genome.fa.s9.2.7.7.80.10.50.1000.17.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   

This is table  17  of  131  ( 15627 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)
5861635--5861834	43	4.6	43	72	13	140	29	14	23	33	1.94
5863109--5863224	57	2.0	57	98	0	223	37	5	19	37	1.75
5868948--5869146	99	2.0	100	99	1	391	40	15	15	29	1.88
5870999--5871111	29	3.9	29	82	4	111	23	24	13	38	1.91
5871028--5871263	29	8.1	29	76	3	143	25	24	13	36	1.92
5871099--5871262	29	5.7	29	80	2	186	26	23	11	37	1.89
5871099--5871258	87	1.8	87	83	2	214	26	23	11	38	1.89
5871016--5871263	58	4.3	58	77	7	218	25	23	12	37	1.90
5885913--5885942	2	15.0	2	100	0	60	50	0	50	0	1.00
5893982--5894020	16	2.4	16	82	0	51	74	7	15	2	1.15
5900036--5900074	16	2.4	16	82	0	51	74	7	15	2	1.15
5910181--5910228	21	2.3	21	78	7	53	8	12	2	77	1.08
5914273--5914317	22	2.1	22	83	4	56	26	4	15	53	1.61
5917246--5917289	21	2.1	21	100	0	88	47	9	9	34	1.67
5922419--5922542	43	2.9	43	79	11	128	20	17	29	32	1.96
5925203--5925273	33	2.2	33	82	5	81	46	12	18	22	1.82
5927072--5927125	21	2.6	21	74	8	56	50	12	7	29	1.68
5930275--5930317	18	2.4	18	80	0	50	20	6	4	67	1.33
5937127--5937151	13	1.9	13	100	0	50	36	0	0	64	0.94
5943612--5943755	42	3.4	42	85	0	198	15	22	16	45	1.85
5943657--5943754	21	4.7	21	70	5	81	17	20	16	45	1.85
5943757--5943880	21	5.9	21	75	3	106	16	20	16	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5943684--5943826	71	2.0	71	100	0	286	18	20	16	44	1.87
5943761--5943875	42	2.7	42	87	0	158	16	21	15	46	1.84
5943657--5943866	113	1.9	113	87	0	312	17	20	16	45	1.86
5943848--5943891	21	2.2	20	88	8	63	15	22	13	47	1.81
5947020--5947064	20	2.2	20	92	0	81	46	8	15	28	1.76
5947020--5947073	20	2.7	19	86	8	65	48	9	16	25	1.76
5947826--5947865	14	2.9	14	84	0	53	42	17	7	32	1.77
5948438--5948497	31	1.9	31	86	6	86	41	8	11	38	1.72
5951137--5951430	146	2.0	147	99	0	581	35	8	4	51	1.52
5952958--5952995	19	2.1	19	85	5	51	39	0	7	52	1.31
5962043--5962283	121	2.0	120	99	0	473	14	19	35	31	1.91
5966153--5966322	63	2.7	63	85	0	223	33	32	8	25	1.86
5968096--5968137	22	2.0	21	90	4	66	71	11	2	14	1.24
5969535--5969580	20	2.2	20	85	11	58	39	2	4	54	1.32
5971075--5971143	31	2.2	31	86	0	102	36	13	8	42	1.75
5984021--5984089	22	3.1	22	83	4	77	44	18	20	15	1.86
5986022--5986065	22	2.0	23	81	4	54	56	25	11	6	1.58
5986497--5986548	16	2.9	17	80	13	52	46	3	1	48	1.31
5998959--5999144	93	2.0	94	90	1	293	54	13	18	12	1.70
6000097--6000146	25	2.0	25	92	0	82	54	10	22	14	1.69
6004761--6004804	21	2.0	22	86	4	63	59	2	0	38	1.10
6006733--6006828	48	2.0	48	91	0	156	34	15	23	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6008678--6008840	73	2.2	73	78	3	175	33	23	25	17	1.96
6008713--6008868	25	6.3	25	74	11	126	32	22	26	18	1.97
6008808--6008868	26	2.3	26	85	0	86	37	21	22	18	1.94
6014027--6014088	21	2.9	22	69	9	56	37	27	17	17	1.93
6015984--6016027	24	1.9	22	86	9	61	27	15	2	54	1.53
6017005--6017059	27	2.0	27	96	0	101	38	7	23	30	1.82
6017583--6017646	2	32.0	2	93	0	110	50	0	50	0	1.00
6021424--6021462	16	2.4	16	95	0	69	38	7	25	28	1.83
6021732--6021783	22	2.4	21	79	17	54	55	5	0	38	1.24
6023414--6023455	21	2.0	21	81	9	50	50	2	2	45	1.27
6023597--6023695	49	2.0	51	82	11	125	35	24	5	35	1.77
6023677--6023712	16	2.2	16	90	0	54	30	22	5	41	1.76
6024691--6024757	22	3.0	22	95	2	116	46	17	4	31	1.68
6030996--6031047	5	11.0	5	74	25	51	59	0	0	40	0.97
6030996--6031034	14	3.0	13	89	10	62	56	0	0	43	0.99
6031000--6031045	23	2.0	22	91	4	74	58	0	0	41	0.98
6032702--6032759	26	2.2	26	87	0	80	18	22	20	37	1.94
6038552--6038616	25	2.6	25	85	4	87	40	13	15	30	1.86
6044576--6044620	18	2.5	18	82	7	56	37	4	17	40	1.70
6045704--6045786	25	3.3	25	73	6	78	27	20	26	25	1.99
6045679--6045769	25	3.6	25	73	5	78	30	20	26	21	1.98
6047733--6047761	10	2.7	11	89	10	51	17	17	6	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6050004--6050044	22	1.9	22	85	5	57	39	9	19	31	1.84
6050173--6050197	13	1.9	13	100	0	50	52	0	0	48	1.00
6050176--6050232	21	2.5	22	77	13	62	59	0	1	38	1.08
6050176--6050232	11	5.0	11	79	16	55	59	0	1	38	1.08
6053563--6053596	5	6.8	5	87	12	52	0	17	0	82	0.67
6054473--6054510	3	12.7	3	100	0	76	0	31	0	68	0.90
6063938--6063966	15	1.9	15	100	0	58	65	13	20	0	1.26
6063940--6063975	15	2.3	15	90	4	54	72	11	16	0	1.12
6065054--6065086	14	2.5	14	90	9	52	42	3	21	33	1.68
6068757--6068882	62	2.0	62	93	0	216	19	20	10	50	1.76
6081902--6081949	20	2.5	20	86	6	64	41	0	6	52	1.27
6084099--6084351	134	1.9	134	97	1	481	21	30	24	23	1.99
6084448--6084707	125	2.1	127	83	2	328	31	21	14	31	1.94
6085633--6085665	14	2.4	14	90	5	50	45	0	9	45	1.35
6087273--6087298	13	2.0	13	100	0	52	23	0	30	46	1.53
6087642--6087702	30	2.0	31	96	3	115	44	3	6	45	1.46
6089013--6089038	10	2.6	10	100	0	52	92	0	7	0	0.39
6089162--6089190	12	2.3	13	94	5	51	6	34	0	58	1.25
6092180--6092269	36	2.5	36	77	10	87	45	4	0	50	1.22
6094412--6094478	23	3.0	21	78	10	71	23	7	20	47	1.75
6097570--6097618	11	4.6	11	71	19	50	40	2	0	57	1.10
6099020--6099046	13	2.1	13	100	0	54	29	22	7	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6104460--6104517	3	19.7	3	82	10	75	63	3	0	32	1.11
6106105--6106239	58	2.3	60	81	8	143	40	5	5	48	1.50
6107829--6108110	84	3.3	84	77	6	266	39	22	16	21	1.92
6107882--6108102	42	5.2	42	77	5	187	40	21	16	21	1.91
6109025--6109064	13	3.1	13	88	0	62	30	17	7	45	1.76
6109798--6109844	25	1.9	24	83	12	60	34	27	0	38	1.57
6112603--6112648	24	1.9	24	82	8	58	50	2	0	47	1.13
6112847--6112933	29	3.0	30	77	8	74	47	0	2	50	1.13
6122135--6122193	31	1.9	31	96	0	109	37	6	11	44	1.68
6126153--6126220	20	3.4	20	81	4	75	63	11	19	5	1.48
6126311--6126420	26	4.2	26	80	10	127	57	1	24	16	1.49
6126524--6126579	23	2.3	24	85	11	71	78	0	16	5	0.92
6126542--6126586	20	2.2	20	88	4	63	77	0	13	8	0.98
6126599--6126660	28	2.2	28	88	2	88	70	1	19	8	1.20
6127612--6127695	31	2.6	31	81	12	91	55	3	5	34	1.41
6128552--6128618	34	2.0	34	96	0	125	28	16	17	37	1.92
6134907--6134962	27	2.1	27	93	0	94	21	3	14	60	1.49
6138627--6138670	21	2.1	21	87	8	63	34	0	6	59	1.24
6138687--6138731	18	2.6	18	85	3	56	42	0	2	55	1.12
6138617--6138833	118	1.8	118	88	7	334	42	1	4	51	1.31
6138653--6138834	59	3.1	59	65	21	139	41	1	4	51	1.33
6140584--6140764	45	4.0	45	100	0	362	40	17	15	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6144662--6144690	12	2.4	12	100	0	58	31	34	0	34	1.58
6146756--6146793	18	2.1	18	95	0	67	18	0	23	57	1.40
6146756--6146793	9	4.2	9	83	12	51	18	0	23	57	1.40
6146951--6147355	126	3.2	126	89	4	620	30	16	23	29	1.96
6147597--6147681	18	4.7	18	91	0	125	24	9	23	42	1.84
6147597--6147681	9	9.4	9	90	0	107	24	9	23	42	1.84
6147843--6147867	12	2.1	12	100	0	50	16	24	36	24	1.94
6148600--6148631	7	4.6	7	100	0	64	59	12	0	28	1.34
6148777--6148814	20	1.9	20	89	10	60	57	5	2	34	1.35
6149811--6149887	11	6.9	11	80	14	79	44	0	29	25	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