genome.fa.s3.2.7.7.80.10.50.1000.18.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   

This is table  18  of  91  ( 10898 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)
5835765--5835795	15	2.1	15	93	0	53	38	12	19	29	1.89
5835858--5835954	45	2.2	45	81	3	106	25	5	37	31	1.78
5838300--5838345	6	7.7	6	87	0	56	39	0	41	19	1.52
5838300--5838345	18	2.6	18	89	0	65	39	0	41	19	1.52
5838300--5838347	24	2.0	24	95	0	87	41	0	39	18	1.51
5842027--5842079	28	1.9	27	88	11	81	35	16	16	30	1.92
5849914--5849959	20	2.3	20	92	0	74	30	4	19	45	1.70
5850004--5850056	28	1.9	27	88	3	79	30	18	22	28	1.98
5850004--5850062	28	2.1	28	84	6	75	30	20	23	25	1.98
5878133--5878178	20	2.3	20	88	0	65	26	6	23	43	1.78
5881720--5881752	8	4.1	8	96	0	57	48	21	15	15	1.81
5882020--5882058	10	3.8	10	80	6	51	25	2	20	51	1.60
5884148--5884302	59	2.7	58	82	4	186	41	9	11	38	1.73
5884148--5884300	28	5.3	28	81	10	139	41	9	11	37	1.74
5884667--5884695	14	2.0	15	93	6	51	55	0	31	13	1.39
5885614--5885643	6	5.0	6	91	0	51	3	0	46	50	1.18
5885716--5886118	85	4.8	85	87	1	553	41	16	3	38	1.66
5890367--5890418	10	4.9	10	73	13	50	44	28	0	26	1.55
5890323--5890454	33	4.0	34	86	5	173	40	24	1	34	1.65
5890570--5890646	36	2.1	36	95	0	136	16	33	11	37	1.85
5895066--5895228	27	6.0	27	81	1	182	35	12	15	36	1.85
5899794--5899844	25	2.0	26	88	3	77	45	11	3	39	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5901398--5901441	23	2.0	23	86	4	63	61	0	4	34	1.16
5905827--5905888	31	2.0	32	84	9	83	43	6	3	46	1.45
5905816--5905870	8	7.0	8	73	19	53	47	3	1	47	1.30
5911357--5911404	23	2.1	23	84	7	62	35	31	0	33	1.58
5920522--5920769	80	3.1	78	79	4	289	32	9	23	34	1.87
5934945--5935009	33	2.0	33	100	0	130	55	15	13	15	1.70
5939435--5940722	669	1.9	662	85	4	1770	27	16	21	34	1.94
5950180--5950222	21	2.0	21	81	0	50	30	9	34	25	1.87
5961768--5961814	15	3.1	15	84	0	58	51	17	2	29	1.57
5963208--5963232	13	1.9	13	100	0	50	48	8	0	44	1.32
5964352--5964403	28	1.9	27	84	7	70	28	21	19	30	1.97
5964457--5964494	20	1.9	20	100	0	76	44	21	5	28	1.73
5973865--5973896	13	2.5	13	100	0	64	34	6	9	50	1.60
5975457--5975482	13	2.0	13	100	0	52	84	0	0	15	0.62
5987059--5987122	8	8.5	8	78	15	66	1	34	1	62	1.14
5987071--5987122	15	3.5	15	84	7	70	1	34	0	63	1.06
5989849--5990160	168	1.9	168	86	1	455	20	23	11	44	1.84
5991082--5991134	21	2.5	21	87	0	79	16	15	30	37	1.90
5991144--5991226	23	3.7	23	77	7	89	24	13	28	33	1.93
5991240--5991324	22	3.9	22	87	3	109	42	27	12	17	1.86
5991329--5991377	22	2.2	22	85	0	62	38	22	12	26	1.89
5995646--5995681	18	2.1	18	89	5	56	2	5	13	77	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6002262--6002303	19	2.2	19	86	0	57	35	9	11	42	1.74
6007325--6007393	35	1.9	36	85	2	95	24	13	26	36	1.92
6011788--6011824	17	2.2	17	90	4	58	18	8	5	67	1.36
6018933--6018966	18	1.9	18	88	5	52	41	8	8	41	1.67
6019989--6020472	27	17.9	27	76	7	322	38	15	10	35	1.82
6019988--6020355	55	6.7	55	81	3	314	38	15	9	36	1.81
6020059--6020426	82	4.5	81	78	3	314	38	14	10	35	1.81
6020003--6020426	137	3.1	137	80	3	430	39	14	9	36	1.80
6020181--6020420	55	4.5	50	82	7	183	37	15	11	35	1.83
6030519--6030586	21	3.3	21	67	8	68	23	33	22	20	1.97
6030505--6030610	40	2.6	40	96	1	194	21	38	18	20	1.93
6038022--6038075	2	27.0	2	100	0	108	50	0	0	50	1.00
6038338--6038569	117	2.0	116	93	0	383	36	19	9	34	1.84
6047563--6047625	26	2.4	26	94	0	108	15	6	12	65	1.46
6051792--6051831	20	2.0	20	90	4	64	40	15	22	22	1.91
6053101--6053251	82	1.8	82	85	2	214	40	9	9	40	1.71
6054580--6054745	56	3.0	56	82	0	206	30	16	10	43	1.81
6059919--6059961	21	2.0	22	86	4	61	13	20	6	58	1.59
6063941--6064000	30	2.1	29	81	6	68	30	8	21	40	1.83
6067595--6067633	10	3.8	10	80	6	51	51	20	2	25	1.60
6070106--6070176	6	11.8	6	78	11	56	53	7	1	38	1.37
6070102--6070190	10	8.9	10	80	7	65	51	6	1	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6070103--6070190	26	3.3	26	85	6	113	51	6	1	40	1.36
6076855--6077030	79	2.2	80	81	3	203	43	13	7	35	1.73
6077078--6077111	17	1.9	17	88	5	50	44	14	11	29	1.81
6077083--6077117	17	2.1	17	94	0	61	37	17	17	28	1.92
6077306--6077345	17	2.4	17	82	0	53	57	5	37	0	1.21
6077456--6077516	28	2.2	28	87	0	86	39	18	18	24	1.92
6077945--6077979	17	2.1	17	89	10	54	40	11	5	42	1.65
6082360--6082424	30	2.2	30	83	5	80	29	3	21	46	1.67
6085133--6085232	38	2.6	38	87	0	137	39	19	15	27	1.91
6085330--6085390	31	2.0	31	90	0	95	42	13	18	26	1.86
6088073--6088125	20	2.7	20	80	11	63	26	28	9	35	1.87
6095677--6095729	26	2.0	26	82	10	63	37	7	9	45	1.65
6101035--6101059	2	12.5	2	100	0	50	52	0	0	48	1.00
6103089--6103120	2	16.0	2	93	0	55	46	0	3	50	1.17
6111748--6111780	15	2.1	16	94	5	59	36	0	15	48	1.45
6115626--6115653	2	14.0	2	100	0	56	50	0	0	50	1.00
6121041--6121065	7	3.6	7	100	0	50	32	0	28	40	1.57
6122954--6122994	21	2.1	19	86	9	55	60	9	0	29	1.28
6128183--6128315	66	2.0	66	95	0	239	30	14	13	42	1.84
6129236--6129290	27	2.1	26	89	3	83	29	10	16	43	1.82
6129301--6129342	13	2.9	15	82	13	61	19	7	21	52	1.69
6130065--6130111	20	2.4	19	82	6	58	36	2	14	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6134124--6134194	4	18.0	4	78	8	65	49	19	1	29	1.57
6136761--6136817	24	2.3	24	84	3	69	52	26	0	21	1.47
6136761--6136825	24	2.7	24	81	9	62	52	26	0	21	1.47
6139120--6139165	21	2.1	22	84	11	60	26	23	26	23	2.00
6139312--6139352	2	20.0	2	95	5	73	48	0	2	48	1.14
6139486--6139610	37	3.4	36	64	26	91	28	31	14	25	1.95
6139498--6139610	36	3.1	35	65	28	83	28	31	15	24	1.95
6145464--6145510	14	3.1	15	81	9	60	0	23	0	76	0.78
6145458--6145513	5	11.2	5	78	17	55	0	21	0	78	0.75
6145685--6145774	33	2.6	33	79	8	101	34	31	11	23	1.90
6145787--6145855	35	2.0	35	97	0	129	34	34	10	20	1.86
6150023--6150085	22	2.9	22	97	0	117	42	23	6	26	1.78
6152092--6152148	25	2.3	26	81	9	73	14	26	14	45	1.82
6152168--6152244	5	16.0	5	84	10	90	0	18	2	79	0.85
6154646--6154813	80	2.1	80	84	4	214	33	8	22	34	1.86
6156155--6156265	37	3.0	37	84	2	152	27	11	37	22	1.89
6157672--6157709	20	1.9	20	84	10	51	34	0	18	47	1.49
6162052--6162170	59	2.0	59	95	0	211	36	5	26	31	1.80
6170839--6170908	35	2.0	34	86	2	95	31	27	12	28	1.93
6200564--6200643	40	2.0	41	92	2	135	16	18	26	38	1.92
6206124--6206212	44	2.0	44	100	0	178	20	22	25	31	1.98
6213396--6213591	42	4.7	42	84	3	216	20	32	22	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6213405--6213592	84	2.3	83	88	0	277	21	30	23	24	1.99
6213627--6213662	2	18.0	2	100	0	72	50	0	0	50	1.00
6217762--6218025	138	1.9	137	96	0	483	31	22	15	30	1.94
6220745--6220903	42	3.8	42	82	0	210	20	33	20	25	1.97
6222885--6222912	2	14.0	2	100	0	56	50	0	0	50	1.00
6224602--6224758	78	2.0	78	97	0	296	29	3	28	37	1.75
6227346--6227392	23	2.0	23	88	8	69	48	4	0	46	1.21
6231260--6231377	43	2.7	43	80	0	137	23	18	36	21	1.95
6231379--6231437	3	20.7	3	77	10	52	25	1	40	32	1.66
6231370--6231437	23	3.1	23	85	12	99	25	2	41	30	1.70

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