genome.fa.s5.2.7.7.80.10.50.1000.36.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  36  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)
11915085--11915118	17	2.0	17	100	0	68	47	17	11	23	1.81
11918255--11919676	64	22.6	64	95	2	2483	46	19	2	31	1.64
11918248--11919697	18	79.6	18	75	9	455	46	19	2	31	1.64
11921749--11921789	21	2.0	21	100	0	82	31	9	14	43	1.78
11925036--11925127	42	2.2	42	90	3	141	33	22	20	22	1.97
11925123--11925205	43	2.0	42	92	4	141	20	21	22	34	1.96
11925123--11925205	42	2.0	40	90	6	130	20	21	22	34	1.96
11925798--11925827	14	2.1	14	100	0	60	46	6	6	40	1.56
11926006--11926040	18	2.0	18	88	5	54	48	8	11	31	1.69
11927133--11927200	20	3.4	19	78	15	66	52	2	20	23	1.60
11927152--11927218	21	3.2	21	78	16	61	53	5	19	20	1.66
11931262--11931357	21	4.4	21	78	10	86	37	15	41	5	1.70
11931321--11931354	12	2.8	12	95	0	59	47	8	38	5	1.59
11931792--11931913	42	2.9	42	81	6	131	28	22	19	28	1.98
11931901--11931943	18	2.3	19	84	4	52	11	18	20	48	1.79
11931917--11932165	42	5.8	42	92	2	372	24	22	22	30	1.99
11934931--11935011	40	2.0	40	83	6	103	37	3	7	51	1.48
11936363--11936439	29	2.6	29	83	4	91	46	14	14	24	1.81
11938405--11938462	11	5.4	11	74	12	57	37	5	0	56	1.21
11938396--11938470	32	2.4	31	89	6	116	34	4	0	61	1.15
11938405--11938488	43	2.0	43	85	4	116	35	3	1	59	1.22
11938670--11938764	49	1.9	49	81	12	115	43	28	4	24	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11939586--11939828	44	5.7	43	76	6	208	28	21	20	30	1.98
11939674--11939828	42	3.7	42	81	9	158	29	21	20	27	1.98
11939546--11939830	127	2.2	129	86	3	380	28	22	20	29	1.98
11939837--11940106	50	5.4	50	73	2	220	26	24	19	30	1.98
11939837--11940145	100	3.1	100	88	3	453	25	24	20	29	1.99
11939863--11940153	50	5.8	50	72	1	217	25	24	20	29	1.99
11940224--11940330	50	2.1	50	81	6	119	26	27	21	25	1.99
11940342--11940520	88	2.0	88	88	2	261	25	26	22	25	2.00
11941763--11941805	13	3.1	13	86	10	50	11	18	0	69	1.17
11942276--11942312	16	2.2	16	90	4	56	0	8	8	83	0.80
11942308--11942360	22	2.5	22	82	11	58	1	16	1	79	0.92
11942276--11942359	27	3.3	26	78	15	95	1	14	4	79	0.95
11942300--11942367	27	2.5	27	83	7	75	1	14	4	79	0.96
11942430--11942463	14	2.4	14	90	0	50	29	29	11	29	1.92
11944718--11944797	25	3.2	25	71	3	72	32	20	25	22	1.98
11944807--11944877	25	2.8	25	78	0	79	42	16	23	16	1.89
11944807--11944897	25	3.6	25	73	8	69	39	17	26	16	1.91
11945039--11945089	22	2.3	23	80	10	61	54	21	0	23	1.44
11946423--11946470	24	2.0	25	84	12	64	58	8	2	31	1.39
11949990--11950201	106	2.0	106	96	0	388	29	22	14	33	1.93
11950906--11950950	18	2.5	18	89	7	65	28	8	0	62	1.25
11962269--11962363	44	2.1	44	90	1	145	28	18	8	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11967461--11967505	3	15.0	3	85	0	63	64	0	31	4	1.13
11968234--11968273	20	2.0	20	85	4	55	37	15	12	35	1.85
11972870--11972915	20	2.2	20	84	3	56	47	4	2	45	1.34
11979273--11979386	17	6.6	17	78	10	90	14	15	31	37	1.89
11988527--11988773	50	4.8	51	80	5	225	28	19	27	23	1.99
11990377--11990411	6	5.8	6	100	0	70	17	0	14	68	1.21
11990491--11992441	972	2.0	974	99	0	3879	38	12	14	34	1.83
11996883--11996922	16	2.5	16	91	0	62	47	2	7	42	1.45
11996855--11996907	22	2.4	22	87	0	70	52	1	1	43	1.23
11996925--11997044	59	2.1	59	90	1	197	41	5	9	44	1.58
11998248--11998299	22	2.4	22	90	0	86	55	23	0	21	1.43
11998416--11998482	29	2.5	27	80	9	66	37	7	8	46	1.64
12003995--12004035	20	2.0	20	95	0	73	26	21	19	31	1.97
12007619--12007650	2	16.0	2	100	0	64	50	0	0	50	1.00
12014116--12014161	23	2.0	23	100	0	92	26	17	21	34	1.95
12016222--12016282	21	3.0	20	81	13	70	45	1	1	50	1.21
12026827--12026868	22	1.9	22	95	0	75	42	14	7	35	1.73
12026981--12027013	17	1.9	17	88	11	50	39	0	9	51	1.34
12029735--12029777	21	2.0	21	90	0	68	41	2	30	25	1.68
12031537--12031588	23	2.3	21	73	20	52	50	1	0	48	1.12
12041317--12041357	16	2.6	16	96	0	73	46	14	9	29	1.77
12041696--12041726	16	1.9	16	93	0	53	70	9	9	9	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12047310--12047497	50	3.8	49	77	7	200	25	16	27	30	1.97
12047316--12047499	101	1.8	101	88	4	282	25	16	27	30	1.97
12047725--12047756	16	2.0	16	93	0	55	59	0	15	25	1.36
12050838--12050990	72	2.1	72	87	0	216	28	11	15	45	1.80
12060023--12060049	14	1.9	14	100	0	54	40	29	14	14	1.86
12061008--12061052	20	2.3	19	82	14	56	66	2	0	31	1.04
12063432--12063523	47	1.9	49	86	4	134	14	11	16	57	1.65
12072790--12072933	45	3.2	45	98	0	279	43	6	22	27	1.79
12073965--12074022	22	2.7	21	86	10	73	32	18	27	20	1.97
12077881--12077923	21	2.0	22	86	13	63	51	0	2	46	1.13
12082662--12082695	3	11.3	3	87	0	50	38	0	35	26	1.57
12082665--12082706	9	4.7	9	87	0	57	40	0	33	26	1.56
12083873--12083920	4	12.0	4	95	0	69	43	25	6	25	1.77
12084193--12084237	3	15.0	3	95	0	81	0	33	2	64	1.06
12098316--12098476	45	3.6	46	79	5	177	20	20	19	39	1.92
12101852--12101881	12	2.5	12	88	0	51	56	0	26	16	1.40
12110605--12110680	37	2.1	36	83	11	93	40	2	2	53	1.28
12110623--12110760	72	2.0	71	84	8	185	39	3	6	50	1.46
12118045--12118076	17	1.9	16	93	6	55	28	31	18	21	1.97
12119069--12119341	138	2.0	137	82	5	327	33	25	21	19	1.97
12119380--12119458	38	2.1	38	97	0	149	20	25	24	30	1.98
12122383--12122425	22	2.0	22	85	0	59	41	16	27	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12144113--12144195	40	2.1	40	90	0	130	40	18	6	34	1.75
12166525--12166574	26	1.9	26	88	8	75	58	2	32	8	1.39
12173788--12174154	32	11.6	30	76	13	249	32	9	15	42	1.79
12173832--12174154	127	2.5	128	91	2	510	32	10	15	41	1.81
12173832--12174141	63	4.9	64	92	1	509	32	10	15	40	1.82
12174291--12174407	41	2.8	43	79	7	132	29	17	27	26	1.97
12177042--12177185	57	2.5	57	89	3	211	22	18	15	43	1.88
12183668--12183756	44	2.0	44	100	0	178	34	11	17	35	1.86
12187174--12187223	3	16.7	3	100	0	100	68	0	0	32	0.90
12187303--12187330	3	9.3	3	100	0	56	0	32	0	67	0.91
12193310--12193375	34	1.9	34	88	11	100	45	9	7	37	1.64
12197149--12197256	49	2.2	49	94	0	189	30	19	17	32	1.95
12205131--12205162	10	3.2	10	95	0	55	40	0	0	59	0.97
12205902--12205947	22	2.1	22	84	8	58	41	2	13	43	1.55
12207079--12207157	38	2.1	37	85	4	104	35	2	7	54	1.42
12209729--12209771	20	2.1	20	86	4	59	46	0	2	51	1.13
12212641--12212680	9	4.4	9	93	0	71	25	10	22	42	1.84
12219194--12219227	17	2.0	17	100	0	68	41	5	11	41	1.66
12220870--12220915	22	2.1	22	100	0	92	32	8	23	34	1.86
12226034--12226129	19	4.6	22	82	11	71	40	16	6	36	1.74
12226070--12226142	19	3.8	19	96	0	137	36	16	9	36	1.81
12229850--12230020	45	3.8	45	83	4	184	39	18	19	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12229985--12230106	46	2.7	46	85	1	156	45	18	20	16	1.86
12231701--12231740	20	2.0	20	85	9	55	15	5	25	55	1.60
12245417--12245456	20	2.0	20	100	0	80	10	35	10	45	1.71
12252907--12252980	27	2.8	26	76	10	69	21	24	14	39	1.91
12260875--12261024	57	2.5	60	83	10	191	22	26	21	29	1.99
12264530--12264676	49	3.0	49	89	4	215	32	28	13	25	1.94
12266432--12266539	57	1.9	57	92	1	182	25	25	19	29	1.98
12274942--12274985	23	1.9	23	86	9	63	52	4	15	27	1.63
12285763--12285811	20	2.5	20	78	15	57	12	22	8	57	1.61
12286013--12286254	50	4.7	50	76	9	188	24	28	20	26	1.99

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