genome.fa.s7.2.7.7.80.10.50.1000.41.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  41  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)
13517894--13517922	11	2.5	12	94	5	51	0	17	0	82	0.66
13517932--13517993	9	7.0	9	82	10	83	11	0	4	83	0.78
13517918--13517992	25	2.9	26	82	9	82	10	1	6	81	0.93
13517928--13517995	19	3.8	19	81	11	90	11	0	5	82	0.83
13517907--13517993	44	2.0	43	81	6	102	9	3	5	81	0.96
13523176--13523352	87	2.0	87	100	0	354	50	6	16	25	1.70
13531466--13531550	20	4.2	20	84	0	116	38	22	28	10	1.87
13531531--13531661	22	6.0	22	70	17	85	45	13	22	17	1.84
13531568--13531655	44	2.0	44	84	8	117	45	11	23	19	1.83
13532811--13532855	23	2.0	23	82	8	56	28	20	8	42	1.82
13543918--13543988	22	3.3	20	72	16	61	46	15	12	25	1.81
13543893--13544019	44	2.8	45	83	5	152	42	16	15	25	1.87
13551734--13551925	95	2.0	96	98	1	377	53	3	6	36	1.44
13552434--13552463	7	4.1	7	95	4	51	60	0	0	40	0.97
13552960--13553002	18	2.4	18	80	7	52	46	2	0	51	1.13
13557587--13557621	14	2.5	14	100	0	70	37	25	5	31	1.80
13558312--13558533	63	3.6	62	85	7	292	45	15	4	34	1.68
13562428--13562465	17	2.2	18	85	4	51	13	18	44	23	1.85
13565938--13566180	40	6.1	40	84	5	296	18	25	20	35	1.95
13565938--13566154	119	1.8	119	87	4	321	18	26	20	34	1.96
13565938--13566180	119	2.0	119	83	4	303	18	25	20	35	1.95
13565938--13566165	79	2.9	77	85	6	305	18	25	20	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13567252--13567404	39	3.9	40	84	5	186	18	32	19	28	1.96
13567252--13567404	78	1.9	80	85	2	211	18	32	19	28	1.96
13571636--13571673	16	2.4	16	90	0	58	31	0	34	34	1.58
13571652--13571761	45	2.6	43	80	9	129	33	5	29	31	1.80
13589148--13589201	26	2.1	26	100	0	108	35	7	11	46	1.67
13593791--13593859	32	2.2	31	79	5	77	28	4	2	63	1.28
13596204--13596234	14	2.2	14	94	0	53	41	19	3	35	1.67
13598562--13598605	14	2.9	15	80	10	54	31	31	15	20	1.94
13609363--13609430	31	2.1	34	89	8	106	38	2	2	55	1.30
13611614--13611656	18	2.4	18	88	0	59	18	27	9	44	1.80
13611852--13611894	21	2.0	21	81	0	50	30	44	20	4	1.72
13615234--13615522	126	2.3	126	91	0	479	28	21	17	32	1.96
13615720--13615783	7	9.0	7	75	10	58	51	40	0	7	1.31
13617217--13617241	13	1.9	13	100	0	50	32	4	24	40	1.73
13618885--13618987	41	2.5	41	87	3	136	27	18	27	27	1.98
13623693--13623726	8	4.2	8	88	0	50	70	0	2	26	1.01
13636848--13636880	17	1.9	17	93	0	57	42	0	6	51	1.26
13638228--13638256	12	2.3	13	94	5	51	20	6	6	65	1.40
13651545--13651580	17	2.1	17	100	0	72	22	5	0	72	1.05
13659952--13660107	21	7.3	21	73	2	114	15	21	16	46	1.83
13659951--13660109	42	3.7	42	81	3	174	15	21	16	46	1.84
13662561--13662631	26	2.8	26	79	10	83	33	21	28	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13663083--13663127	10	4.4	10	83	5	54	42	13	0	44	1.43
13663083--13663127	21	2.2	20	84	4	54	42	13	0	44	1.43
13666428--13666463	15	2.3	16	90	9	65	19	11	36	33	1.87
13668065--13668099	18	1.9	18	94	0	61	14	17	2	65	1.38
13676980--13677095	50	2.3	50	92	0	187	26	19	31	21	1.97
13677451--13677487	12	3.2	12	77	14	51	43	0	16	40	1.48
13685294--13685556	30	8.6	30	85	6	278	43	15	7	33	1.74
13685291--13685533	90	2.6	92	84	5	312	42	15	7	34	1.75
13685416--13685545	34	4.0	34	75	11	112	44	14	5	35	1.68
13685834--13685881	21	2.3	21	79	10	55	33	16	2	47	1.58
13687492--13687573	41	2.0	41	97	0	155	30	7	13	48	1.69
13691244--13691284	19	2.2	19	90	0	64	36	4	14	43	1.67
13691322--13691402	41	2.0	41	95	0	144	29	8	14	46	1.75
13694014--13694049	18	2.0	18	94	0	63	38	30	16	13	1.88
13696813--13696884	23	3.0	23	72	21	76	31	0	0	68	0.90
13696826--13696861	16	2.3	15	95	4	63	27	0	0	72	0.85
13702274--13702450	69	2.6	69	81	5	196	38	15	20	24	1.92
13704527--13704552	13	2.0	13	100	0	52	30	7	15	46	1.74
13704844--13704875	15	2.1	15	100	0	64	21	9	18	50	1.75
13705109--13705140	15	2.1	15	100	0	64	43	18	18	18	1.88
13720407--13720468	19	3.3	19	95	0	115	35	16	11	37	1.84
13723056--13723095	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13728551--13728594	18	2.2	20	84	11	56	25	4	34	36	1.76
13732210--13732317	24	4.5	23	81	8	108	33	20	28	17	1.95
13732208--13732317	48	2.3	49	82	6	134	33	20	28	18	1.96
13732329--13732391	26	2.4	26	87	7	92	34	20	25	19	1.96
13733398--13733455	30	1.9	30	82	6	73	17	18	0	63	1.31
13735233--13735411	45	4.0	45	100	0	358	33	22	13	30	1.92
13740054--13740132	24	3.3	25	77	10	85	37	21	24	16	1.93
13740054--13740144	24	3.8	24	78	8	80	36	20	24	18	1.95
13740172--13740259	26	3.4	26	85	7	108	34	20	26	19	1.96
13745623--13745691	31	2.3	30	80	5	93	33	8	17	40	1.80
13747143--13747170	14	2.0	14	100	0	56	28	7	21	42	1.79
13747257--13747567	27	11.5	27	79	2	293	39	9	19	30	1.84
13747265--13747567	136	2.2	135	84	4	378	38	9	19	31	1.85
13747524--13747599	27	2.8	26	78	13	73	39	13	22	25	1.90
13749501--13749722	41	5.4	41	88	1	320	20	29	15	34	1.94
13749581--13749684	20	5.1	19	64	13	55	17	29	18	34	1.94
13754513--13754581	36	1.9	36	87	0	102	53	7	0	39	1.29
13754513--13754573	18	3.4	18	77	8	70	52	8	0	39	1.31
13754515--13754592	36	2.2	36	83	4	95	52	7	0	39	1.30
13758414--13758469	1	56.0	1	96	0	103	1	0	0	98	0.13
13760179--13760205	2	13.5	2	100	0	54	48	0	0	51	1.00
13760990--13761023	11	3.1	11	82	0	50	26	14	2	55	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13765468--13765531	28	2.3	28	86	5	85	31	6	0	62	1.20
13768068--13768150	41	2.0	42	92	2	141	37	16	15	30	1.90
13770974--13771010	9	4.1	9	92	0	65	29	10	13	45	1.77
13771062--13771092	9	3.4	9	90	0	53	38	22	12	25	1.90
13772234--13772264	14	2.2	14	94	0	53	0	38	0	61	0.96
13772231--13772289	11	5.4	11	76	8	57	3	35	0	61	1.13
13772231--13772286	22	2.5	22	80	5	69	3	35	0	60	1.14
13772578--13772626	24	2.0	24	84	0	62	36	2	8	53	1.43
13772673--13772718	24	2.0	23	82	4	56	58	2	4	34	1.30
13772680--13772728	24	2.0	25	84	7	66	55	2	2	40	1.23
13776250--13776309	27	2.1	30	79	17	74	63	0	5	31	1.16
13776253--13776309	29	2.0	29	83	12	75	63	0	5	31	1.17
13778049--13778180	43	3.1	41	70	10	111	34	15	21	29	1.94
13778032--13778228	87	2.3	87	83	0	232	34	15	21	28	1.94
13781505--13781641	53	2.6	53	88	0	184	34	10	24	29	1.90
13781763--13781917	61	2.5	61	86	3	213	34	14	22	29	1.93
13784196--13784249	27	2.0	27	100	0	108	33	11	18	37	1.86
13796095--13796225	50	2.6	52	78	8	144	37	12	15	35	1.85
13800630--13800800	63	2.7	62	81	3	207	24	21	25	28	1.99
13804892--13804922	16	1.9	16	93	0	53	32	22	3	41	1.70
13807216--13807307	39	2.3	39	83	3	112	30	20	27	21	1.98
13807233--13807328	39	2.4	40	79	6	115	37	20	22	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13807371--13807553	41	4.4	40	89	4	258	19	21	31	28	1.97
13807379--13807553	83	2.1	82	89	1	269	19	22	31	26	1.98
13811490--13811682	43	4.5	43	85	3	239	26	19	29	25	1.98
13811490--13811682	85	2.3	86	84	3	239	26	19	29	25	1.98
13813064--13813094	14	2.1	15	94	5	55	41	0	12	45	1.42
13813078--13813121	21	2.2	21	88	8	65	40	0	6	52	1.28
13813417--13813463	23	2.0	23	84	12	60	42	2	2	53	1.25
13813441--13813480	17	2.3	18	86	4	55	42	2	2	52	1.28
13814427--13815345	459	2.0	460	99	0	1822	36	10	13	40	1.78
13817838--13818116	95	2.9	96	80	9	305	38	3	16	41	1.65

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