genome.fa.s6.2.7.7.80.10.50.1000.64.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  64  of  109  ( 13028 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)
20702713--20702895	56	3.1	58	68	24	141	52	4	1	40	1.33
20704189--20704264	38	2.0	38	94	0	134	48	17	17	17	1.81
20709531--20709555	4	6.2	4	100	0	50	76	0	0	24	0.80
20709924--20710176	3	84.0	3	99	0	497	66	0	0	33	0.92
20711521--20711554	17	2.0	17	88	0	50	26	5	5	61	1.42
20714811--20714849	21	1.9	21	89	5	62	58	2	0	38	1.12
20715501--20715560	30	2.0	31	83	9	79	41	0	38	20	1.52
20723754--20723805	27	1.9	27	100	0	104	32	23	13	30	1.93
20727398--20727482	40	2.1	40	80	6	91	38	2	0	58	1.11
20729707--20729846	47	2.9	47	89	2	217	28	5	29	36	1.80
20751624--20751659	18	2.0	18	88	0	54	44	8	8	38	1.65
20752184--20752218	2	17.5	2	100	0	70	51	0	0	48	1.00
20756751--20756781	16	1.9	16	93	0	53	32	3	3	61	1.28
20757631--20757681	22	2.4	21	80	6	57	35	0	1	62	1.06
20757999--20758046	24	2.0	23	84	11	62	39	0	10	50	1.37
20767262--20767292	15	2.1	15	100	0	62	35	19	0	45	1.51
20770660--20770694	18	2.0	17	88	5	52	45	0	0	54	0.99
20770927--20770965	16	2.4	16	86	0	51	28	33	2	35	1.71
20770940--20770996	16	3.6	16	95	0	87	33	36	0	29	1.58
20772378--20772437	32	1.9	30	83	6	75	55	11	1	31	1.46
20772576--20772634	27	2.2	28	78	9	68	55	5	5	33	1.43
20773504--20773765	131	2.0	131	98	0	506	19	23	40	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20774118--20774152	3	11.7	3	100	0	70	68	0	0	31	0.90
20781401--20781599	72	2.8	72	100	0	398	43	7	8	41	1.61
20781604--20781649	21	2.2	22	77	18	53	54	0	0	45	0.99
20785096--20785135	19	2.2	19	90	4	64	57	0	0	42	0.98
20785510--20785550	21	2.0	21	85	4	57	58	19	12	9	1.61
20786232--20786256	8	3.1	8	100	0	50	12	0	36	52	1.39
20792005--20792048	18	2.4	18	84	0	52	15	0	11	72	1.11
20798974--20799120	58	2.6	58	80	1	179	46	25	10	16	1.79
20802289--20802328	21	2.0	20	85	5	53	40	25	5	30	1.77
20815484--20815523	3	13.3	3	89	0	62	65	2	2	30	1.19
20818449--20818544	48	2.0	48	93	0	165	40	27	17	14	1.89
20818556--20818846	42	6.9	42	95	0	501	31	23	21	23	1.98
20819190--20819236	21	2.2	21	92	0	76	2	46	21	29	1.63
20826256--20826336	24	3.2	24	76	19	92	44	11	0	44	1.39
20826256--20826339	28	3.2	26	75	12	82	42	10	0	46	1.38
20826706--20826769	29	2.2	29	94	0	119	39	43	0	17	1.49
20826899--20826936	7	5.7	7	84	12	53	31	50	0	18	1.47
20826893--20826938	14	3.4	14	79	11	51	34	43	0	21	1.53
20826899--20826923	12	2.1	12	100	0	50	32	52	0	16	1.44
20826884--20826936	26	2.0	26	81	0	61	32	45	0	22	1.53
20826961--20827004	14	3.1	14	83	3	52	36	31	2	29	1.70
20827038--20827143	21	5.0	21	67	13	54	47	29	1	21	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20827105--20827143	14	2.8	14	84	0	51	51	33	0	15	1.44
20827597--20827922	113	2.9	113	78	9	342	26	23	23	25	2.00
20829615--20829702	45	2.0	44	84	6	115	38	23	4	32	1.75
20832086--20832249	82	2.0	81	82	6	199	34	32	4	29	1.77
20832586--20832617	9	3.6	9	91	0	55	25	12	21	40	1.88
20832901--20832960	30	2.0	31	86	3	86	21	38	0	40	1.54
20833052--20833107	20	3.0	19	80	14	55	25	30	0	44	1.54
20838089--20838119	8	3.9	8	91	0	53	0	6	3	90	0.55
20838089--20838119	16	1.9	16	100	0	62	0	6	3	90	0.55
20843567--20843609	20	2.2	20	100	0	86	51	0	18	30	1.47
20849164--20849224	31	2.0	30	84	9	79	42	3	9	44	1.54
20851339--20851540	110	1.8	110	90	2	325	22	12	29	36	1.90
20857641--20857700	25	2.3	24	83	13	75	53	10	8	28	1.63
20858954--20859015	21	3.0	21	81	11	65	6	20	43	29	1.77
20859256--20859298	18	2.4	18	88	0	59	44	9	27	18	1.80
20862904--20863001	11	9.3	11	67	12	62	46	2	27	23	1.63
20862880--20862979	51	2.0	51	90	4	157	47	2	25	26	1.63
20862939--20863001	33	1.9	33	87	6	92	47	1	26	23	1.61
20862960--20863015	11	5.0	11	82	2	58	53	1	23	21	1.55
20868745--20868815	33	2.1	34	89	7	110	7	26	26	39	1.82
20869914--20869992	1	79.0	1	92	0	131	96	0	3	0	0.23
20869914--20870002	13	6.3	14	89	7	110	93	0	6	0	0.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20871797--20872498	348	2.0	346	93	0	1197	30	17	20	31	1.96
20892906--20892939	18	1.9	18	88	5	52	55	0	5	38	1.24
20894177--20894224	23	2.1	23	84	0	60	18	4	35	41	1.70
20894680--20894835	48	3.2	48	69	20	142	23	18	22	35	1.95
20894630--20894842	98	2.2	98	90	0	336	22	20	22	34	1.97
20894614--20894787	50	3.5	50	69	17	137	22	19	21	35	1.96
20894819--20894864	23	2.0	23	100	0	92	17	21	21	39	1.93
20894874--20895151	50	5.6	50	69	10	196	25	19	22	32	1.97
20894630--20895063	221	2.0	219	88	1	645	23	20	22	34	1.97
20895026--20895177	48	3.1	48	74	7	180	22	23	25	29	1.99
20894842--20895185	98	3.5	99	90	3	534	24	20	22	32	1.98
20896405--20896439	14	2.3	15	90	9	54	11	8	0	80	0.92
20897252--20897281	14	2.2	14	94	5	53	0	16	0	83	0.65
20904256--20904514	129	2.0	130	99	0	511	23	22	14	39	1.91
20909761--20909858	27	3.6	27	82	5	126	15	22	26	35	1.94
20909762--20909870	27	4.0	26	76	17	98	15	20	25	38	1.92
20914911--20914951	6	6.5	6	86	8	55	36	29	0	34	1.58
20914907--20914950	13	3.4	13	84	9	54	34	31	0	34	1.58
20914911--20914951	19	2.2	19	90	0	64	36	29	0	34	1.58
20920563--20920596	16	2.1	16	88	0	50	35	0	0	64	0.94
20924066--20924105	21	1.9	21	84	0	53	30	7	20	42	1.79
20924904--20924938	17	1.9	19	88	11	56	62	5	17	14	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20926126--20926173	24	2.0	24	83	4	60	41	6	2	50	1.39
20937051--20937105	3	18.3	3	100	0	110	34	0	0	65	0.93
20937819--20937861	22	2.0	22	86	9	61	27	2	6	62	1.33
20937970--20938010	7	5.9	7	88	11	66	70	0	0	29	0.87
20943151--20943217	25	2.7	25	75	11	75	20	22	25	31	1.98
20943215--20943281	24	2.8	24	90	0	80	17	31	19	31	1.95
20943225--20943282	24	2.4	24	97	0	107	17	31	20	31	1.96
20948566--20948770	15	13.9	15	71	3	137	31	19	19	29	1.96
20948564--20948771	44	4.7	44	70	5	159	31	19	19	29	1.96
20948783--20948899	34	3.4	34	85	5	130	35	17	14	31	1.90
20948814--20948899	34	2.5	34	92	1	136	37	18	12	31	1.89
20953605--20953643	16	2.4	16	82	0	51	48	5	0	46	1.24
20955965--20955997	2	17.0	2	87	6	50	48	0	0	51	1.00
20962339--20962384	25	1.9	23	83	16	58	39	13	0	47	1.42
20966772--20966810	19	2.0	21	85	10	55	23	0	10	66	1.22
20968706--20968751	24	1.9	24	95	0	83	47	0	8	43	1.34
20968739--20968883	75	1.9	77	83	9	192	37	6	7	47	1.59
20969334--20969508	4	43.8	4	72	20	118	0	28	0	71	0.90
20969310--20969507	44	4.7	44	78	18	181	0	28	0	70	0.91
20969357--20969485	49	2.6	48	82	8	152	0	29	0	69	0.94
20969300--20969505	60	3.4	61	75	16	166	0	28	0	70	0.91
20969300--20969519	62	3.6	60	72	19	181	0	30	0	69	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20969535--20969604	27	2.6	27	90	4	106	15	30	27	27	1.96
20969535--20969613	27	2.9	27	86	0	95	15	31	26	26	1.95
20969674--20969719	23	2.0	23	95	0	83	50	0	8	41	1.33
20970480--20970618	43	3.2	43	90	4	235	30	29	19	20	1.97
20974166--20974200	13	2.6	13	95	4	61	11	0	5	82	0.82
20974533--20974561	14	2.0	15	93	6	51	34	44	0	20	1.52
20974530--20974574	22	2.0	22	91	0	72	35	40	0	24	1.56
20974671--20974724	21	2.8	18	83	10	63	51	18	16	12	1.75
20974766--20975475	114	6.2	114	91	1	1077	27	24	22	25	2.00
20975374--20975544	74	2.3	73	88	1	234	24	24	23	27	2.00

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109