genome.fa.s8.2.7.7.80.10.50.1000.27.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  27  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)
10506766--10506812	22	2.0	24	84	8	62	21	10	12	55	1.67
10512988--10513070	28	3.0	28	80	3	96	39	8	1	50	1.40
10519118--10519394	136	2.0	137	97	2	529	36	20	14	28	1.92
10524155--10524221	6	11.2	6	72	12	57	16	2	4	76	1.08
10526945--10527013	25	2.9	23	77	14	59	20	4	0	75	0.97
10526944--10527004	7	7.9	7	73	20	50	19	3	0	77	0.91
10526943--10527008	8	8.2	8	73	9	55	19	3	0	77	0.90
10526943--10527008	15	4.1	16	72	20	57	19	3	0	77	0.90
10533355--10533428	37	2.0	37	97	0	139	21	36	10	31	1.88
10539562--10539600	14	2.8	14	84	0	51	43	15	7	33	1.75
10539956--10540009	23	2.3	24	78	15	60	46	3	5	44	1.44
10544195--10544241	21	2.2	21	88	7	69	61	0	2	36	1.08
10544202--10544248	20	2.2	20	88	7	67	57	0	2	40	1.11
10544226--10544274	19	2.7	18	81	12	55	53	2	0	44	1.12
10544192--10544262	19	3.5	20	79	11	74	57	0	1	40	1.07
10544238--10544274	19	2.0	18	89	5	56	54	2	0	43	1.14
10545172--10545204	16	2.2	15	89	10	50	18	3	15	63	1.43
10545936--10545989	18	2.9	19	78	8	58	42	16	0	40	1.48
10547226--10547292	27	2.5	27	80	0	71	32	23	17	25	1.97
10549585--10549656	2	37.0	2	86	5	103	0	54	0	45	0.99
10550345--10550387	17	2.5	17	88	0	68	55	6	0	37	1.27
10551599--10551647	25	2.0	25	87	0	71	26	26	4	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10583955--10583995	20	2.0	20	90	9	66	26	7	4	60	1.43
10584085--10584113	1	29.0	1	100	0	58	100	0	0	0	0.00
10584086--10584163	39	2.0	39	92	0	129	70	12	3	12	1.30
10594686--10594720	13	2.7	13	95	0	61	45	2	14	37	1.59
10596831--10596887	27	2.1	27	83	9	71	61	1	1	35	1.17
10598176--10598210	16	2.1	18	89	10	56	62	8	0	28	1.24
10608502--10609088	293	2.0	292	98	1	1140	39	21	19	19	1.92
10610142--10610185	20	2.3	18	84	7	52	20	11	11	56	1.64
10611239--10611342	41	2.5	41	95	0	181	22	29	23	25	1.99
10617768--10618112	171	2.0	172	98	0	674	29	13	16	41	1.86
10629057--10629112	25	2.2	25	83	3	67	48	10	14	26	1.76
10629057--10629112	26	2.2	26	83	6	69	48	10	14	26	1.76
10630422--10630486	30	2.2	30	86	10	89	36	4	3	55	1.36
10631645--10631688	22	2.0	22	81	4	52	36	2	6	54	1.40
10634437--10634692	127	2.0	127	100	0	512	48	17	8	25	1.76
10635277--10635349	33	2.2	33	97	2	139	32	0	35	31	1.58
10648577--10648602	12	2.2	12	100	0	52	30	23	19	26	1.98
10653510--10653546	20	1.9	20	88	5	58	48	0	2	48	1.15
10655092--10655129	18	2.1	18	85	9	51	44	0	0	55	0.99
10655090--10655133	19	2.4	19	81	14	56	43	0	0	56	0.99
10657912--10658337	127	3.4	125	87	4	592	30	16	22	30	1.96
10661503--10661642	21	6.7	21	77	3	140	25	2	27	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10661503--10661650	64	2.4	63	81	4	165	25	2	27	44	1.67
10661529--10661630	43	2.4	42	90	3	159	25	1	25	47	1.63
10662973--10663009	9	4.1	9	89	0	56	32	8	13	45	1.73
10663185--10663219	18	1.9	18	88	0	52	42	8	28	20	1.81
10664956--10665014	11	5.4	11	69	15	50	45	0	32	22	1.52
10664960--10665018	23	2.7	21	90	10	100	47	0	28	23	1.52
10664960--10665016	10	5.3	10	76	15	60	47	0	29	22	1.52
10683095--10683149	27	2.1	27	86	10	78	40	1	3	54	1.28
10689317--10689364	25	1.9	25	87	8	71	37	22	8	31	1.84
10698357--10698390	2	17.0	2	100	0	68	50	0	0	50	1.00
10698418--10698475	24	2.5	24	75	8	66	68	5	8	17	1.33
10704695--10705002	168	1.8	169	87	5	464	20	25	4	50	1.66
10705128--10705170	11	3.8	11	80	17	52	65	2	2	30	1.18
10720213--10720276	30	2.1	30	100	0	128	12	18	14	54	1.70
10723064--10723113	26	1.9	26	91	0	82	34	10	26	30	1.89
10734672--10734930	121	2.1	122	97	2	493	46	5	5	42	1.49
10734672--10734982	121	2.6	118	88	6	337	45	6	4	44	1.50
10736081--10736113	13	2.4	14	90	5	50	57	0	3	39	1.14
10736798--10738146	674	2.0	674	100	0	2698	40	14	16	28	1.88
10739256--10739317	19	3.0	20	81	18	65	33	0	3	62	1.11
10746325--10746492	71	2.4	71	93	0	300	27	18	16	38	1.92
10751853--10752082	114	2.0	116	98	1	446	39	0	9	50	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10753925--10753966	19	2.2	19	83	8	50	33	0	2	64	1.07
10763647--10763698	26	2.0	27	85	11	72	0	32	1	65	1.04
10763903--10763945	13	3.3	13	81	12	52	58	2	0	39	1.11
10764659--10764785	66	2.0	60	91	8	200	23	14	23	33	1.92
10764747--10764956	50	4.3	50	81	11	265	32	13	24	29	1.93
10764847--10764952	44	2.4	44	85	3	151	32	13	24	30	1.93
10777678--10777721	22	2.0	22	90	0	70	47	6	6	38	1.57
10780445--10780475	3	10.3	3	92	0	53	32	38	0	29	1.57
10781445--10781469	2	12.5	2	100	0	50	52	0	0	48	1.00
10784989--10785623	318	2.0	317	98	0	1225	41	16	14	27	1.88
10798578--10798602	2	12.5	2	100	0	50	48	0	0	52	1.00
10800776--10800817	21	2.0	21	95	0	75	35	9	26	28	1.88
10808871--10809036	87	1.9	87	97	0	314	31	6	30	31	1.82
10856301--10856338	20	1.9	20	88	0	58	28	5	13	52	1.61
10859850--10859891	20	2.1	20	86	0	57	47	0	7	45	1.30
10864808--10864849	20	2.1	20	86	0	57	47	0	7	45	1.30
10867914--10868159	50	4.9	50	90	0	384	19	31	22	26	1.98
10868486--10868542	30	1.9	30	88	0	87	31	21	5	42	1.75
10870613--10870855	41	5.9	41	99	0	477	26	22	24	27	2.00
10873605--10873634	11	2.7	11	89	0	51	16	0	23	60	1.36
10885050--10885112	31	2.0	31	93	0	108	36	1	7	53	1.40
10885056--10885136	31	2.7	29	83	10	85	33	2	9	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10886081--10886116	3	12.0	3	100	0	72	66	0	0	33	0.92
10888755--10888792	3	12.7	3	100	0	76	34	0	0	65	0.93
10900532--10900570	19	2.1	19	100	0	78	15	15	20	48	1.81
10904204--10904448	124	2.0	124	97	0	463	44	16	11	26	1.82
10925959--10926000	3	13.7	3	90	5	66	33	0	0	66	0.92
10929479--10929537	27	2.2	28	81	6	68	40	5	6	47	1.52
10935621--10935656	17	2.1	18	89	5	56	58	5	5	30	1.44
10938957--10939024	26	2.7	25	77	6	66	33	22	26	17	1.96
10938977--10939032	26	2.2	26	80	6	60	33	23	28	14	1.94
10949490--10949543	21	2.5	22	84	6	65	57	1	3	37	1.27
10949517--10949599	39	2.1	39	93	0	139	65	0	1	33	1.01
10949526--10949594	11	6.6	11	76	20	69	60	0	1	37	1.06
10968504--10968569	20	3.3	20	81	8	73	53	4	1	40	1.31
10968498--10968562	19	3.4	19	78	6	69	56	4	1	36	1.29
10968515--10968587	27	2.7	26	82	14	78	53	2	1	42	1.23
10983465--10983633	84	2.0	84	92	0	284	52	8	14	24	1.69
10983736--10983783	21	2.3	21	85	3	71	39	2	27	31	1.68
10987454--10987515	29	2.1	29	82	5	72	33	12	24	29	1.92
10993003--10993145	36	3.9	36	94	1	232	44	9	18	27	1.79
10995765--10995895	57	2.4	54	83	10	158	35	18	13	32	1.90
10996327--10996367	21	1.9	22	85	5	57	46	9	9	34	1.70
11019014--11019779	382	2.0	383	99	0	1516	49	7	17	24	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11027874--11027954	39	2.0	40	97	2	155	45	23	17	13	1.84
11027890--11027954	22	3.2	22	62	20	59	46	24	16	12	1.82
11033915--11033954	13	3.0	13	82	7	53	42	12	2	42	1.56
11037646--11037680	1	35.0	1	94	0	61	97	2	0	0	0.19
11046081--11046117	20	1.9	20	94	5	67	43	2	8	45	1.47
11051600--11051680	39	2.1	38	97	2	153	28	13	19	38	1.90
11068025--11068067	13	3.2	13	80	12	52	60	6	0	32	1.23
11081930--11082214	138	2.1	139	98	0	554	38	7	7	46	1.61
11088380--11088405	2	13.0	2	100	0	52	50	0	0	50	1.00
11091198--11091242	7	6.6	7	97	2	83	57	0	0	42	0.98

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