genome.fa.s5.2.7.7.80.10.50.1000.57.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:  30015117

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   

This is table  57  of  85  ( 10117 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)
19964989--19965670	341	2.0	341	100	0	1364	26	18	15	39	1.90
19970079--19970139	20	3.0	20	75	4	68	34	18	31	16	1.93
19970052--19970203	42	3.6	42	77	5	146	38	18	26	16	1.91
19975578--19975607	12	2.5	12	88	0	51	0	20	46	33	1.51
19976089--19976124	18	2.0	18	88	0	54	25	19	36	19	1.95
19976328--19976352	13	1.9	13	100	0	50	16	4	24	56	1.57
19978578--19978811	128	1.8	128	83	3	310	36	11	15	36	1.84
19983547--19983608	21	3.0	21	78	4	63	16	32	25	25	1.96
19991714--19991740	6	4.5	6	100	0	54	14	0	0	85	0.61
20007580--20007708	64	2.0	64	100	0	258	31	4	18	45	1.70
20016503--20016543	22	1.9	21	90	5	64	53	9	0	36	1.34
20028670--20028715	21	2.2	20	84	3	56	45	2	2	50	1.26
20033015--20033087	37	2.1	36	80	14	82	54	5	6	32	1.50
20033211--20033283	37	2.1	36	80	14	82	54	5	6	32	1.50
20032980--20033372	196	2.0	197	99	0	779	51	4	13	30	1.61
20037164--20037246	25	3.3	26	81	8	91	15	21	19	43	1.88
20037190--20037277	25	3.5	26	76	7	74	17	21	21	39	1.92
20040961--20041035	23	3.3	23	92	0	123	34	26	21	17	1.95
20045828--20045896	34	2.0	34	97	0	129	24	28	10	36	1.88
20050772--20050811	15	2.3	18	76	24	50	50	5	0	45	1.23
20050775--20050812	17	2.4	16	91	8	60	47	5	0	47	1.24
20056796--20056941	72	2.0	72	98	0	283	20	11	13	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20060053--20060170	59	2.0	58	90	1	182	22	16	12	47	1.81
20063383--20063421	20	2.0	19	85	5	51	53	7	7	30	1.57
20063773--20063817	18	2.5	18	79	13	56	2	35	28	33	1.70
20065691--20065729	16	2.4	16	91	0	69	58	5	2	33	1.33
20065816--20065965	53	2.8	53	88	1	221	39	10	15	35	1.81
20066596--20066726	60	2.2	60	82	8	142	59	9	0	29	1.35
20066752--20066777	7	3.7	7	100	0	52	61	0	0	38	0.96
20066857--20066902	20	2.3	20	85	7	58	0	32	0	67	0.91
20067992--20068020	9	3.2	9	100	0	58	51	0	0	48	1.00
20071923--20072030	44	2.6	40	77	17	114	37	25	2	33	1.71
20073930--20073968	18	2.2	18	95	0	69	41	43	0	15	1.46
20073981--20074021	20	2.0	21	86	13	59	73	4	0	21	1.02
20077016--20077057	20	2.1	20	86	0	57	47	0	7	45	1.30
20086075--20086119	13	3.4	14	79	14	51	64	0	28	6	1.19
20087979--20088120	76	1.9	76	88	2	214	17	26	21	34	1.95
20088038--20088098	25	2.3	27	86	5	81	18	29	18	34	1.94
20088103--20088210	25	4.4	24	65	14	67	20	25	21	32	1.97
20093009--20093154	41	3.6	40	80	9	145	23	19	28	28	1.99
20094395--20094475	32	2.5	34	76	11	89	48	12	4	34	1.62
20097883--20097936	24	2.3	24	87	3	74	29	1	22	46	1.62
20098850--20098915	29	2.3	29	87	5	91	42	18	24	15	1.88
20102195--20102221	13	2.1	13	100	0	54	7	14	7	70	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20112677--20113042	123	2.9	125	90	2	565	29	15	20	33	1.94
20116869--20116988	28	4.4	29	68	17	103	21	2	24	51	1.60
20116922--20117000	28	2.8	29	75	11	83	24	2	25	48	1.64
20116356--20117072	23	30.3	23	83	7	758	24	2	24	48	1.63
20117132--20117266	70	1.9	70	93	3	236	48	11	0	40	1.40
20117138--20117256	25	5.0	25	71	17	117	45	12	0	42	1.42
20117639--20117678	18	2.2	18	95	0	71	40	7	30	22	1.81
20118329--20118353	7	3.6	7	100	0	50	60	12	0	28	1.32
20129512--20129548	10	3.5	11	85	10	51	37	0	0	62	0.96
20133231--20133265	5	7.0	5	100	0	70	60	0	0	40	0.97
20134299--20134474	69	2.6	69	86	3	246	40	17	14	27	1.88
20134483--20134569	35	2.5	34	83	3	111	45	21	10	21	1.81
20139513--20139565	18	3.0	17	91	5	79	56	1	1	39	1.21
20146887--20146941	24	2.3	24	80	0	65	69	1	1	27	1.09
20147420--20147466	24	1.9	25	82	4	60	59	4	2	34	1.29
20150894--20151413	259	2.0	260	99	0	1033	42	5	11	41	1.63
20158656--20158984	159	2.1	160	95	1	606	40	14	23	21	1.90
20164130--20164257	46	2.8	46	85	8	165	29	21	15	33	1.94
20170878--20170943	31	2.1	32	85	2	89	27	10	16	45	1.80
20175805--20175829	2	12.5	2	100	0	50	48	0	0	52	1.00
20181407--20181441	5	7.0	5	100	0	70	80	0	20	0	0.72
20189861--20189901	17	2.5	17	84	4	57	58	24	0	17	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20190131--20190174	23	1.9	23	85	0	61	52	13	0	34	1.41
20193751--20193789	19	2.1	19	95	0	69	33	2	0	64	1.08
20195351--20195491	43	3.2	43	80	9	144	21	19	21	36	1.95
20196596--20196660	19	3.2	21	72	10	64	61	0	0	38	0.96
20206060--20206089	6	5.0	6	100	0	60	50	16	0	33	1.46
20209941--20209969	15	1.9	15	100	0	58	20	6	24	48	1.74
20210766--20210800	13	2.7	13	95	0	61	57	0	2	40	1.14
20210847--20210892	20	2.3	20	92	0	74	45	17	6	30	1.73
20212643--20212708	33	2.0	33	96	0	123	6	21	25	46	1.74
20212549--20212823	148	1.9	148	81	4	340	18	21	28	32	1.96
20212676--20213201	115	4.6	115	89	0	795	20	19	28	31	1.97
20212676--20213189	229	2.2	229	90	0	821	20	19	28	31	1.97
20214010--20214056	7	6.9	7	76	13	53	14	0	44	40	1.46
20214010--20214056	14	3.4	14	80	16	62	14	0	44	40	1.46
20213962--20214174	83	2.6	83	97	0	408	28	0	25	45	1.57
20214094--20214139	7	6.7	7	76	14	51	15	0	43	41	1.46
20214093--20214139	14	3.4	15	82	14	57	17	0	42	40	1.49
20214246--20214462	84	2.6	85	81	6	221	30	16	20	32	1.94
20214311--20214466	84	1.9	84	87	2	233	28	15	21	34	1.94
20214312--20214485	84	2.1	84	82	4	208	27	16	21	34	1.95
20214720--20214968	84	3.0	84	82	8	244	31	15	20	32	1.94
20214725--20215001	83	3.3	82	81	7	267	30	15	21	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20214774--20215001	84	2.7	82	82	4	269	29	16	21	32	1.96
20215036--20215137	42	2.4	42	96	0	186	38	22	16	22	1.93
20227265--20227335	21	3.4	21	86	0	97	36	19	40	2	1.67
20231540--20231615	21	3.7	21	87	7	120	38	10	9	42	1.71
20235865--20235910	21	2.2	21	100	0	92	23	13	10	52	1.71
20243302--20243471	58	2.9	58	81	3	189	45	13	12	28	1.80
20243310--20243471	59	2.8	58	81	4	182	43	14	12	29	1.82
20244128--20244394	70	3.8	70	79	5	202	22	18	21	37	1.94
20244210--20244396	70	2.7	69	84	4	232	23	20	21	34	1.96
20245872--20246288	70	6.0	70	73	7	254	23	20	21	35	1.96
20245872--20246196	140	2.3	140	77	4	332	23	20	21	35	1.96
20250170--20250301	69	1.9	69	84	6	178	32	21	25	20	1.98
20253922--20253956	17	2.1	17	100	0	70	17	22	17	42	1.88
20261164--20261420	128	2.0	129	99	0	507	40	4	7	47	1.51
20263534--20263584	18	2.8	18	75	0	57	33	0	1	64	1.05
20263379--20263714	164	2.0	165	98	0	656	33	7	7	52	1.57
20265189--20265235	16	2.9	17	81	9	62	59	10	4	25	1.49
20265865--20265891	13	2.1	13	100	0	54	40	0	0	59	0.98
20268074--20268226	43	3.6	42	80	8	166	30	24	16	28	1.97
20269149--20269273	33	3.8	32	72	6	79	32	17	25	24	1.97
20269050--20269240	105	1.8	105	81	0	238	33	17	24	25	1.96
20285368--20285564	98	2.0	98	98	0	385	39	23	8	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20286650--20286723	19	3.8	19	90	1	103	40	14	8	36	1.76
20286960--20287509	132	4.2	132	93	0	787	30	22	17	29	1.96
20287456--20287590	41	3.1	43	70	8	132	30	24	13	31	1.93
20287428--20287594	85	2.0	85	92	2	282	28	24	14	31	1.95
20287472--20287602	44	3.0	43	71	7	124	29	23	16	30	1.96
20289017--20289048	9	3.6	9	95	0	55	3	0	6	90	0.53
20289007--20289050	17	2.6	16	82	7	52	6	2	6	84	0.86
20295590--20295687	40	2.5	38	91	5	151	40	14	8	36	1.75
20295590--20295686	19	4.9	21	87	11	141	41	13	8	37	1.74
20299909--20299934	2	13.0	2	100	0	52	50	0	0	50	1.00

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