genome.fa.s4.2.7.7.80.10.50.1000.64.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  64  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)
23001036--23001060	2	12.5	2	100	0	50	48	0	0	52	1.00
23005635--23005673	11	3.5	11	82	6	51	51	0	10	38	1.36
23009245--23009286	22	1.9	22	85	9	59	45	26	4	23	1.73
23010545--23010717	84	2.0	87	87	7	255	52	8	8	30	1.61
23010755--23010810	29	1.9	29	86	13	80	35	5	0	58	1.21
23011821--23011918	50	2.0	50	81	4	117	37	23	13	25	1.91
23017698--23017742	18	2.5	18	81	0	54	37	4	0	57	1.19
23017715--23017781	28	2.6	25	76	15	64	38	1	1	58	1.17
23017732--23017791	29	2.1	28	90	6	95	38	1	3	56	1.26
23018053--23018116	26	2.4	28	80	15	73	59	1	0	39	1.07
23022045--23022069	2	12.5	2	100	0	50	52	0	0	48	1.00
23023120--23023144	13	1.9	13	100	0	50	0	12	0	88	0.53
23034178--23034202	2	12.5	2	100	0	50	48	0	0	52	1.00
23034235--23034261	2	13.5	2	100	0	54	48	0	0	51	1.00
23043783--23043828	21	2.2	21	84	0	56	32	8	17	41	1.80
23048844--23048882	15	2.7	15	92	7	64	56	0	5	38	1.22
23057861--23057890	6	5.0	6	95	0	51	16	16	46	20	1.84
23070516--23070565	2	28.0	2	77	22	58	50	0	0	50	1.00
23070516--23070566	23	2.2	24	89	10	88	49	0	0	50	1.00
23081881--23081911	2	15.5	2	100	0	62	48	0	0	51	1.00
23083387--23083473	19	4.4	20	78	20	87	20	1	1	77	0.91
23083388--23083473	10	8.8	10	75	20	60	19	1	1	77	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23083387--23083476	26	3.6	25	71	20	82	20	1	1	77	0.89
23093026--23093286	130	2.0	130	98	1	506	30	16	15	37	1.90
23093361--23093409	18	2.6	19	81	18	66	28	2	0	69	1.00
23093361--23093410	19	2.6	20	81	9	68	28	2	0	70	0.99
23101025--23101075	18	2.7	19	73	11	52	41	9	3	45	1.56
23108361--23108411	21	2.4	21	96	0	93	25	19	17	37	1.94
23111553--23111593	21	1.9	22	90	5	66	26	34	4	34	1.78
23114740--23114807	18	3.5	20	76	18	56	17	2	4	75	1.10
23114761--23114812	18	2.8	19	82	5	61	21	3	1	73	1.10
23114761--23114815	19	2.9	18	83	5	65	21	5	1	70	1.16
23124255--23124439	94	2.0	92	98	1	352	40	9	14	35	1.78
23124787--23124823	12	3.2	11	88	11	56	70	0	0	29	0.88
23124785--23124818	10	3.3	10	88	8	50	73	0	0	26	0.83
23130142--23130235	32	2.9	32	95	0	170	26	18	10	44	1.82
23132490--23132554	34	1.9	34	87	0	94	20	12	24	43	1.86
23133124--23133210	26	3.2	25	72	15	68	39	6	9	44	1.63
23135819--23136317	257	1.9	256	92	0	827	21	21	21	35	1.96
23137323--23137535	106	2.0	106	81	0	246	24	15	19	39	1.91
23137811--23137874	33	2.0	32	84	6	85	29	9	0	60	1.28
23139497--23139587	30	3.0	30	85	3	112	32	7	7	51	1.59
23145619--23145665	24	2.0	24	91	0	76	23	10	10	55	1.65
23150086--23150131	23	2.0	23	91	0	74	39	6	13	41	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23153591--23153659	23	3.0	23	95	0	120	39	8	13	39	1.75
23171713--23171779	24	2.9	23	82	4	71	40	11	2	44	1.56
23180620--23180659	17	2.4	17	86	0	62	42	2	2	52	1.28
23183200--23183238	20	2.0	20	85	10	53	64	0	0	35	0.94
23183250--23183945	350	2.0	344	84	4	889	45	7	5	41	1.55
23183902--23183945	15	3.0	15	78	15	56	45	0	6	47	1.29
23184266--23184306	2	22.0	2	80	14	52	51	0	0	48	1.00
23188635--23188679	23	1.9	23	86	4	63	40	13	8	37	1.76
23188647--23188692	23	2.0	23	91	0	74	39	10	13	36	1.79
23192723--23192749	13	2.1	13	100	0	54	29	0	0	70	0.88
23194153--23194190	13	3.1	13	85	11	53	47	7	0	44	1.32
23195416--23195453	19	2.0	19	100	0	76	42	31	0	26	1.56
23225207--23225270	26	2.5	26	76	16	71	60	7	0	31	1.25
23225317--23225375	30	2.0	30	86	0	82	35	0	6	57	1.25
23225695--23225733	20	1.9	21	94	5	71	41	0	0	58	0.98
23232046--23232071	2	13.0	2	100	0	52	50	0	0	50	1.00
23235461--23235494	2	17.5	2	93	6	61	52	0	47	0	1.00
23235461--23235496	15	2.5	15	95	4	65	52	0	47	0	1.00
23236794--23236893	24	4.2	24	67	12	71	49	0	3	48	1.16
23237821--23237852	16	1.9	17	93	6	57	87	6	3	3	0.73
23237820--23237862	20	2.1	21	87	8	63	86	4	6	2	0.79
23239871--23239958	26	3.4	25	72	22	67	69	1	5	23	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23239901--23239966	17	3.8	17	74	6	62	66	1	6	25	1.23
23248275--23248440	84	2.0	84	97	0	314	35	18	18	27	1.94
23249608--23249642	11	3.0	11	88	12	52	60	11	8	20	1.57
23250525--23250575	22	2.5	20	87	12	70	64	7	3	23	1.37
23250524--23250569	22	2.1	22	100	0	92	63	8	4	23	1.42
23250965--23250993	14	2.0	15	93	6	51	51	0	0	48	1.00
23252594--23252627	2	17.5	2	87	6	52	2	50	0	47	1.16
23259462--23259487	12	2.2	12	100	0	52	15	53	7	23	1.67
23272082--23272145	30	2.1	30	83	11	78	10	9	42	37	1.73
23272034--23272264	108	2.1	108	99	0	453	13	8	41	36	1.75
23272190--23272253	30	2.1	30	83	11	78	10	9	42	37	1.73
23277537--23277563	2	13.5	2	100	0	54	51	0	0	48	1.00
23279355--23279404	2	25.0	2	95	0	91	50	2	0	48	1.12
23279858--23279896	16	2.4	16	100	0	78	30	17	20	30	1.96
23287466--23287517	26	2.0	27	84	3	70	42	5	17	34	1.73
23287993--23288022	15	2.1	14	93	6	51	83	3	0	13	0.77
23304131--23304181	22	2.3	22	96	0	93	50	3	11	33	1.57
23323838--23323862	10	2.5	10	100	0	50	84	0	8	8	0.79
23324459--23324537	39	2.0	39	95	0	140	34	12	46	6	1.67
23328420--23328493	35	2.1	35	87	5	105	52	12	12	22	1.71
23334728--23334771	13	3.3	14	84	6	56	84	0	15	0	0.63
23334728--23334774	12	3.8	12	80	8	51	80	0	19	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23335561--23335625	28	2.3	29	80	15	75	4	18	1	75	1.05
23336218--23336313	39	2.5	37	78	15	106	5	16	2	76	1.07
23336287--23336327	21	1.9	22	95	5	75	0	14	2	82	0.76
23336253--23336327	30	2.5	31	80	8	84	2	20	2	74	1.06
23336760--23336807	18	2.7	18	80	6	53	35	2	12	50	1.52
23341289--23341321	4	8.5	4	86	6	50	72	0	27	0	0.85
23342136--23342169	18	1.9	18	88	5	52	64	5	0	29	1.17
23344725--23344770	21	2.2	22	80	11	60	54	13	10	21	1.69
23345285--23345336	23	2.3	23	83	3	61	57	1	5	34	1.33
23348870--23348908	21	1.9	20	89	5	60	53	10	2	33	1.48
23348904--23348977	30	2.5	28	77	14	78	31	9	8	51	1.63
23349256--23349300	24	1.9	23	81	4	54	28	6	4	60	1.42
23350697--23350758	22	2.7	23	82	14	74	62	0	1	35	1.05
23350697--23350759	23	2.8	21	85	11	72	61	0	1	36	1.05
23350723--23350775	27	1.9	27	88	11	81	60	0	0	39	0.97
23351092--23351141	18	2.7	18	76	17	57	32	0	0	68	0.90
23351093--23351135	9	4.7	9	80	13	52	32	0	0	67	0.91
23352155--23352197	16	2.8	16	78	3	52	2	23	0	74	0.93
23352162--23352213	16	3.1	16	76	15	50	1	15	0	82	0.75
23352177--23352237	19	3.0	20	73	19	63	4	13	0	81	0.83
23352401--23352464	24	2.6	24	83	11	69	51	0	3	45	1.17
23355157--23355270	23	4.9	23	74	8	95	28	21	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23359899--23359953	24	2.3	23	79	14	58	78	5	3	12	1.06
23359944--23360003	28	2.1	29	82	11	72	55	0	5	40	1.22
23363729--23363883	57	2.8	56	80	6	179	17	14	16	52	1.75
23373321--23373354	15	2.3	15	89	0	50	50	2	2	44	1.32
23378244--23378298	18	3.1	18	77	15	60	43	7	5	43	1.55
23389630--23389706	27	2.9	26	78	7	75	37	2	2	57	1.27
23389777--23389835	21	2.8	21	79	18	61	44	0	0	55	0.99
23391313--23391361	13	3.3	16	72	18	52	51	0	0	48	1.00
23391383--23391440	26	2.3	25	80	11	64	51	0	0	48	1.00
23391409--23391457	22	2.2	22	82	7	55	63	0	0	36	0.95

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