genome.fa.s4.2.7.7.80.10.50.1000.122.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  122  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)
39278169--39278212	23	2.0	21	82	8	52	9	20	9	61	1.53
39283666--39283848	56	3.2	56	93	4	305	44	7	12	36	1.70
39283840--39283961	23	4.8	24	80	17	106	31	0	22	45	1.59
39283871--39284274	29	13.2	29	85	12	476	31	0	25	43	1.55
39283884--39284261	34	12.1	34	82	15	425	32	0	23	43	1.54
39284029--39284214	28	6.4	26	84	14	160	32	0	24	43	1.54
39284026--39284274	28	8.4	26	76	21	119	31	0	25	42	1.55
39284317--39284412	29	3.1	29	80	13	120	31	0	27	41	1.56
39284331--39284403	34	2.1	34	92	0	119	38	0	20	41	1.53
39284317--39284403	34	2.8	32	83	11	117	33	0	24	42	1.55
39286529--39286584	25	2.3	25	80	14	64	62	5	0	32	1.18
39286672--39286727	9	5.9	9	75	19	51	64	0	0	35	0.94
39286673--39286726	21	2.8	19	80	20	67	66	0	0	33	0.92
39286673--39286726	20	2.8	20	82	17	69	66	0	0	33	0.92
39286674--39286739	31	2.1	31	88	5	98	65	1	0	33	1.02
39286735--39286768	17	1.9	18	88	5	52	64	0	11	23	1.26
39286783--39286824	22	1.9	22	95	0	75	33	0	35	30	1.58
39286796--39286854	30	2.0	30	93	0	100	33	0	35	30	1.58
39286826--39286871	22	2.1	22	100	0	92	39	0	30	30	1.57
39291135--39291209	24	3.1	24	72	14	64	16	26	20	37	1.93
39291273--39291345	27	2.8	25	76	8	83	19	28	20	31	1.97
39293001--39293040	14	2.9	14	84	0	53	35	2	32	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39293204--39293494	126	2.3	126	90	0	474	33	19	20	26	1.97
39296293--39296330	18	2.1	18	90	0	58	42	10	26	21	1.85
39298164--39298219	11	5.2	11	78	20	55	42	0	33	23	1.54
39298170--39298222	10	5.0	10	86	11	70	45	0	32	22	1.53
39298170--39298222	22	2.5	20	85	11	70	45	0	32	22	1.53
39299601--39299700	50	2.0	50	92	0	164	34	20	9	37	1.84
39300965--39300998	15	2.2	16	89	5	52	64	5	2	26	1.30
39302579--39302618	22	1.9	21	85	10	55	27	0	2	70	1.01
39307302--39307351	21	2.4	21	100	0	100	20	32	20	28	1.97
39310870--39310914	22	2.0	22	100	0	90	28	17	4	48	1.66
39312234--39312265	10	3.1	11	82	17	50	81	0	0	18	0.70
39312392--39312458	31	2.1	32	91	5	109	28	10	19	41	1.84
39314795--39314873	40	2.0	40	85	5	106	41	17	7	32	1.78
39317682--39317719	19	2.0	19	85	10	51	65	10	18	5	1.41
39332036--39332107	32	2.2	32	80	4	83	31	11	6	50	1.65
39335073--39335124	24	2.2	24	89	0	77	55	9	1	32	1.43
39336313--39336364	24	2.2	24	89	0	77	55	9	1	32	1.43
39337537--39337636	49	2.0	49	86	7	141	32	15	11	42	1.81
39343158--39343222	29	2.2	30	88	5	105	50	6	29	13	1.66
39353555--39353713	42	3.7	43	78	9	130	23	18	26	30	1.98
39363485--39363511	13	2.1	13	100	0	54	33	14	7	44	1.73
39367144--39367212	31	2.2	31	89	0	102	30	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39368365--39368431	20	3.3	20	81	4	73	16	23	20	38	1.92
39370936--39370981	22	2.2	21	82	17	60	28	0	26	45	1.54
39372160--39372205	22	2.0	22	84	12	58	36	15	4	43	1.66
39375438--39375488	21	2.4	21	80	0	57	21	31	21	25	1.98
39385469--39385534	35	1.9	34	87	9	98	33	0	0	66	0.92
39387024--39387160	42	3.2	42	77	10	120	46	16	18	18	1.84
39387101--39387168	21	3.2	21	72	12	59	47	14	14	23	1.82
39394748--39394840	46	2.1	45	82	11	111	49	5	7	37	1.54
39397646--39397675	11	2.6	11	94	5	51	90	0	10	0	0.47
39397646--39397675	16	1.9	15	93	6	51	90	0	10	0	0.47
39398604--39398973	50	7.4	50	68	3	215	31	20	23	24	1.98
39398548--39398990	100	4.4	100	93	0	733	31	19	22	25	1.98
39402312--39402404	44	2.1	45	84	11	120	49	3	7	39	1.47
39403287--39403336	26	1.9	26	84	8	66	60	2	0	38	1.09
39413530--39413555	7	3.7	7	100	0	52	61	0	0	38	0.96
39427041--39427074	14	2.4	14	90	0	50	38	2	8	50	1.49
39430640--39430836	46	4.6	45	79	12	234	28	22	13	34	1.93
39430726--39430798	37	2.0	37	91	0	119	27	20	13	38	1.90
39430680--39430836	83	1.9	83	90	0	251	29	23	12	34	1.91
39434313--39434374	32	1.9	32	86	0	88	40	6	6	46	1.55
39439666--39439698	17	1.9	17	88	11	50	84	12	0	3	0.72
39439491--39439825	119	2.9	117	77	10	335	58	15	2	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39441995--39442033	14	2.8	14	84	0	51	56	7	2	33	1.41
39442640--39442693	6	9.3	6	82	6	51	68	1	1	27	1.10
39442640--39442693	9	6.2	9	75	14	51	68	1	1	27	1.10
39444128--39444185	22	2.6	22	81	7	64	41	17	5	36	1.72
39444141--39444209	21	3.3	20	84	12	77	39	15	8	36	1.79
39444175--39444216	21	2.1	21	86	8	61	38	14	9	38	1.78
39445089--39445747	88	7.5	88	89	0	931	19	26	26	27	1.99
39445336--39445474	44	3.2	44	64	8	120	18	23	30	26	1.98
39445727--39446016	44	6.6	45	76	6	227	29	24	17	28	1.97
39445736--39446016	88	3.2	86	77	9	273	29	24	16	29	1.97
39445741--39446016	132	2.1	133	93	0	473	28	25	16	29	1.97
39447235--39447263	6	5.0	6	95	4	51	0	13	0	86	0.58
39451318--39451361	17	2.6	17	85	3	63	47	0	11	40	1.39
39451811--39451868	22	2.6	22	81	7	64	41	17	5	36	1.72
39451824--39451894	21	3.4	20	84	11	81	39	15	8	36	1.78
39451881--39451906	12	2.2	12	100	0	52	42	15	7	34	1.75
39453307--39453356	27	2.0	25	88	11	75	20	14	8	58	1.61
39453719--39453770	21	2.4	22	81	9	63	46	34	3	15	1.64
39454740--39454768	5	5.8	5	100	0	58	17	0	0	82	0.66
39454713--39454754	23	1.9	21	85	9	57	16	14	0	69	1.20
39455272--39455373	3	34.0	3	100	0	204	33	0	0	66	0.92
39457398--39457439	21	2.0	22	85	4	59	26	7	7	59	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39458164--39458210	18	2.6	18	96	0	85	4	31	31	31	1.77
39460460--39460505	23	2.0	24	87	12	69	41	6	4	47	1.49
39461295--39461344	21	2.6	18	78	15	55	22	12	0	66	1.24
39464559--39464588	3	10.0	3	92	0	51	63	0	3	33	1.11
39470284--39470345	29	2.0	32	81	9	76	37	3	14	45	1.61
39481407--39481489	43	1.9	43	95	0	148	40	12	32	14	1.83
39489766--39489842	5	15.6	5	73	15	54	44	1	2	51	1.23
39489806--39489848	10	4.4	10	85	5	61	44	0	0	55	0.99
39492937--39492971	16	2.1	17	89	5	54	34	2	25	37	1.71
39493078--39493127	25	2.0	25	84	7	66	18	22	22	38	1.94
39493541--39493609	22	3.1	22	82	0	93	18	18	17	44	1.86
39494108--39494137	5	6.0	5	100	0	60	40	0	0	60	0.97
39496789--39496830	18	2.3	18	83	0	57	42	4	35	16	1.69
39503847--39503880	16	2.1	16	94	0	59	38	14	14	32	1.87
39504000--39504030	16	1.9	16	93	0	53	48	0	12	38	1.42
39504629--39504670	22	1.9	22	85	9	59	66	0	2	30	1.04
39510464--39510494	16	1.9	16	100	0	62	35	0	0	64	0.94
39514119--39514147	15	1.9	15	100	0	58	0	17	6	75	1.01
39515433--39515586	42	3.7	42	78	5	159	46	16	20	16	1.85
39515613--39515639	12	2.2	12	100	0	54	44	25	14	14	1.84
39524012--39524055	11	4.0	11	77	11	54	54	27	11	6	1.61
39525464--39525493	5	6.2	5	92	7	53	83	0	16	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39530038--39530090	27	2.0	27	100	0	106	47	18	11	22	1.81
39538593--39538645	24	2.2	24	82	0	70	54	13	1	30	1.49
39554876--39554939	31	2.1	31	88	5	94	35	6	10	46	1.64
39559532--39559587	3	18.7	3	100	0	112	67	0	0	32	0.91
39567541--39567600	26	2.3	25	77	8	66	36	3	5	55	1.38
39570896--39570950	2	26.5	2	78	7	56	0	43	10	45	1.39
39570896--39570947	15	3.7	15	92	7	83	0	44	11	44	1.40
39579284--39579371	22	4.3	20	70	16	65	43	1	1	54	1.15
39581257--39581333	31	2.6	30	82	13	88	42	7	2	46	1.46
39583798--39583836	6	6.3	6	94	5	69	17	2	15	64	1.41

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