genome.fa.s4.2.7.7.80.10.50.1000.18.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  18  of  163  ( 19464 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)
6136830--6136886	15	4.0	15	80	13	75	0	38	24	36	1.56
6138319--6138343	12	2.1	12	100	0	50	8	16	32	44	1.76
6139586--6139628	20	2.1	21	86	4	61	32	2	2	62	1.20
6140279--6141194	458	2.0	458	95	1	1669	27	20	18	33	1.96
6141285--6141542	129	2.0	129	98	0	498	38	14	15	31	1.88
6142992--6143021	2	15.5	2	93	6	53	46	0	0	53	1.00
6149656--6149708	17	3.5	17	66	28	55	39	15	5	39	1.70
6149655--6149711	28	2.0	28	100	0	114	40	14	7	38	1.73
6156590--6156619	2	15.0	2	100	0	60	50	0	0	50	1.00
6159328--6159397	24	3.0	23	75	10	61	54	0	0	45	0.99
6159333--6159369	18	2.1	17	90	5	56	59	0	0	40	0.97
6160952--6160988	9	4.1	9	92	0	65	45	13	10	29	1.77
6167610--6167718	31	3.5	32	86	3	168	57	1	1	38	1.20
6168238--6168343	21	5.0	21	73	2	61	39	29	6	24	1.80
6168365--6168408	7	6.3	7	89	0	70	29	43	13	13	1.83
6170105--6170151	25	1.9	25	86	4	69	44	4	10	40	1.59
6172126--6172163	20	1.9	20	88	0	58	15	26	26	31	1.96
6184393--6184452	28	2.3	25	76	20	68	35	0	5	60	1.19
6187485--6187543	20	3.0	19	78	7	64	55	3	0	40	1.16
6187622--6187651	2	15.0	2	100	0	60	50	0	0	50	1.00
6189691--6189723	16	2.0	17	94	5	59	60	6	9	24	1.49
6190001--6190035	6	5.8	6	87	12	54	28	0	51	20	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6193361--6193462	22	4.7	22	70	17	63	62	0	4	31	1.23
6193474--6193510	17	2.1	18	90	5	58	67	2	2	27	1.17
6211235--6211580	61	5.7	61	90	0	494	28	19	19	32	1.96
6212436--6212474	20	2.0	20	84	0	51	17	20	23	38	1.93
6215141--6215166	6	4.3	6	100	0	52	30	15	15	38	1.88
6216359--6216393	17	2.1	16	89	5	52	54	5	0	40	1.24
6216399--6216423	6	4.2	6	100	0	50	48	16	0	36	1.46
6216425--6216481	16	3.5	15	79	15	53	70	3	3	22	1.18
6216530--6216573	14	3.0	14	80	9	52	70	0	9	20	1.14
6218289--6218360	22	3.3	22	80	0	72	61	13	11	13	1.58
6228000--6228239	50	4.7	50	82	6	227	22	27	22	26	1.99
6232201--6232264	27	2.4	27	97	0	119	46	0	10	42	1.39
6233055--6233129	39	1.9	39	94	0	132	65	1	9	24	1.30
6236377--6236441	28	2.4	28	97	2	123	43	9	0	47	1.35
6236501--6236552	27	1.9	27	92	0	86	32	21	32	13	1.92
6237919--6237983	28	2.4	28	94	2	114	47	0	10	41	1.38
6243643--6243734	45	2.0	45	97	0	175	28	40	4	27	1.75
6254726--6254773	25	2.0	24	88	12	71	47	2	20	29	1.61
6274564--6274588	2	12.5	2	100	0	50	0	0	48	52	1.00
6285855--6285932	31	2.5	30	79	4	84	43	3	7	44	1.51
6289773--6289816	22	2.0	22	82	8	54	45	2	9	43	1.48
6289828--6289869	20	2.2	19	95	4	75	33	4	0	61	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6289832--6289898	20	3.4	19	81	6	71	35	1	0	62	1.04
6289883--6289908	13	2.0	13	100	0	52	46	0	0	53	1.00
6289910--6289947	15	2.5	15	95	0	67	73	5	0	21	1.02
6297455--6297487	15	2.2	15	100	0	66	45	18	9	27	1.79
6299107--6299163	26	2.1	27	84	9	73	66	1	29	1	1.12
6300154--6300253	37	2.6	38	74	6	94	23	20	29	28	1.98
6303368--6303416	21	2.3	22	86	10	75	42	0	0	57	0.99
6303498--6303687	85	2.2	84	85	5	229	45	11	3	39	1.58
6303532--6303703	85	2.0	86	98	1	337	41	9	4	43	1.58
6305050--6305166	37	3.0	40	75	8	114	36	22	14	26	1.92
6305326--6305372	24	2.0	24	84	16	62	51	17	0	31	1.46
6306045--6306089	4	11.5	4	78	21	51	0	24	0	75	0.80
6306046--6306088	17	2.4	19	85	14	65	0	23	0	76	0.78
6310495--6310536	20	2.1	20	86	0	57	47	0	7	45	1.30
6311136--6311241	25	4.2	25	76	12	103	36	24	15	23	1.93
6311139--6311237	50	2.0	50	95	0	180	38	25	13	23	1.91
6325716--6325740	3	8.3	3	100	0	50	0	32	0	68	0.90
6325188--6325948	383	2.0	372	95	2	1351	33	15	12	38	1.85
6328477--6328553	26	3.0	26	96	0	145	44	7	18	29	1.78
6333141--6333173	9	3.6	9	95	4	57	66	9	0	24	1.20
6340763--6340804	18	2.4	18	80	11	52	26	21	14	38	1.91
6340873--6341245	139	2.7	139	82	6	448	28	26	10	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6343601--6343626	11	2.4	11	100	0	52	42	0	0	57	0.98
6345041--6345229	42	4.3	42	77	12	207	25	21	6	47	1.74
6345204--6345260	29	2.0	29	96	0	105	21	22	5	50	1.68
6345230--6345353	45	2.9	44	89	5	175	22	16	13	46	1.82
6348021--6348063	22	1.9	22	81	13	52	58	0	2	39	1.11
6350631--6350727	42	2.3	43	87	7	137	24	22	4	48	1.68
6350693--6350788	28	3.0	33	69	20	87	20	18	5	55	1.62
6353854--6353884	6	5.2	6	100	0	62	32	0	19	48	1.49
6360351--6360385	4	8.8	4	100	0	70	48	0	0	51	1.00
6372871--6372919	6	8.2	6	100	0	98	32	0	16	51	1.45
6374286--6374311	13	2.0	13	100	0	52	15	38	15	30	1.88
6376873--6376930	29	2.0	29	100	0	116	51	10	10	27	1.68
6379345--6379448	49	2.1	49	87	0	145	30	8	9	50	1.65
6381006--6381111	44	2.5	41	77	18	126	36	30	2	30	1.72
6381023--6381114	46	2.0	46	91	4	152	40	30	3	26	1.72
6381099--6381146	24	2.0	24	95	0	87	31	31	8	29	1.87
6386774--6386819	16	2.8	17	83	3	58	58	2	2	36	1.22
6386815--6386896	41	2.0	41	87	0	119	45	12	7	35	1.69
6393476--6393638	80	2.1	76	86	7	224	46	12	14	25	1.81
6393627--6393670	21	2.1	21	83	8	54	63	2	9	25	1.35
6394467--6394492	7	3.7	7	100	0	52	11	46	0	42	1.40
6396534--6396686	81	1.9	81	93	0	261	39	9	5	46	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6396636--6396698	13	5.1	13	70	18	53	38	6	6	49	1.54
6397726--6397788	26	2.4	27	97	2	119	58	0	3	38	1.14
6398167--6398215	13	3.5	13	78	13	53	14	8	2	75	1.12
6398744--6398783	3	13.3	3	100	0	80	32	0	0	67	0.91
6405464--6405522	31	1.9	31	96	0	109	44	8	10	37	1.69
6405804--6405829	6	4.3	6	100	0	52	0	50	34	15	1.45
6405830--6405864	6	5.8	6	96	0	61	0	0	45	54	0.99
6411800--6412130	165	2.0	166	99	0	655	40	18	9	32	1.82
6427805--6427883	9	8.7	9	69	25	51	32	3	1	62	1.21
6428305--6428336	3	10.7	3	100	0	64	68	0	0	31	0.90
6431191--6431260	3	23.3	3	91	5	115	34	1	0	64	1.03
6433075--6433140	25	2.6	25	87	0	96	15	31	21	31	1.94
6433126--6433190	25	2.6	26	73	7	62	20	29	20	30	1.97
6433157--6433211	25	2.2	25	84	12	69	21	27	20	30	1.98
6434228--6434686	229	2.0	229	100	0	918	23	24	27	24	2.00
6445733--6445769	9	4.1	9	85	0	56	48	13	8	29	1.71
6448522--6448625	19	5.1	19	67	22	68	37	0	2	59	1.12
6448588--6448625	20	2.0	20	89	5	60	44	0	2	52	1.14
6448590--6448631	18	2.2	20	80	12	54	50	0	2	47	1.14
6453055--6453101	24	2.0	24	95	0	85	42	0	17	40	1.49
6455942--6455979	12	3.2	12	84	0	58	15	31	44	7	1.75
6455934--6455979	24	1.9	24	90	0	74	21	30	41	6	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6457075--6457122	11	4.7	10	82	10	53	60	0	37	2	1.09
6463537--6463576	21	1.9	21	84	0	53	22	7	27	42	1.80
6464108--6464155	24	1.9	26	83	8	64	50	4	2	43	1.33
6464427--6464467	18	2.2	19	86	4	57	29	0	4	65	1.13
6466743--6466849	34	3.3	33	73	24	118	43	6	16	32	1.74
6466743--6466870	64	2.0	64	98	0	247	41	7	17	33	1.78
6466760--6466864	34	3.2	34	74	15	130	41	6	17	34	1.75
6471564--6471629	32	2.1	32	100	0	132	28	18	24	28	1.98
6479420--6479540	63	1.9	63	89	0	188	19	29	20	29	1.97
6484824--6484874	24	2.1	24	82	13	61	9	7	1	80	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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163