genome.fa.s4.2.7.7.80.10.50.1000.123.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  123  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)
39591719--39591759	19	2.2	19	86	4	57	65	2	0	31	1.05
39592635--39592785	73	2.1	73	98	0	293	22	25	14	37	1.92
39597749--39597981	115	2.0	116	96	1	432	25	6	11	56	1.59
39600316--39600767	225	2.0	225	100	0	904	39	18	7	34	1.79
39604297--39604390	25	3.7	25	72	18	77	5	19	3	72	1.18
39607098--39607136	20	2.0	20	90	5	62	35	5	5	53	1.45
39607084--39607719	316	2.0	316	97	0	1191	36	15	11	36	1.83
39609593--39609671	40	2.0	41	89	2	124	53	0	6	40	1.26
39609622--39609676	27	2.0	27	83	13	69	58	0	1	40	1.09
39620696--39620737	21	2.0	21	100	0	84	19	33	4	42	1.72
39622813--39622848	18	2.0	18	88	0	54	30	0	8	61	1.26
39622888--39622926	20	2.0	20	84	0	51	48	0	2	48	1.15
39623025--39623067	14	3.0	14	86	3	50	34	16	11	37	1.85
39632399--39632432	13	2.6	13	82	17	52	8	20	8	61	1.52
39633499--39633533	18	2.0	18	88	5	54	11	25	48	14	1.77
39634701--39634750	25	2.0	25	96	0	91	18	24	32	26	1.97
39634727--39634876	42	3.6	41	81	5	165	20	18	24	37	1.94
39637483--39637531	18	2.7	19	76	20	59	44	2	12	40	1.53
39643054--39643092	19	2.1	19	85	0	51	53	23	10	12	1.69
39644728--39644769	21	2.0	22	90	4	68	28	11	19	40	1.87
39647346--39647415	25	2.8	25	76	8	70	24	25	20	30	1.99
39661221--39661472	127	2.0	127	98	0	486	34	16	14	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39664626--39664683	24	2.4	24	77	16	66	32	0	18	48	1.49
39667330--39667463	45	3.0	45	87	3	198	20	14	28	36	1.92
39667331--39667482	45	3.4	44	84	1	187	23	14	25	36	1.93
39674331--39674375	24	1.9	23	81	4	54	48	4	40	6	1.49
39678405--39678515	54	2.1	54	100	0	222	40	12	9	37	1.75
39678508--39678535	3	9.3	3	100	0	56	32	0	0	67	0.91
39684117--39684367	25	10.2	25	71	10	122	19	27	20	32	1.97
39684117--39684367	50	5.1	50	73	12	153	19	27	20	32	1.97
39684273--39684389	50	2.3	50	84	5	139	20	26	23	29	1.99
39684273--39684379	25	4.3	25	79	10	112	19	28	24	28	1.99
39684273--39684393	25	4.9	25	78	10	106	19	27	23	28	1.99
39708608--39708652	22	2.1	21	88	12	65	53	4	15	26	1.61
39715662--39715719	29	2.0	29	83	12	75	46	5	0	48	1.24
39719723--39719777	28	2.0	28	89	7	85	58	0	0	41	0.98
39719789--39719846	30	1.9	30	85	0	80	58	3	1	36	1.25
39719725--39719835	38	2.9	38	75	14	120	59	1	1	36	1.19
39720811--39720839	7	4.1	7	100	0	58	0	58	13	27	1.36
39720741--39720831	30	2.9	32	80	8	105	0	40	16	42	1.48
39723998--39724306	66	4.7	66	99	0	609	40	14	6	38	1.71
39724026--39724267	22	11.0	21	66	22	106	40	14	5	38	1.70
39724245--39724444	46	4.3	46	96	2	359	38	13	6	42	1.69
39730261--39730300	14	2.7	15	85	14	57	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39730716--39730755	20	2.1	18	86	9	53	35	0	5	60	1.19
39731295--39731320	2	13.0	2	100	0	52	50	0	0	50	1.00
39732277--39732305	15	2.0	15	93	6	51	68	6	0	24	1.13
39739537--39739672	73	1.9	72	90	1	218	33	17	17	30	1.94
39740104--39740156	26	2.0	26	85	0	70	50	3	5	39	1.44
39740299--39740330	3	10.7	3	100	0	64	65	0	0	34	0.93
39741669--39742154	224	2.2	225	80	6	553	28	19	18	33	1.96
39742148--39742218	31	2.3	31	90	4	108	16	25	19	38	1.93
39742204--39742641	177	2.5	178	81	4	501	24	22	23	29	1.99
39742199--39742819	89	7.0	88	81	4	490	24	21	24	29	1.99
39742398--39742832	223	2.0	223	83	0	564	25	21	23	30	1.99
39742274--39742831	134	4.2	134	74	8	424	24	21	24	30	1.99
39744073--39744123	5	9.8	5	79	12	50	0	15	3	80	0.86
39744071--39744126	6	9.3	6	75	14	53	0	17	3	78	0.89
39744071--39744123	11	5.0	11	76	17	58	0	16	3	79	0.88
39744076--39744115	15	2.6	16	88	8	64	0	15	5	80	0.88
39748516--39748566	19	2.7	20	82	14	63	54	1	9	33	1.44
39748780--39748814	15	2.3	15	95	0	61	68	5	2	22	1.24
39755927--39755980	25	2.2	25	82	0	63	44	12	12	29	1.80
39755943--39755984	12	3.4	12	75	18	50	38	19	7	35	1.79
39760790--39760849	28	2.2	29	80	14	74	56	15	3	25	1.54
39765406--39766118	237	3.0	238	68	12	740	40	9	8	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39765406--39766354	475	2.0	475	100	0	1898	39	9	8	42	1.69
39765549--39766559	237	4.3	236	75	9	1010	38	9	8	43	1.68
39770008--39770507	129	3.9	129	88	2	621	28	16	24	30	1.96
39770018--39770481	43	10.8	43	79	4	488	27	17	24	31	1.97
39773481--39773543	31	2.0	31	100	0	126	22	9	31	36	1.86
39775104--39775206	25	3.4	29	74	20	97	40	8	1	48	1.45
39775129--39775179	25	2.0	25	100	0	102	43	7	3	45	1.51
39775139--39775187	13	3.8	13	72	5	55	40	8	4	46	1.52
39780450--39780499	23	2.2	24	78	10	59	58	8	2	32	1.39
39781352--39781408	8	6.9	8	82	13	62	66	0	7	26	1.17
39781353--39781408	16	3.4	17	80	11	71	67	0	7	25	1.15
39782392--39782483	46	2.0	46	85	4	123	15	25	21	38	1.92
39782392--39782460	23	3.0	23	83	8	95	14	23	23	39	1.91
39787365--39787435	37	1.9	37	94	2	126	23	30	9	35	1.88
39802050--39802076	7	3.9	7	100	0	54	88	0	11	0	0.50
39802511--39802545	18	1.9	18	94	0	61	34	11	14	40	1.82
39807623--39807674	27	2.0	26	84	3	68	42	1	5	50	1.37
39826688--39826717	12	2.5	12	94	0	51	53	0	10	36	1.35
39827726--39827765	18	2.2	18	86	8	55	20	0	12	67	1.22
39827767--39827800	12	2.8	12	90	0	50	67	0	2	29	1.05
39829369--39829393	2	12.5	2	100	0	50	48	0	0	52	1.00
39830193--39830238	23	2.1	23	84	15	62	43	4	8	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39831025--39831072	21	2.3	21	85	7	62	35	0	0	64	0.94
39841656--39841716	6	9.8	6	77	13	61	0	19	3	77	0.91
39843621--39843714	46	2.0	46	95	0	170	34	8	27	29	1.87
39843791--39843951	86	1.9	86	94	0	286	33	8	21	36	1.84
39852779--39852835	14	4.3	14	82	8	66	19	3	5	71	1.19
39856798--39856840	19	2.4	17	81	11	50	25	2	4	67	1.22
39856864--39856915	27	1.9	27	88	7	79	25	5	1	67	1.23
39859052--39859089	18	2.2	18	86	9	53	68	2	7	21	1.28
39859909--39859962	20	2.7	19	75	10	63	40	5	1	51	1.36
39863381--39863423	23	2.0	23	81	9	54	65	2	0	32	1.06
39863665--39863717	21	2.5	21	93	0	88	30	39	9	20	1.84
39868630--39868710	32	2.5	33	79	18	91	34	2	2	60	1.23
39868631--39868710	31	2.5	30	82	17	83	35	2	2	60	1.24
39871783--39871863	32	2.5	33	79	18	91	34	2	2	60	1.23
39871784--39871863	31	2.5	30	82	17	83	35	2	2	60	1.24
39872430--39872467	19	2.0	19	94	0	67	81	0	13	5	0.85
39872429--39872478	24	2.0	25	84	7	66	76	2	14	8	1.10
39872768--39872807	21	1.9	21	84	0	53	32	12	0	55	1.38
39883730--39883761	15	2.2	15	94	5	57	31	3	0	65	1.08
39885370--39885745	124	3.0	124	88	1	538	29	15	21	33	1.94
39888893--39889253	22	16.3	22	84	7	351	25	0	25	48	1.53
39889033--39889267	23	10.4	23	79	12	220	25	0	25	48	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39888902--39889267	68	5.5	67	84	7	331	24	0	25	49	1.53
39888953--39889249	91	3.3	91	82	6	281	25	0	25	49	1.53
39889230--39889560	35	9.4	35	99	0	653	25	0	31	43	1.55
39889642--39889689	21	2.3	20	82	3	60	2	27	37	33	1.69
39889949--39889984	18	2.0	18	94	0	63	38	8	27	25	1.84
39890634--39890658	7	3.6	7	100	0	50	60	12	0	28	1.32
39900664--39900697	1	34.0	1	93	0	50	94	0	5	0	0.32
39900610--39900736	54	2.4	54	90	0	191	74	7	9	7	1.21
39900668--39900698	16	1.9	16	100	0	62	90	0	9	0	0.46
39904929--39904986	22	2.7	21	79	10	62	41	17	5	36	1.72

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