genome.fa.s8.2.7.7.80.10.50.1000.29.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  29  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)
11458563--11458619	27	2.1	26	84	12	71	35	1	1	61	1.17
11459202--11459248	20	2.6	18	78	21	53	34	4	0	61	1.15
11459800--11459868	22	3.3	20	78	9	68	39	0	7	53	1.29
11465966--11466046	14	6.3	14	72	18	68	48	6	3	41	1.46
11466521--11466577	29	2.0	29	82	6	71	50	1	1	45	1.22
11472725--11472752	14	2.0	14	100	0	56	35	7	21	35	1.81
11479255--11479354	41	2.5	40	82	6	116	33	25	16	26	1.96
11480233--11480289	4	14.0	4	82	14	64	1	19	1	77	0.95
11480234--11480287	19	2.9	18	83	8	65	1	18	1	77	0.95
11480330--11480385	20	2.9	19	80	17	62	50	5	0	44	1.25
11493350--11493376	2	13.5	2	100	0	54	51	0	0	48	1.00
11495368--11495410	20	2.1	21	86	4	61	48	11	0	39	1.40
11500872--11500905	18	1.9	18	88	5	52	32	14	11	41	1.82
11521637--11521676	21	1.9	21	85	10	55	32	0	0	67	0.91
11525603--11525666	32	2.1	32	82	11	80	48	10	0	40	1.38
11530484--11530709	96	2.3	96	83	5	260	42	3	14	39	1.61
11530750--11531050	126	2.4	126	89	0	449	32	18	21	26	1.97
11532468--11532666	107	1.9	107	94	2	355	30	18	18	33	1.94
11537752--11537983	46	5.0	46	88	2	340	37	9	24	28	1.87
11539809--11539856	21	2.3	21	78	7	53	6	18	39	35	1.76
11541985--11542030	11	4.1	11	85	2	56	47	0	26	26	1.52
11541982--11542041	22	2.7	21	82	12	68	48	0	26	25	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11541991--11542039	12	4.2	12	82	17	59	46	0	28	24	1.53
11578279--11578307	3	9.7	3	100	0	58	34	0	0	65	0.93
11596647--11596911	132	2.0	133	99	0	523	36	10	20	31	1.87
11603245--11603297	5	10.8	5	97	2	99	41	0	0	58	0.98
11603348--11603391	17	2.6	18	78	10	56	65	2	25	6	1.28
11603383--11603410	14	2.0	14	100	0	56	85	0	14	0	0.59
11604066--11604112	24	2.0	23	84	12	60	36	0	14	48	1.44
11616283--11616315	16	2.0	17	94	5	59	48	0	0	51	1.00
11618686--11618766	39	2.0	40	97	2	155	27	34	16	22	1.95
11633673--11633731	27	2.2	27	81	6	66	57	16	10	15	1.64
11644397--11644486	42	2.2	40	84	4	108	65	13	1	20	1.32
11645790--11645827	18	2.2	17	86	9	51	21	7	2	68	1.28
11648496--11648558	22	2.9	22	82	0	72	34	17	30	17	1.93
11648542--11648596	25	2.2	25	90	0	83	36	21	25	16	1.94
11682080--11682109	15	2.0	15	100	0	60	53	0	0	46	1.00
11683203--11683232	15	2.0	15	100	0	60	53	0	0	46	1.00
11686713--11686761	26	1.9	26	87	4	73	73	14	10	2	1.18
11689404--11689482	27	2.9	27	96	0	140	16	20	39	24	1.92
11689582--11689687	27	4.1	27	83	11	150	50	14	0	33	1.49
11689582--11689745	49	3.6	49	76	16	195	53	12	0	33	1.44
11689582--11689738	19	7.0	21	69	25	90	54	12	0	32	1.43
11689663--11689740	20	3.8	20	81	8	86	55	11	0	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11690004--11690036	15	2.1	16	88	5	50	39	0	0	60	0.97
11694243--11694285	19	2.3	19	80	4	52	39	2	0	58	1.11
11696230--11697183	475	2.0	475	99	0	1901	37	16	7	38	1.77
11698702--11699022	159	2.0	160	99	0	635	34	9	13	42	1.77
11706497--11706537	21	2.0	20	90	9	66	39	4	0	56	1.21
11707598--11707739	47	3.1	47	61	25	115	43	10	10	35	1.74
11707560--11707738	88	2.0	89	98	1	351	43	10	8	37	1.70
11719875--11719899	12	2.1	12	100	0	50	48	0	20	32	1.50
11720343--11720368	1	26.0	1	100	0	52	100	0	0	0	0.00
11722354--11722387	4	8.5	4	100	0	68	23	0	0	76	0.79
11725379--11725411	2	16.0	2	93	6	57	48	0	48	3	1.17
11727313--11727356	1	44.0	1	81	0	52	4	0	90	4	0.53
11730240--11730281	21	1.9	23	85	9	61	57	14	2	26	1.50
11730842--11730885	17	2.4	18	79	20	56	36	0	4	59	1.18
11731289--11731323	3	11.7	3	100	0	70	65	0	0	34	0.93
11731406--11731440	3	11.7	3	100	0	70	65	0	0	34	0.93
11731266--11731501	117	2.0	119	98	1	458	46	5	11	36	1.63
11751969--11752154	93	2.0	93	100	0	372	50	12	20	16	1.77
11760108--11760158	24	2.1	24	96	0	93	37	15	25	21	1.93
11760208--11760263	26	2.2	26	87	6	78	37	16	26	19	1.92
11767396--11767453	21	2.8	21	79	10	73	17	20	13	48	1.81
11768946--11769093	57	2.5	59	83	9	185	22	23	22	31	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11771972--11772130	78	2.0	79	98	1	311	36	3	21	38	1.72
11782232--11782266	6	5.8	6	96	0	52	22	0	45	31	1.53
11793983--11794041	31	1.9	31	92	0	100	22	18	3	55	1.57
11794134--11794200	22	3.0	22	76	8	57	41	17	22	17	1.90
11795155--11795263	51	2.1	52	96	3	202	29	12	26	31	1.93
11798397--11798431	13	2.6	14	81	9	54	0	25	2	71	1.00
11800610--11800649	16	2.4	17	83	8	55	30	0	0	70	0.88
11816109--11816150	17	2.5	16	88	7	57	16	11	0	71	1.14
11816660--11816710	25	2.1	25	85	3	68	49	1	3	45	1.32
11818592--11818623	16	1.9	17	93	6	57	31	31	18	18	1.95
11829477--11829514	17	2.2	17	95	0	67	78	0	7	13	0.94
11838347--11838376	16	1.9	15	93	6	51	0	10	0	90	0.47
11839315--11839360	22	2.1	22	88	8	67	65	2	4	28	1.23
11842416--11842580	88	1.9	88	100	0	330	35	8	21	34	1.84
11843300--11843338	18	2.2	17	86	13	53	33	0	20	46	1.51
11850148--11850279	40	3.4	39	75	7	133	25	17	25	32	1.97
11879189--11879232	19	2.2	20	80	11	56	68	4	4	22	1.27
11880169--11880235	9	7.4	9	91	0	98	23	11	25	38	1.89
11883218--11883293	37	2.1	37	92	5	127	27	13	22	36	1.91
11889640--11889664	12	2.1	12	100	0	50	24	36	24	16	1.94
11889827--11889897	9	7.9	9	87	0	97	35	26	9	28	1.88
11889827--11889901	27	2.8	27	91	0	123	34	25	9	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11890171--11890302	36	3.6	36	74	8	147	55	18	4	21	1.60
11890155--11890307	76	2.0	77	98	1	299	52	16	7	23	1.69
11893650--11894206	81	7.1	81	71	12	300	32	47	6	13	1.70
11893669--11895317	39	42.3	39	70	13	438	32	46	7	13	1.71
11893625--11893743	60	2.0	60	85	3	159	31	47	8	13	1.73
11893710--11893896	21	9.3	21	66	16	92	34	47	4	13	1.65
11893750--11894473	60	12.1	60	70	16	260	32	47	6	13	1.69
11893849--11893928	18	4.3	18	69	12	54	37	46	5	11	1.62
11893921--11894914	96	10.0	96	73	14	526	31	46	7	13	1.72
11893941--11894305	120	3.0	119	74	10	391	32	48	6	12	1.67
11894260--11894395	72	1.9	72	87	0	200	32	47	8	12	1.71
11894465--11894572	57	1.9	56	88	3	155	30	48	8	12	1.71
11894541--11894668	60	2.1	60	85	0	166	27	46	10	15	1.78
11894581--11894668	21	4.3	21	68	8	56	25	46	12	15	1.81
11894445--11895317	156	5.6	155	75	8	619	31	47	7	13	1.71
11894317--11894888	195	3.0	195	88	2	834	30	46	8	13	1.74
11894736--11894863	60	2.1	60	79	2	132	27	49	7	15	1.72
11894877--11894933	18	2.9	21	66	15	57	31	47	5	15	1.68
11894856--11895451	99	6.1	99	74	9	368	32	46	7	13	1.71
11895051--11895295	21	12.4	21	66	10	88	33	49	5	11	1.62
11894976--11895137	57	2.8	59	85	8	217	32	49	7	10	1.65
11895051--11895295	60	4.1	60	80	2	255	33	49	5	11	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11895329--11895466	39	3.5	39	80	2	143	31	44	6	17	1.74
11909616--11909668	13	4.1	13	76	9	54	35	30	5	28	1.80
11920655--11920695	21	2.0	21	85	0	55	9	0	39	51	1.35
11920775--11921212	125	3.5	125	93	0	743	30	17	23	28	1.97
11927915--11927944	6	5.0	6	91	0	51	20	0	46	33	1.51
11927930--11928009	21	3.8	20	85	11	106	23	0	31	45	1.54
11928051--11928215	22	7.0	22	71	16	125	27	0	27	43	1.59
11927946--11928222	100	2.7	102	86	6	339	26	1	29	42	1.62
11928219--11928268	21	2.3	21	86	13	75	24	0	30	46	1.53
11928059--11928222	50	3.3	50	99	0	319	27	0	28	43	1.55

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