genome.fa.s7.2.7.7.80.10.50.1000.29.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  29  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)
9924899--9924933	16	2.3	15	90	5	52	57	0	0	42	0.99
9940096--9940204	25	4.4	25	77	0	101	24	19	23	32	1.98
9944482--9944537	24	2.3	25	87	3	78	69	12	7	10	1.36
9946824--9946874	20	2.5	20	100	0	102	21	19	17	41	1.91
9946778--9946891	20	5.8	19	77	4	93	21	19	16	42	1.89
9952616--9952714	40	2.5	40	83	0	126	25	20	6	48	1.72
9956595--9956633	18	2.2	18	85	0	51	15	0	7	76	0.99
9962474--9962551	26	3.0	24	76	22	70	24	5	3	66	1.29
9962445--9962547	45	2.2	46	84	8	129	24	4	3	66	1.28
9964240--9964299	5	11.6	5	81	13	68	13	5	1	80	0.96
9978941--9978987	20	2.3	20	85	0	67	36	6	0	57	1.24
9991520--9991628	44	2.5	44	83	3	130	31	20	19	29	1.97
9991647--9991759	44	2.5	46	82	5	142	30	22	23	24	1.99
9993377--9993423	20	2.3	20	85	0	67	36	6	0	57	1.24
9998893--9998958	25	2.6	25	76	4	71	28	22	22	25	1.99
10001862--10001986	50	2.5	50	85	2	180	19	29	24	26	1.98
10005238--10005275	18	2.1	18	90	0	58	42	47	2	7	1.46
10005881--10005956	34	2.1	38	83	9	97	2	7	9	80	1.00
10014964--10014997	16	2.1	17	94	5	61	67	0	0	32	0.91
10017447--10017478	16	1.9	17	93	6	57	28	15	0	56	1.40
10019091--10019162	28	2.6	28	90	0	108	31	12	26	29	1.93
10019091--10019171	28	3.0	24	76	16	63	33	12	23	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10019883--10020052	70	2.4	70	93	0	268	28	12	16	42	1.85
10019996--10020108	47	2.4	47	95	0	199	29	12	15	43	1.83
10019907--10020053	70	2.1	70	98	0	285	28	11	17	42	1.83
10019926--10020156	117	2.0	118	93	0	401	28	12	16	43	1.84
10020043--10020259	72	3.1	70	82	5	231	27	11	17	42	1.85
10026384--10026430	23	2.0	23	95	0	85	25	14	17	42	1.87
10026389--10026478	23	3.8	25	70	19	75	27	13	18	40	1.88
10026351--10026499	71	2.1	72	80	6	160	28	12	19	39	1.87
10031840--10032726	28	31.7	28	98	0	1704	32	14	24	28	1.94
10033450--10033571	23	5.3	23	73	3	66	25	14	18	40	1.89
10033436--10033591	70	2.2	70	87	0	213	27	12	17	42	1.84
10033472--10033614	70	2.0	70	93	0	241	29	11	15	44	1.81
10033629--10033730	23	4.3	24	75	4	100	25	16	16	41	1.89
10036109--10036322	41	5.2	41	84	1	252	35	25	13	26	1.93
10043414--10043609	41	4.8	41	83	5	218	35	24	12	27	1.92
10043414--10043609	82	2.4	81	85	4	250	35	24	12	27	1.92
10048475--10048522	25	1.9	25	83	8	62	25	20	12	41	1.87
10059799--10059957	51	3.1	51	64	15	137	23	22	24	30	1.99
10059704--10060009	103	3.0	103	94	0	513	22	21	25	30	1.99
10071010--10071094	42	2.0	41	86	2	116	47	11	10	30	1.74
10078699--10078779	25	3.2	24	85	3	99	35	13	30	19	1.91
10081083--10081173	45	2.0	45	100	0	182	24	24	8	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10088498--10088544	22	2.1	23	96	4	87	36	17	27	19	1.93
10096145--10096218	36	2.1	36	92	5	123	24	21	14	39	1.91
10098561--10099043	69	7.1	69	78	4	426	21	19	21	37	1.95
10114729--10115200	262	1.8	262	81	7	600	41	17	12	28	1.86
10121294--10121334	9	4.4	9	90	6	64	82	0	17	0	0.66
10121294--10121334	19	2.2	19	91	4	66	82	0	17	0	0.66
10122000--10122032	16	2.1	16	88	11	50	39	0	15	45	1.46
10123261--10123307	21	2.2	22	81	11	62	8	4	31	55	1.49
10123270--10123312	11	3.9	11	80	20	54	9	2	32	55	1.44
10128163--10128201	14	2.8	14	96	0	69	20	23	0	56	1.42
10128588--10128696	37	2.9	40	75	18	101	52	3	2	41	1.33
10131162--10131221	30	2.0	31	86	3	86	20	40	0	40	1.52
10132024--10132208	101	1.8	102	85	3	266	25	15	25	32	1.96
10132020--10132206	51	3.7	50	77	7	198	26	15	26	32	1.96
10132217--10132302	45	1.9	45	90	0	136	27	15	24	32	1.95
10136559--10136628	34	2.1	34	100	0	140	24	8	17	50	1.74
10143795--10143930	66	2.1	65	94	1	236	50	9	8	31	1.66
10143933--10143980	25	1.9	25	95	0	87	25	27	10	37	1.88
10143933--10143992	25	2.4	25	88	0	84	23	23	13	40	1.90
10144764--10144839	37	2.1	36	85	7	100	55	2	2	39	1.28
10145716--10145907	91	2.1	90	82	4	226	32	21	13	32	1.92
10173766--10173851	40	2.2	39	93	4	147	73	13	11	1	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10185939--10186002	32	2.0	32	93	3	112	32	17	10	39	1.84
10193353--10193395	20	2.2	20	86	0	59	48	0	4	46	1.22
10201282--10201327	22	2.1	22	96	4	85	26	15	4	54	1.59
10208854--10209017	43	3.8	42	84	4	204	31	26	16	25	1.96
10210106--10210130	13	1.9	13	100	0	50	40	24	4	32	1.73
10212359--10212390	16	2.0	16	93	0	55	50	9	3	37	1.51
10222174--10222226	26	2.0	26	96	0	97	50	5	15	28	1.66
10222217--10222249	2	17.0	2	93	6	59	51	0	0	48	1.00
10224081--10224802	359	2.0	359	99	0	1435	36	5	18	39	1.73
10226237--10226619	187	2.0	187	89	1	579	27	24	28	19	1.98
10232286--10232324	20	2.0	20	89	0	60	28	20	12	38	1.89
10234735--10234901	54	3.1	53	83	1	208	34	14	22	29	1.93
10234744--10234921	54	3.3	54	80	4	144	34	14	21	29	1.93
10235254--10235313	29	2.0	31	83	6	79	25	20	25	30	1.99
10235575--10235609	6	5.8	6	93	0	52	0	68	0	31	0.90
10238649--10238684	16	2.2	16	100	0	72	38	36	0	25	1.56
10241107--10241136	13	2.3	13	94	0	51	30	0	0	70	0.88
10241293--10241336	20	2.2	20	84	8	54	54	9	4	31	1.52
10248553--10248602	16	3.4	16	73	21	63	34	2	18	46	1.60
10248551--10248619	28	2.4	28	90	2	111	34	2	15	46	1.61
10249800--10249828	15	1.9	15	100	0	58	55	13	10	20	1.68
10251872--10251915	13	3.1	14	87	9	63	50	43	0	6	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10251879--10251923	7	6.6	7	79	5	56	48	46	0	4	1.22
10251872--10251915	14	3.2	14	83	6	63	50	43	0	6	1.29
10251879--10251923	14	3.3	13	87	9	63	48	46	0	4	1.22
10252297--10252452	81	1.9	80	85	6	217	43	28	0	27	1.60
10252967--10253547	114	5.1	114	82	7	628	27	24	21	25	1.99
10255135--10255175	22	1.9	22	85	5	57	36	7	9	46	1.65
10255529--10255564	15	2.3	16	90	9	65	50	16	11	22	1.77
10256519--10256681	43	3.8	42	84	4	211	28	16	25	28	1.97
10258232--10258264	12	2.8	12	86	13	50	54	6	18	21	1.64
10258872--10258914	23	1.9	23	86	13	63	27	4	18	48	1.68
10266486--10266650	43	3.9	42	78	7	163	28	16	24	29	1.97
10272534--10272699	40	4.2	40	85	1	199	15	15	23	45	1.85
10274963--10275035	34	2.1	34	82	2	83	34	8	16	41	1.78
10275164--10275315	43	3.5	43	77	7	139	24	17	27	30	1.97
10278461--10278542	40	2.0	40	95	0	146	20	23	35	20	1.96
10278501--10278667	50	3.4	49	79	4	156	28	23	27	20	1.99
10278545--10278667	49	2.5	50	80	4	142	32	21	25	21	1.98
10284381--10284451	36	2.0	35	86	5	99	28	5	5	60	1.42
10287004--10287067	17	3.6	17	73	19	58	29	3	15	51	1.59
10288605--10288814	102	2.1	102	95	0	375	40	14	15	28	1.87
10297603--10297644	22	1.9	22	85	0	57	42	4	23	28	1.74
10297699--10297734	6	5.7	6	87	12	54	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10298035--10298060	7	3.7	7	100	0	52	11	73	0	15	1.11
10301718--10301757	20	2.0	20	100	0	80	20	0	45	35	1.51
10310160--10310198	4	9.8	4	82	0	51	20	20	2	56	1.54
10310148--10310198	8	6.4	8	80	17	52	17	21	1	58	1.48
10310148--10310197	20	2.5	20	86	0	73	16	22	2	60	1.46
10319933--10320027	45	2.1	45	84	0	118	22	23	13	41	1.89
10326226--10326276	26	2.0	26	84	3	68	58	15	3	21	1.53
10326697--10326741	23	1.9	24	86	4	65	33	24	22	20	1.97
10327758--10327803	22	2.3	18	85	14	56	58	0	28	13	1.35
10332698--10332757	33	1.9	33	83	10	81	41	11	6	40	1.68

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