genome.fa.s2.2.7.7.80.10.50.1000.19.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   136   137   138   139   140   141   142   143   144   
          145   

This is table  19  of  145  ( 17348 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)
5991242--5991281	19	2.0	20	85	4	55	52	5	10	32	1.56
5991666--5991727	3	20.7	3	100	0	124	66	0	0	33	0.92
6005094--6005203	57	1.9	57	84	0	148	33	20	9	36	1.85
6012051--6012104	27	2.0	27	96	0	99	29	3	38	27	1.74
6025545--6025569	13	1.9	13	100	0	50	0	12	0	88	0.53
6032024--6032090	11	6.4	11	74	19	54	38	4	0	56	1.19
6032008--6032100	41	2.3	40	92	3	159	34	3	0	62	1.11
6045107--6045142	6	6.0	6	96	0	63	0	19	33	47	1.50
6064084--6064164	42	1.9	42	100	0	162	69	2	12	16	1.30
6069806--6069830	12	2.1	12	100	0	50	24	8	0	68	1.16
6077258--6077411	45	3.5	44	74	10	143	35	15	24	25	1.94
6077230--6077843	89	6.9	89	73	8	482	29	17	24	28	1.97
6077230--6077536	44	6.9	44	75	4	294	31	16	24	28	1.96
6077667--6077800	44	3.0	44	77	5	153	31	15	26	26	1.96
6077673--6077827	44	3.5	43	77	4	139	27	16	25	30	1.96
6079397--6079444	25	2.0	25	83	4	62	37	4	0	58	1.18
6087506--6087556	19	2.6	20	84	9	61	66	1	3	27	1.20
6088104--6088137	6	5.7	6	100	0	68	85	0	14	0	0.60
6093810--6093838	3	9.7	3	100	0	58	68	31	0	0	0.89
6093900--6093938	20	2.0	21	85	10	55	66	10	0	23	1.22
6094001--6094025	3	8.3	3	100	0	50	0	32	0	68	0.90
6094097--6094181	27	3.1	27	89	0	134	15	29	29	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6094238--6094308	27	2.6	28	95	4	128	47	0	9	42	1.36
6094603--6094735	58	2.3	58	88	0	194	55	1	7	35	1.37
6095385--6095413	6	5.0	6	91	8	51	68	0	31	0	0.89
6095738--6095788	26	1.9	27	92	4	86	13	3	41	41	1.63
6095860--6095905	23	2.0	23	84	16	60	21	0	2	76	0.90
6106240--6106325	40	2.2	40	85	4	111	15	13	24	46	1.82
6108778--6108810	12	2.8	12	100	0	66	6	39	36	18	1.75
6120269--6120316	24	2.0	24	87	0	69	37	4	10	47	1.57
6122784--6122824	10	4.4	10	79	14	52	68	0	2	29	1.03
6122796--6122835	19	2.1	19	85	0	53	72	0	0	27	0.85
6122974--6123015	22	2.0	22	85	4	59	64	9	9	16	1.49
6134707--6134747	21	2.0	21	81	18	50	21	26	19	31	1.97
6143877--6143935	3	19.7	3	96	0	109	30	0	0	69	0.89
6144208--6144272	32	2.0	34	87	6	98	38	10	0	50	1.37
6152196--6152444	43	5.8	43	87	0	354	28	30	18	22	1.97
6152196--6152444	129	1.9	129	90	0	390	28	30	18	22	1.97
6152643--6152702	18	3.4	18	64	13	52	40	10	6	43	1.64
6156196--6156431	41	5.8	40	86	4	274	31	31	19	17	1.95
6156196--6156431	82	2.9	81	89	3	339	31	31	19	17	1.95
6156196--6156431	123	1.9	123	89	3	368	31	31	19	17	1.95
6156471--6156607	40	3.5	40	78	10	131	21	20	18	40	1.92
6162798--6162845	19	2.5	20	86	3	71	75	6	2	16	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6163949--6164053	30	3.5	30	80	5	122	14	28	33	23	1.94
6165143--6165270	3	42.7	3	82	3	114	35	10	33	21	1.87
6165143--6165270	12	10.7	12	78	9	136	35	10	33	21	1.87
6187299--6187384	44	2.0	43	93	2	145	30	12	10	46	1.76
6187887--6187944	24	2.4	24	100	0	116	44	22	17	15	1.86
6188856--6188936	12	6.8	12	81	5	85	29	1	4	64	1.22
6188873--6188936	3	21.3	3	84	6	85	29	0	4	65	1.13
6189039--6189120	34	2.4	34	79	2	92	31	8	4	54	1.52
6204735--6204811	34	2.2	36	83	4	95	29	0	0	70	0.88
6204752--6204803	26	2.0	26	88	7	79	23	0	0	76	0.78
6204734--6204801	16	4.1	16	81	9	73	27	0	0	72	0.85
6204750--6204804	9	6.2	9	83	12	69	25	0	0	74	0.82
6206817--6206945	43	3.0	42	75	13	138	24	17	17	41	1.90
6215439--6215589	59	2.5	60	75	7	139	41	21	15	21	1.90
6216522--6216568	24	2.0	24	86	0	67	27	44	17	10	1.81
6219076--6219120	21	2.1	21	88	8	65	60	0	0	40	0.97
6219076--6219123	23	2.1	23	88	7	71	62	0	0	37	0.95
6221287--6221331	12	3.7	12	82	5	63	22	13	13	51	1.75
6221286--6221335	25	2.0	25	100	0	100	20	12	16	52	1.75
6223818--6224036	114	1.9	115	79	12	245	20	8	19	51	1.72
6236608--6236642	1	35.0	1	94	0	52	5	94	0	0	0.32
6239681--6239942	93	2.8	90	77	12	269	30	18	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6240105--6240136	15	2.1	15	94	0	55	21	6	34	37	1.79
6242491--6242563	37	2.0	37	83	5	94	38	10	12	38	1.78
6250576--6250601	13	2.0	13	100	0	52	30	0	15	53	1.42
6251244--6251315	20	3.8	20	77	14	80	43	2	1	52	1.24
6251269--6251320	25	2.1	25	82	7	61	40	1	0	57	1.10
6255904--6255952	20	2.4	22	80	13	59	32	12	0	55	1.37
6255904--6255958	20	2.7	19	81	13	56	30	10	1	56	1.44
6256865--6257072	102	2.0	103	99	0	409	25	13	5	55	1.60
6257717--6257761	22	2.2	21	84	11	58	17	8	2	71	1.23
6263414--6263456	22	2.0	22	95	0	77	44	11	4	39	1.62
6277649--6277689	18	2.4	18	88	11	61	60	4	0	34	1.18
6278199--6278266	31	2.2	31	86	5	93	47	2	2	47	1.32
6278215--6278395	93	1.9	93	84	2	238	45	3	6	44	1.46
6285009--6285075	34	1.9	34	85	8	91	58	13	7	20	1.59
6285145--6285184	21	1.9	21	85	10	55	70	5	5	20	1.26
6286671--6286702	16	2.1	15	94	5	55	9	0	6	84	0.78
6290210--6290294	31	2.8	30	78	15	86	32	9	15	42	1.79
6292824--6292884	32	1.9	32	90	6	97	60	0	1	37	1.07
6292837--6292925	40	2.2	40	95	0	160	60	0	2	37	1.09
6292860--6292892	16	2.0	17	94	5	59	60	0	0	39	0.97
6294598--6294642	20	2.2	20	84	7	56	64	11	0	24	1.26
6295493--6295526	2	17.5	2	87	6	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6295692--6295736	19	2.2	21	84	11	58	48	4	2	44	1.35
6297516--6297558	18	2.4	18	80	7	52	51	0	2	46	1.13
6300650--6300684	17	2.1	17	88	0	52	65	2	5	25	1.28
6305306--6305348	20	2.2	20	86	0	59	30	32	11	25	1.91
6306466--6306504	13	3.0	13	88	7	53	35	0	2	61	1.10
6307175--6307364	57	3.2	57	69	17	177	52	4	4	38	1.44
6307124--6307373	123	2.0	125	96	1	468	52	4	4	38	1.43
6307257--6307301	20	2.3	20	78	17	58	62	2	2	33	1.20
6310065--6310107	20	2.2	20	86	0	59	30	32	11	25	1.91
6311225--6311263	13	3.0	13	88	7	53	35	0	2	61	1.10
6316810--6316843	13	2.5	13	90	4	50	55	0	2	41	1.15
6325585--6325754	84	2.0	84	98	0	331	41	4	9	44	1.57
6325960--6325984	13	1.9	13	100	0	50	84	8	0	8	0.79
6332020--6332063	17	2.4	18	88	7	63	72	0	0	27	0.85
6332906--6332945	19	2.0	20	86	13	57	62	2	0	35	1.09
6333273--6333315	10	4.0	10	77	16	50	46	0	0	53	1.00
6333268--6333306	18	2.2	18	90	9	62	46	0	0	53	1.00
6333906--6333956	22	2.3	22	86	0	66	7	11	13	66	1.43
6337305--6337354	21	2.4	21	80	3	57	44	0	14	42	1.44
6339494--6339550	18	3.0	18	76	14	69	29	24	19	26	1.98
6339705--6339783	24	3.5	22	76	8	70	41	20	17	20	1.90
6342287--6342312	13	2.0	13	100	0	52	30	15	7	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6345137--6345463	109	3.0	108	89	3	489	32	18	17	30	1.95
6346773--6346823	12	4.2	12	71	14	50	76	0	11	11	1.02
6347466--6347723	88	2.9	88	88	1	356	28	22	17	31	1.97
6347567--6347703	42	3.2	42	69	22	120	28	24	16	30	1.97
6347684--6347895	44	4.8	44	70	17	161	28	25	16	28	1.97
6347608--6347907	132	2.3	132	93	1	512	28	24	18	29	1.98
6357379--6357466	43	2.0	43	95	0	158	23	25	14	36	1.93
6358651--6358685	16	2.2	16	89	0	52	42	22	14	20	1.88
6359617--6359938	109	3.0	109	91	0	518	33	19	16	30	1.94
6360175--6360205	14	2.2	14	94	0	53	83	3	0	12	0.75

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   136   137   138   139   140   141   142   143   144   
          145