genome.fa.s8.2.7.7.80.10.50.1000.50.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  50  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)
20285433--20285478	21	2.2	21	84	7	58	43	2	13	41	1.55
20286099--20286168	34	1.9	38	83	16	96	51	15	5	27	1.66
20290531--20290566	17	2.1	17	89	0	54	11	16	8	63	1.49
20313372--20313412	21	2.0	21	85	9	57	36	2	7	53	1.42
20329211--20329266	27	2.0	28	83	10	71	50	14	5	30	1.65
20331710--20331739	2	15.0	2	100	0	60	50	0	0	50	1.00
20342976--20343013	13	2.9	13	96	0	67	39	26	10	23	1.87
20345490--20345547	20	2.8	21	89	5	91	13	17	17	51	1.76
20345494--20345559	21	3.2	21	86	4	89	15	19	18	46	1.83
20345736--20345781	21	2.2	21	88	3	67	39	4	28	28	1.76
20353907--20353934	12	2.3	12	100	0	56	67	0	0	32	0.91
20358370--20358422	26	2.0	26	85	7	72	45	22	16	15	1.85
20359455--20359588	37	3.4	40	72	14	109	35	24	13	26	1.93
20360905--20360945	21	1.9	22	90	5	66	0	21	2	75	0.92
20360903--20360946	16	2.8	16	82	6	54	0	25	2	72	0.96
20365256--20365327	25	2.8	26	81	6	94	20	25	18	36	1.95
20365256--20365372	25	4.7	25	75	12	87	20	27	18	33	1.96
20365261--20365405	25	5.8	26	77	11	81	22	25	19	32	1.97
20367465--20367509	20	2.2	21	80	11	58	73	0	26	0	0.84
20368258--20368313	25	2.2	25	83	0	67	17	26	19	35	1.94
20369502--20369535	13	2.7	13	95	4	61	61	0	0	38	0.96
20378935--20378966	3	10.7	3	93	0	55	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20379491--20379569	40	2.0	40	97	0	149	32	12	12	41	1.81
20382795--20382835	20	2.0	20	100	0	82	24	12	24	39	1.89
20384012--20384046	3	11.7	3	100	0	70	34	0	34	31	1.58
20386428--20386456	10	3.0	10	95	5	51	31	0	0	68	0.89
20395909--20395942	5	6.8	5	100	0	68	0	41	0	58	0.98
20395909--20395950	15	2.8	15	92	0	57	0	38	2	59	1.10
20406088--20406125	15	2.4	16	82	4	51	34	23	7	34	1.84
20407278--20407319	6	7.0	6	97	0	57	0	0	40	59	0.97
20407278--20407318	12	3.4	12	93	0	64	0	0	41	58	0.98
20426935--20427068	44	3.0	45	91	6	213	33	24	14	27	1.94
20438936--20439010	31	2.4	31	76	8	80	49	6	14	29	1.69
20449841--20449899	29	2.0	30	83	9	77	52	1	1	44	1.21
20460006--20460146	66	2.1	66	100	0	282	36	10	15	36	1.82
20460687--20460736	26	1.9	26	83	0	64	36	20	24	20	1.95
20460693--20460753	26	2.3	26	80	5	70	34	21	26	18	1.96
20471065--20471091	13	2.1	13	100	0	54	55	14	7	22	1.64
20481849--20481900	13	3.7	13	76	18	59	13	25	38	23	1.91
20481862--20481917	17	3.6	16	76	18	64	14	26	35	23	1.93
20481846--20481917	30	2.4	30	97	0	135	13	27	36	22	1.92
20487331--20487378	2	24.0	2	100	0	96	0	50	0	50	1.00
20512616--20512643	2	14.0	2	100	0	56	50	0	50	0	1.00
20518583--20518616	11	3.0	11	86	4	50	20	23	0	55	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20518613--20518718	51	2.1	51	82	3	124	27	24	1	46	1.63
20520025--20521068	522	2.0	522	100	0	2088	24	26	22	27	2.00
20523075--20523179	46	2.3	46	85	1	140	22	19	19	39	1.93
20523266--20523306	19	2.2	19	90	0	64	51	2	12	34	1.52
20524224--20524692	125	3.7	126	88	2	685	28	22	16	32	1.96
20524135--20524692	250	2.3	241	89	3	857	28	22	17	32	1.96
20525222--20525249	6	4.7	6	100	0	56	50	32	0	17	1.47
20540345--20540502	21	7.5	21	66	5	77	17	24	17	41	1.90
20540382--20540463	42	2.0	42	85	0	110	17	26	17	39	1.91
20540344--20540502	63	2.5	63	75	4	160	16	24	16	41	1.89
20541347--20541428	42	2.0	42	80	9	96	15	28	31	24	1.96
20542196--20542305	21	5.3	21	80	2	116	48	15	20	16	1.82
20542196--20542305	42	2.7	42	87	2	152	48	15	20	16	1.82
20547211--20547288	24	3.2	24	78	3	68	5	8	53	32	1.54
20547257--20547338	24	3.4	24	82	0	83	8	6	50	35	1.58
20547235--20547384	60	2.5	60	81	4	169	10	8	51	30	1.64
20547319--20547417	24	4.1	24	72	5	65	12	11	47	29	1.75
20547446--20547499	12	4.4	12	81	11	56	12	0	64	22	1.27
20550420--20550481	30	2.1	30	100	0	124	51	12	9	25	1.70
20555632--20555680	19	2.7	19	87	6	75	46	8	14	30	1.73
20559399--20559628	46	5.0	46	92	1	372	27	27	10	34	1.90
20559399--20559628	91	2.5	92	91	1	372	27	27	10	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20560844--20560891	17	2.9	17	90	3	71	54	18	0	27	1.44
20565454--20565511	29	2.0	29	93	0	98	31	20	6	41	1.79
20574400--20574430	2	15.5	2	100	0	62	51	0	0	48	1.00
20583447--20583506	29	2.0	29	83	6	75	51	16	10	21	1.73
20585717--20585741	13	1.9	13	100	0	50	32	4	24	40	1.73
20586810--20586921	41	2.7	41	84	5	154	24	19	22	33	1.97
20586897--20586937	16	2.6	16	80	0	55	17	21	24	36	1.94
20589515--20589596	25	3.3	26	76	6	71	20	21	14	42	1.88
20589578--20589620	22	2.0	22	90	0	68	13	27	20	37	1.91
20590313--20590424	57	1.9	58	83	1	145	40	17	20	21	1.92
20599540--20600197	326	2.0	326	93	0	1127	25	24	19	30	1.98
20600785--20601049	84	3.2	84	94	0	458	23	26	18	32	1.97
20601774--20601834	17	3.4	17	70	12	59	50	14	3	31	1.59
20601765--20601860	37	2.6	36	91	6	149	48	14	5	31	1.66
20602015--20602042	6	4.7	6	100	0	56	17	0	14	67	1.22
20602043--20602084	5	7.8	5	85	15	57	4	0	54	40	1.21
20602042--20602066	13	1.9	13	100	0	50	12	0	48	40	1.40
20604431--20604627	46	4.6	45	80	12	243	28	22	14	34	1.94
20604517--20604591	37	2.0	37	92	0	123	26	21	14	37	1.92
20604471--20604627	83	1.9	83	90	0	251	29	22	13	34	1.92
20605060--20605271	30	7.1	30	100	0	424	36	36	6	19	1.78
20609117--20609218	51	2.0	51	94	0	177	29	21	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20611546--20611607	21	3.0	21	82	0	79	17	35	11	35	1.86
20614195--20614502	153	2.0	154	99	0	609	46	8	17	27	1.77
20628214--20628335	42	2.9	42	83	2	147	16	20	18	45	1.86
20628327--20628374	21	2.3	21	100	0	96	14	29	18	37	1.91
20629412--20629474	17	3.5	17	69	12	54	49	12	3	34	1.57
20629406--20629477	37	1.9	37	94	0	126	47	15	2	34	1.60
20629607--20629703	39	2.5	39	91	1	151	20	5	24	49	1.69
20629688--20629721	6	5.7	6	100	0	68	17	0	14	67	1.23
20629721--20629745	13	1.9	13	100	0	50	12	0	48	40	1.40
20630790--20630846	21	2.7	21	80	0	78	19	26	15	38	1.92
20646712--20647064	176	2.0	175	85	4	476	16	33	17	32	1.92
20651760--20651797	11	3.5	11	100	0	76	57	0	0	42	0.98
20652245--20652272	3	9.3	3	100	0	56	0	32	0	67	0.91
20668468--20668495	9	3.1	9	100	0	56	46	10	10	32	1.73
20668675--20668735	30	2.0	31	84	9	81	19	36	0	44	1.51
20668816--20668873	17	3.2	17	79	16	55	25	27	0	46	1.53
20669205--20669230	5	5.2	5	100	0	52	23	19	19	38	1.93
20669320--20669350	5	6.2	5	92	0	53	22	19	16	41	1.89
20679389--20679425	1	37.0	1	100	0	74	100	0	0	0	0.00
20680973--20681008	18	2.0	18	94	0	63	25	33	0	41	1.55
20695771--20695976	108	1.9	108	86	2	297	49	6	9	34	1.62
20699587--20699737	33	4.4	33	74	11	126	34	15	23	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20701486--20701529	22	2.0	22	86	0	61	63	2	4	29	1.26
20705863--20705920	5	10.2	6	89	10	63	1	89	0	8	0.55
20705863--20705920	13	4.5	13	86	4	73	1	89	0	8	0.55
20705878--20705921	1	44.0	1	90	0	70	0	95	0	4	0.27
20705865--20705922	6	8.9	7	92	3	79	1	89	0	8	0.55
20708041--20708260	110	2.0	111	99	0	433	36	13	17	32	1.89
20708779--20708813	17	2.1	17	94	0	61	42	11	14	31	1.81
20709146--20709247	40	2.5	40	85	0	132	28	22	18	30	1.97
20712257--20712301	18	2.5	18	100	0	90	42	4	13	40	1.64
20720014--20720068	5	11.2	5	74	18	53	58	1	0	40	1.09

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