genome.fa.s7.2.7.7.80.10.50.1000.33.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:  26558743

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   

This is table  33  of  79  ( 9388 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)
11295740--11295777	19	2.0	19	94	0	67	36	13	10	39	1.79
11298339--11298455	39	3.0	38	92	3	189	49	27	3	19	1.64
11298458--11298512	27	2.0	27	96	0	101	34	23	3	38	1.73
11298677--11298734	9	6.4	9	85	0	53	25	8	24	41	1.83
11308708--11308769	29	2.1	29	79	8	72	25	9	17	46	1.79
11313438--11313494	15	3.5	15	71	17	51	49	0	1	49	1.11
11313440--11313476	19	1.9	19	88	0	56	48	0	0	51	1.00
11316558--11316594	19	2.0	19	89	5	58	54	0	18	27	1.44
11324333--11324376	19	2.3	19	88	0	61	52	22	9	15	1.71
11324349--11324493	74	2.0	72	86	5	202	59	15	8	15	1.60
11324564--11324605	22	1.9	22	90	0	66	64	26	0	9	1.24
11330731--11330784	26	2.1	26	96	0	99	25	22	20	31	1.98
11331678--11331718	21	1.9	22	95	5	75	58	0	12	29	1.34
11338413--11338573	79	2.0	80	95	3	290	33	9	9	47	1.69
11340146--11340181	19	1.9	18	88	5	54	30	5	5	58	1.44
11342088--11342375	144	2.0	144	98	1	560	35	11	8	45	1.70
11344288--11344318	13	2.5	12	94	5	53	70	0	6	22	1.09
11344288--11344350	25	2.5	25	82	12	67	66	0	7	25	1.18
11344929--11344997	21	3.3	21	77	0	75	55	2	8	33	1.46
11347414--11347462	18	2.6	19	84	12	66	55	2	0	42	1.11
11348564--11348596	17	2.0	17	94	5	59	51	0	6	42	1.26
11350790--11351074	69	4.1	69	77	1	277	16	35	11	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11350790--11351074	138	2.1	138	81	4	324	16	35	11	37	1.85
11352345--11352374	15	2.0	15	93	0	51	83	0	6	10	0.81
11353020--11353067	24	2.0	24	100	0	96	37	12	33	16	1.86
11356642--11356701	31	1.9	31	86	6	86	30	0	33	36	1.58
11357214--11357247	17	2.1	17	88	5	52	23	5	11	58	1.55
11361259--11361304	24	2.0	24	91	4	76	47	8	26	17	1.76
11366814--11367022	96	2.2	96	83	3	251	14	21	33	30	1.93
11366814--11367037	48	4.7	48	80	4	218	14	20	34	30	1.93
11367883--11367934	15	3.2	15	73	19	50	44	0	1	53	1.11
11369333--11369410	21	3.7	21	76	17	81	34	8	17	38	1.82
11369332--11369387	21	2.8	19	87	10	85	33	10	19	35	1.87
11376009--11376151	44	3.2	44	72	7	137	21	24	27	26	1.99
11376458--11376605	42	3.4	42	79	10	147	33	13	24	28	1.93
11376952--11377007	21	2.8	19	87	10	85	33	10	19	35	1.87
11377204--11377233	15	2.0	15	93	0	51	16	0	0	83	0.65
11378401--11378458	30	1.9	29	82	6	71	34	6	6	51	1.55
11387267--11387860	50	11.9	50	69	3	338	26	21	21	30	1.99
11387295--11387860	100	5.7	99	84	2	758	25	21	22	29	1.99
11387295--11387860	199	2.8	198	88	1	846	25	21	22	29	1.99
11389279--11389321	21	2.0	21	100	0	86	11	9	9	69	1.36
11389751--11389800	8	6.0	8	77	9	55	0	6	16	78	0.95
11390359--11390394	16	2.2	16	90	5	54	52	0	2	44	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11390760--11390789	14	2.1	15	93	6	53	33	0	3	63	1.11
11390925--11390959	15	2.3	15	90	0	52	74	0	5	20	1.02
11398515--11398566	16	3.2	16	97	0	95	25	0	34	40	1.56
11407497--11407550	28	1.9	28	85	7	74	9	14	7	68	1.38
11412350--11412593	116	2.1	116	98	1	472	50	11	9	29	1.69
11412579--11412635	18	3.1	18	76	2	60	63	1	1	33	1.15
11412872--11412922	13	3.9	13	78	0	57	33	0	0	66	0.92
11412867--11412924	6	8.8	6	76	16	53	36	0	0	63	0.94
11416045--11416079	18	1.9	18	94	0	61	48	0	0	51	1.00
11416060--11416154	38	2.6	38	80	12	101	47	1	1	50	1.15
11431322--11431380	22	2.7	23	78	7	68	13	8	13	64	1.49
11437122--11437178	6	9.5	6	100	0	114	15	17	15	50	1.78
11444053--11444207	42	3.7	42	83	0	177	43	18	23	14	1.86
11444084--11444147	21	3.0	21	71	8	58	40	18	25	15	1.90
11444158--11444207	20	2.4	21	86	3	66	46	18	20	16	1.85
11444158--11444208	21	2.5	20	87	3	66	45	17	19	17	1.86
11446644--11446694	23	2.2	23	92	0	84	13	5	33	47	1.67
11449124--11449171	13	3.5	13	83	10	69	52	8	22	16	1.71
11449131--11449178	15	3.3	15	82	11	73	50	8	20	20	1.74
11449124--11449178	28	2.0	28	96	0	101	50	9	21	18	1.74
11466684--11466712	3	9.7	3	100	0	58	65	0	0	34	0.93
11467273--11467324	19	2.8	19	77	13	63	76	0	11	11	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11478568--11478619	3	17.3	3	100	0	104	67	0	32	0	0.91
11479660--11479730	21	3.4	21	78	0	70	12	7	39	40	1.70
11481859--11481919	20	2.9	19	76	13	59	45	11	9	32	1.73
11484806--11484837	2	16.0	2	93	0	55	46	0	3	50	1.17
11486091--11486140	3	17.0	3	87	4	75	66	2	2	30	1.14
11487442--11487487	22	2.0	23	88	12	69	13	2	13	71	1.23
11487719--11488354	44	14.4	44	74	8	335	25	23	19	30	1.98
11487699--11488322	89	7.1	88	76	8	409	25	22	20	31	1.98
11487808--11488145	133	2.5	132	78	8	373	26	22	19	31	1.98
11487812--11488372	134	4.2	134	79	4	444	26	23	19	30	1.98
11487930--11488369	179	2.5	178	80	5	444	26	24	19	30	1.98
11487812--11488354	45	12.2	45	75	6	387	26	24	18	30	1.98
11497213--11497239	10	2.7	10	100	0	54	22	22	11	44	1.84
11498401--11498440	12	3.1	13	82	10	55	15	0	15	70	1.18
11498401--11498453	25	2.1	25	86	6	72	13	1	15	69	1.27
11502683--11502717	9	3.8	9	96	3	61	77	2	0	20	0.90
11502679--11502726	9	5.2	9	85	9	53	75	6	2	16	1.11
11502736--11502770	6	5.7	6	86	6	52	71	11	0	17	1.14
11502736--11502777	13	3.3	13	90	3	59	71	11	0	16	1.14
11503636--11503673	15	2.5	15	83	8	51	71	0	13	15	1.16
11504710--11504750	19	2.2	19	100	0	82	41	21	4	31	1.74
11504865--11505095	44	5.2	44	78	6	261	32	19	25	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11504868--11505095	88	2.6	88	92	0	375	32	19	25	21	1.97
11517074--11517352	88	3.2	88	93	0	468	30	21	25	21	1.98
11517075--11517352	44	6.3	44	87	0	385	30	21	25	21	1.99
11517345--11517507	88	1.9	88	84	2	220	25	23	28	22	1.99
11517363--11517500	44	3.1	45	68	8	120	24	23	28	23	1.99
11528282--11528322	21	1.9	22	85	5	57	68	0	19	12	1.21
11542346--11542402	21	2.8	21	89	5	82	12	24	17	45	1.83
11543322--11543415	42	2.2	42	90	0	143	21	34	25	19	1.96
11543593--11543626	11	2.8	12	91	8	52	44	8	11	35	1.72
11544534--11544817	33	7.8	33	70	19	172	21	17	26	35	1.95
11544567--11544777	42	5.5	41	72	19	202	21	16	27	35	1.94
11544530--11544815	75	3.8	75	96	0	500	21	17	26	34	1.95
11552468--11552525	21	2.9	21	82	12	68	13	31	17	37	1.89
11555042--11555071	15	2.0	15	100	0	60	20	13	13	53	1.72
11559763--11559806	20	2.1	21	87	4	63	45	40	0	13	1.44
11565498--11565607	45	2.4	45	86	0	157	41	20	19	18	1.90
11565555--11565634	39	2.1	39	88	2	117	40	21	18	20	1.92
11567521--11567565	21	2.1	21	100	0	90	40	13	8	37	1.76
11570041--11570180	50	2.8	50	85	5	192	32	14	14	38	1.86
11579637--11579678	22	1.9	23	85	9	61	42	7	2	47	1.43
11582854--11582896	10	4.2	10	82	11	52	74	0	2	23	0.93
11593514--11593639	40	3.2	40	91	0	198	17	28	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11593524--11593629	20	5.3	20	68	8	72	17	30	19	32	1.96
11593537--11593637	20	5.0	21	68	13	86	16	26	19	36	1.93
11595775--11595833	31	1.9	31	89	0	91	37	8	8	45	1.65
11599783--11600646	207	4.2	207	100	0	1728	30	12	17	38	1.88
11600835--11600861	14	1.9	14	100	0	54	22	18	7	51	1.70
11606825--11607064	123	1.9	124	88	0	356	39	14	11	35	1.81
11608897--11608941	19	2.4	19	85	7	56	17	4	8	68	1.32
11612829--11612853	2	12.5	2	100	0	50	52	0	0	48	1.00
11613165--11613208	22	2.0	22	86	0	61	50	11	4	34	1.59
11628693--11628770	27	2.9	26	81	5	93	37	15	26	20	1.92

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