155--42269198	22	2.0	22	86	8	63	43	6	25	25	1.79
42273347--42273421	35	2.2	35	90	2	116	24	16	25	34	1.95
42277975--42278046	32	2.2	32	82	0	99	34	9	11	44	1.73
42279175--42279359	92	2.0	93	98	1	363	37	8	8	45	1.66
42281796--42281828	7	4.9	7	92	7	59	30	0	69	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42283569--42283593	2	12.5	2	100	0	50	52	0	48	0	1.00
42285764--42285802	20	2.0	20	90	10	62	17	0	10	71	1.12
42286617--42286641	2	12.5	2	100	0	50	52	0	0	48	1.00
42288846--42288897	21	2.4	21	80	3	59	65	7	0	26	1.20
42289643--42289734	40	2.3	40	94	0	166	27	28	23	20	1.99
42289866--42290085	99	2.2	97	82	7	248	42	2	15	40	1.61
42290464--42290489	11	2.4	11	100	0	52	57	0	0	42	0.98
42290645--42290760	40	2.9	40	82	7	112	25	27	26	20	1.99
42290691--42290782	40	2.3	40	90	0	139	25	22	25	27	2.00
42293081--42293212	69	1.9	67	87	6	194	35	11	9	43	1.74
42295721--42295758	3	12.7	3	100	0	76	34	0	0	65	0.93
42306319--42306520	94	2.1	94	78	7	205	35	15	16	32	1.90
42306491--42306546	20	3.0	20	65	24	59	37	14	12	35	1.84
42309400--42309437	19	2.0	20	85	15	53	52	2	0	44	1.14
42312769--42312816	14	3.4	14	77	11	62	31	0	2	66	1.03
42313430--42313477	14	3.4	14	77	11	62	31	0	2	66	1.03
42312631--42313952	661	2.0	661	100	0	2644	32	13	16	36	1.88
42320060--42320090	3	10.3	3	100	0	62	67	0	0	32	0.91
42321777--42321932	79	2.0	79	93	0	267	44	5	3	46	1.45
42324264--42324324	31	1.9	32	83	3	79	54	4	3	37	1.39
42331536--42331570	16	2.1	17	94	5	63	0	17	0	82	0.66
42331536--42331590	10	5.3	10	77	18	51	0	23	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42331529--42331577	16	2.9	17	85	8	57	2	18	0	79	0.83
42331539--42331588	14	3.6	14	76	12	50	0	26	0	74	0.83
42331664--42331712	23	2.1	23	85	7	64	0	40	0	59	0.98
42331676--42331764	37	2.3	39	83	13	112	0	33	0	66	0.92
42332400--42334105	78	22.1	75	87	5	2017	33	21	16	28	1.96
42337759--42337812	25	2.2	25	82	0	63	24	12	12	50	1.76
42340183--42340229	23	2.0	23	83	0	58	38	4	0	57	1.18
42343128--42343164	15	2.4	16	82	13	51	43	0	13	43	1.44
42343544--42343583	14	2.9	14	84	0	53	32	7	17	42	1.77
42348363--42348400	20	1.9	20	100	0	76	50	21	7	21	1.74
42351915--42352008	27	3.5	27	86	0	125	38	17	18	26	1.92
42352045--42352103	24	2.5	24	80	5	75	20	8	25	45	1.79
42352289--42352491	32	6.4	32	82	2	230	22	18	19	39	1.92
42352289--42352465	96	1.8	96	87	0	264	20	18	20	40	1.92
42356255--42356310	25	2.3	25	87	6	80	67	3	0	28	1.07
42357804--42358091	128	2.2	132	78	8	313	28	23	19	28	1.98
42357893--42358400	44	11.7	43	68	15	151	27	24	19	27	1.99
42357900--42358482	217	2.7	217	90	1	891	28	24	19	27	1.99
42362795--42363038	119	2.0	121	96	1	456	55	4	22	16	1.60
42364115--42364215	45	2.2	45	87	0	139	17	17	21	42	1.89
42364198--42364222	6	4.2	6	100	0	50	16	16	16	52	1.76
42365311--42365353	17	2.5	17	92	0	68	44	13	6	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42367134--42367185	27	2.0	26	84	3	68	0	30	13	55	1.38
42380282--42380314	9	3.7	9	88	12	50	60	0	0	39	0.97
42380254--42380305	22	2.5	19	75	19	50	55	0	5	38	1.24
42380173--42380336	51	3.1	50	71	11	125	51	2	8	37	1.46
42380173--42380336	53	3.1	52	72	11	138	51	2	8	37	1.46
42380437--42380493	3	19.0	3	82	7	71	63	5	1	29	1.27
42395138--42395205	27	2.6	27	81	9	70	25	23	0	51	1.48
42395158--42395206	18	2.6	18	87	6	62	22	24	0	53	1.47
42400302--42400443	27	5.3	27	75	0	86	32	25	6	35	1.81
42401393--42401428	2	18.0	2	94	0	63	47	0	0	52	1.00
42403221--42403251	11	2.8	11	90	0	53	19	0	6	74	1.03
42407507--42407551	20	2.2	20	84	7	56	11	31	28	28	1.91
42410221--42410263	22	2.0	22	95	0	77	51	9	16	23	1.73
42413547--42413600	26	2.0	27	89	3	83	51	12	18	16	1.75
42417140--42417179	18	2.2	19	86	4	55	32	12	7	47	1.69
42423143--42423192	25	2.0	25	96	0	91	40	6	4	50	1.46
42431745--42431901	73	2.1	74	80	5	176	20	26	21	32	1.97
42431879--42431931	24	2.2	23	83	9	70	15	20	22	41	1.89
42431941--42431988	25	1.9	25	86	0	69	27	25	12	35	1.92
42432670--42432722	24	2.2	23	83	9	70	15	20	22	41	1.89
42432732--42432779	25	1.9	25	86	0	69	27	25	12	35	1.92
42433612--42433751	26	5.7	24	74	16	101	17	25	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42433797--42433866	25	2.8	25	80	0	77	18	25	20	35	1.95
42437363--42437387	13	1.9	13	100	0	50	64	4	8	24	1.38
42442608--42442648	14	3.1	14	80	20	61	48	0	9	41	1.36
42443053--42443121	27	2.5	29	81	15	92	40	10	1	47	1.46
42443185--42443263	27	2.9	27	86	3	106	29	24	30	16	1.96
42443337--42443406	19	3.7	19	78	3	88	38	8	0	52	1.32
42443342--42443412	37	1.9	37	97	0	133	40	9	0	49	1.36
42443676--42443736	19	3.2	19	73	13	70	50	0	11	37	1.39
42443919--42443959	19	2.1	19	86	4	55	53	0	9	36	1.34
42444026--42444096	27	2.6	27	88	0	97	16	29	23	29	1.97

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