genome.fa.s4.2.7.7.80.10.50.1000.31.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  31  of  82  ( 9773 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)
11085062--11085291	61	3.8	61	84	0	307	26	29	17	26	1.98
11088315--11088340	2	13.0	2	100	0	52	50	0	0	50	1.00
11088381--11088504	41	3.0	42	86	2	178	22	33	20	23	1.98
11097689--11097905	61	3.6	61	83	1	256	25	29	18	25	1.98
11097677--11097905	122	1.9	122	83	1	298	25	30	18	24	1.98
11099953--11099990	20	2.0	20	94	5	69	21	26	15	36	1.93
11100727--11100845	43	2.8	43	84	0	139	26	18	35	20	1.95
11103328--11103471	35	4.1	35	87	3	191	34	5	31	28	1.80
11103328--11103471	70	2.1	70	89	0	216	34	5	31	28	1.80
11104686--11104754	36	1.9	36	87	0	102	21	10	43	24	1.83
11104731--11104824	36	2.5	38	83	13	106	24	13	34	27	1.93
11104749--11104824	36	2.1	36	92	0	125	25	13	31	30	1.93
11111126--11111154	14	2.1	14	100	0	58	34	34	0	31	1.58
11118343--11118371	10	2.7	11	89	10	51	0	24	6	68	1.13
11122764--11122888	42	3.0	42	87	4	155	21	21	33	23	1.97
11123191--11123236	21	2.2	21	84	0	56	26	23	19	30	1.98
11130492--11130517	2	13.0	2	100	0	52	50	0	0	50	1.00
11133710--11133813	38	2.7	37	83	7	118	21	37	18	23	1.94
11133930--11133956	2	13.5	2	100	0	54	51	0	0	48	1.00
11136950--11137025	39	2.0	37	87	10	109	48	5	34	11	1.62
11138018--11138234	55	3.9	55	86	3	301	25	34	16	23	1.95
11138018--11138229	110	1.9	111	90	2	338	25	34	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11138030--11138265	110	2.2	107	82	7	282	25	35	16	23	1.95
11139019--11139045	14	1.9	14	100	0	54	74	3	22	0	0.98
11141545--11141592	25	1.9	25	91	0	78	27	12	31	29	1.93
11160326--11160356	2	15.5	2	100	0	62	51	0	0	48	1.00
11160285--11160431	69	2.1	68	96	3	276	46	14	1	37	1.53
11160395--11160425	2	15.5	2	100	0	62	51	0	0	48	1.00
11160461--11160543	42	2.0	43	87	2	123	24	33	16	25	1.96
11165642--11165764	43	2.9	42	89	3	174	24	33	17	24	1.97
11166214--11166270	29	1.9	30	82	3	71	54	15	3	26	1.57
11176678--11176842	54	3.1	54	86	0	231	25	39	13	21	1.90
11179473--11179510	19	2.0	19	89	0	58	31	0	28	39	1.57
11182091--11182134	15	2.9	15	80	12	63	25	4	18	52	1.64
11192372--11192498	43	3.0	42	89	3	191	24	32	17	25	1.97
11196737--11196776	21	2.0	21	85	9	57	27	22	2	47	1.64
11197576--11197615	18	2.3	17	91	4	62	72	5	22	0	1.04
11201789--11201921	42	3.2	41	80	2	149	24	17	33	24	1.96
11201810--11201973	42	3.9	42	75	3	132	25	17	33	23	1.96
11201785--11201955	84	2.0	84	87	2	245	23	18	33	24	1.97
11201997--11202026	2	15.0	2	100	0	60	50	0	0	50	1.00
11201975--11202085	57	2.0	56	100	0	213	36	3	18	41	1.68
11202054--11202083	2	15.0	2	100	0	60	50	0	0	50	1.00
11205843--11205884	22	1.9	22	90	9	68	50	0	26	23	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11207771--11207808	20	1.9	20	94	0	67	13	42	7	36	1.73
11208709--11208816	35	3.1	35	89	0	162	28	10	30	30	1.90
11208847--11208871	2	12.5	2	100	0	50	48	0	0	52	1.00
11219933--11220085	55	2.8	55	91	3	229	29	32	14	23	1.94
11224503--11224611	38	2.8	40	73	8	107	24	33	15	25	1.95
11247537--11247655	43	2.8	43	88	2	168	21	20	37	20	1.94
11247547--11247668	43	2.8	43	87	2	165	22	18	39	19	1.92
11251135--11251169	2	17.5	2	100	0	70	0	0	48	51	1.00
11251196--11251337	42	3.4	42	88	0	203	21	23	34	20	1.97
11263719--11263776	20	2.8	20	86	2	80	36	13	25	24	1.92
11284832--11284865	3	11.3	3	100	0	68	0	35	0	64	0.94
11292291--11292327	12	3.2	11	88	11	56	86	0	0	13	0.57
11300595--11300854	130	2.0	128	97	2	502	28	18	27	25	1.98
11313625--11313657	11	2.8	12	90	4	50	30	3	3	63	1.24
11313622--11313661	20	2.1	19	85	4	53	30	2	2	65	1.19
11318856--11318915	30	2.1	29	81	6	68	31	8	21	38	1.83
11377368--11377392	8	3.1	8	100	0	50	76	0	24	0	0.80
11390257--11390297	19	2.2	19	86	8	57	48	4	24	21	1.69
11395380--11395466	43	2.0	43	88	0	129	21	17	37	22	1.93
11395537--11395620	2	41.5	2	92	2	78	44	0	0	44	1.04
11398285--11398343	31	1.9	31	96	0	109	37	23	15	23	1.93
11402555--11402788	78	3.0	77	92	3	389	41	12	11	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11404275--11404340	22	2.8	24	79	11	82	37	13	4	43	1.65
11404519--11404586	14	4.6	14	67	22	50	39	19	14	26	1.90
11404493--11404590	45	2.2	46	92	1	162	37	15	14	32	1.87
11405134--11405158	2	12.5	2	100	0	50	52	0	0	48	1.00
11405516--11405556	18	2.4	17	79	4	55	56	0	0	43	0.99
11411921--11411984	30	2.1	30	88	0	92	54	4	26	14	1.59
11413283--11413319	2	18.5	2	100	0	74	51	48	0	0	1.00
11413780--11413805	2	13.0	2	100	0	52	50	0	0	50	1.00
11416448--11416484	2	18.5	2	100	0	74	48	0	0	51	1.00
11427318--11427428	42	2.6	42	81	0	132	21	33	21	23	1.97
11433667--11433704	12	3.2	12	82	14	51	44	7	28	18	1.78
11434719--11434874	78	2.0	78	91	7	255	41	14	10	33	1.80
11442348--11442388	2	20.5	2	100	0	82	51	0	0	48	1.00
11443180--11443226	22	2.1	22	96	0	85	40	10	4	44	1.59
11443761--11443833	36	2.0	36	94	0	128	42	9	6	41	1.64
11452468--11452521	24	2.3	23	78	15	56	66	11	5	16	1.40
11453712--11453769	18	3.3	18	68	18	59	31	13	5	50	1.64
11453702--11453770	34	2.0	34	100	0	138	28	14	5	50	1.66
11454525--11454591	34	2.0	34	100	0	134	44	7	8	38	1.64
11454785--11454823	19	2.1	19	100	0	78	20	5	35	38	1.75
11454911--11454983	28	2.6	28	86	4	94	54	9	13	21	1.67
11457080--11457163	29	2.9	29	87	0	114	39	7	25	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11475709--11475777	35	2.0	35	82	5	86	30	10	27	31	1.90
11477302--11477357	20	2.9	19	75	19	62	42	1	8	46	1.45
11477703--11477735	17	1.9	17	88	11	50	42	0	9	48	1.35
11479651--11479781	43	3.1	43	86	3	185	23	15	35	25	1.94
11479807--11479856	2	25.0	2	100	0	100	50	0	0	50	1.00
11479934--11479988	2	27.5	2	96	0	101	50	0	0	49	1.00
11483205--11483756	298	1.9	296	80	5	664	21	18	22	36	1.95
11487264--11487306	20	2.2	20	82	0	50	46	13	20	18	1.83
11489407--11489441	11	3.3	11	88	8	54	65	11	22	0	1.24
11494491--11495061	134	4.2	135	82	3	654	29	15	19	35	1.92
11494491--11495061	270	2.1	268	84	4	738	29	15	19	35	1.92
11499965--11500211	35	7.1	35	81	8	274	35	7	14	42	1.73
11499984--11500212	106	2.2	106	85	3	302	35	7	14	42	1.75
11507341--11507536	62	3.2	62	84	0	221	24	21	20	33	1.97
11526655--11526738	42	2.0	42	92	0	141	19	22	35	22	1.96
11533327--11533448	43	2.8	43	88	2	174	22	18	39	18	1.92
11533434--11533496	20	3.2	20	90	2	101	25	3	41	30	1.71
11533509--11533541	2	16.5	2	93	0	57	48	3	0	48	1.17
11535636--11535684	19	2.5	19	83	12	55	18	30	10	40	1.84
11535753--11535829	13	5.5	15	72	24	71	64	0	35	0	0.93
11535763--11535829	4	17.2	4	71	17	52	67	0	32	0	0.91
11535755--11535829	20	3.7	20	92	3	114	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11538402--11538638	62	3.8	62	77	6	235	22	21	20	35	1.96
11541381--11541499	37	3.2	37	88	4	168	29	9	35	26	1.87
11543070--11543231	43	3.8	43	81	4	166	25	35	15	24	1.94
11543228--11543281	20	2.5	21	80	14	58	42	20	1	35	1.63
11549198--11549399	29	6.9	28	82	7	206	38	9	13	38	1.77
11549205--11549399	59	3.3	58	84	5	230	39	9	12	37	1.77
11560369--11560417	22	2.2	22	88	0	71	26	30	18	24	1.98
11563085--11563123	4	9.8	4	83	10	53	69	0	30	0	0.89
11563151--11563218	35	2.0	35	91	2	111	25	10	35	29	1.89
11563152--11563237	35	2.5	35	83	5	97	25	10	29	34	1.89

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