genome.fa.s9.2.7.7.80.10.50.1000.12.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   

This is table  12  of  131  ( 15627 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)
3874513--3874957	50	8.7	53	72	11	225	23	28	20	27	1.99
3874561--3874908	50	6.9	50	74	9	276	21	28	21	28	1.99
3889011--3889280	44	6.0	43	71	12	193	29	21	18	30	1.97
3889240--3889658	129	3.2	128	84	3	367	27	20	21	31	1.98
3889373--3889569	44	4.5	44	69	11	145	27	21	21	29	1.98
3889328--3889664	129	2.6	129	89	0	485	27	21	21	30	1.98
3889668--3889920	45	5.7	45	82	3	314	23	22	26	27	1.99
3889661--3889930	89	3.0	89	88	0	405	22	22	26	28	1.99
3890766--3890804	19	2.0	20	85	5	53	25	0	2	71	0.98
3901217--3901255	19	2.0	20	85	5	53	25	0	2	71	0.98
3905278--3905369	27	3.4	27	79	5	114	25	16	27	31	1.96
3910295--3910378	29	2.8	30	81	12	93	52	4	4	38	1.44
3913340--3913396	28	2.0	28	96	0	105	26	15	10	47	1.78
3914400--3914586	92	2.0	93	98	1	367	39	13	6	40	1.71
3915767--3915813	24	2.0	24	83	8	60	53	6	6	34	1.52
3917651--3917921	44	6.0	44	75	11	235	29	21	19	29	1.98
3917797--3918246	44	10.5	44	68	12	179	29	21	19	30	1.97
3918062--3918203	40	3.4	41	72	7	142	30	21	19	28	1.97
3918014--3918246	84	2.8	85	87	3	319	29	21	19	29	1.98
3918256--3918662	89	4.6	89	89	0	607	22	22	24	30	1.99
3918937--3918992	24	2.3	24	93	0	94	30	23	12	33	1.92
3929610--3929804	48	4.1	47	82	5	196	29	20	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3929621--3929804	96	1.9	96	84	2	244	28	20	28	22	1.98
3934992--3935175	48	3.8	48	87	0	242	27	20	28	23	1.99
3940614--3940694	21	3.7	22	80	12	87	34	19	8	37	1.83
3943810--3943986	88	2.0	89	98	1	347	40	11	9	38	1.74
3949676--3949714	20	1.9	21	89	5	62	53	17	0	28	1.44
3951904--3952016	27	4.2	27	79	10	106	35	22	11	30	1.89
3951912--3952014	54	1.9	54	89	0	161	36	18	11	33	1.87
3952001--3952053	27	2.0	27	88	7	81	35	18	16	28	1.93
3951918--3952043	54	2.3	53	82	5	146	37	20	11	30	1.89
3952445--3952517	28	2.6	28	91	0	110	17	21	21	38	1.93
3952443--3952534	28	3.3	27	84	4	105	17	21	21	39	1.93
3967299--3967341	19	2.2	20	84	12	63	32	18	0	48	1.48
3969655--3969694	21	1.9	21	94	0	71	20	5	2	72	1.15
3983152--3983234	27	3.1	28	82	6	91	27	22	19	30	1.98
3983183--3983236	26	2.0	27	89	3	83	27	22	16	33	1.95
3988115--3988147	11	3.0	11	100	0	66	36	18	0	45	1.49
4011593--4011669	34	2.2	35	95	2	138	64	7	7	19	1.44
4013009--4013198	44	4.4	43	71	7	143	28	22	18	30	1.97
4012964--4013218	129	2.0	128	84	2	332	27	21	20	30	1.98
4013404--4013495	44	2.1	45	85	2	123	19	27	23	29	1.98
4013501--4013591	44	2.1	44	85	4	121	31	23	13	31	1.93
4013631--4013750	44	2.7	45	85	1	127	30	25	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4013787--4014400	44	14.2	44	67	12	214	25	24	19	30	1.98
4013713--4014445	347	2.1	346	85	3	999	26	24	19	30	1.98
4013652--4014445	172	4.6	173	88	1	988	26	24	19	29	1.98
4014332--4014426	44	2.2	44	84	0	118	30	26	12	30	1.93
4014470--4014716	88	2.8	88	84	1	343	23	23	27	25	2.00
4015692--4015771	42	1.9	42	84	0	106	31	33	8	26	1.87
4016843--4016875	18	1.9	17	88	11	50	9	6	3	81	0.95
4016824--4016883	15	4.0	14	73	14	57	15	3	5	76	1.08
4016820--4016891	31	2.3	31	78	4	83	16	4	5	73	1.18
4021301--4021353	24	2.3	23	78	15	56	56	3	15	24	1.55
4022901--4023093	44	4.5	43	71	8	142	29	21	19	30	1.97
4022852--4023106	129	2.0	128	87	2	368	27	22	19	30	1.98
4023104--4023260	50	3.1	49	75	5	154	28	21	19	31	1.97
4044321--4044368	23	2.2	22	85	10	64	33	8	20	37	1.83
4053321--4053360	21	2.0	20	85	5	53	12	5	40	42	1.64
4054059--4054370	100	3.1	101	85	4	427	25	22	21	30	1.99
4054059--4054315	50	5.1	50	65	9	148	26	21	21	29	1.99
4058432--4058515	42	2.0	42	83	0	105	26	29	13	30	1.93
4058281--4058887	304	2.0	304	95	0	1090	24	27	16	31	1.96
4058897--4058935	13	2.9	14	85	14	55	12	15	0	71	1.14
4058897--4058935	7	5.7	7	90	9	55	12	15	0	71	1.14
4059431--4059521	10	8.6	10	70	15	51	3	6	7	82	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4059471--4059515	13	3.5	12	85	14	63	0	11	6	82	0.84
4059431--4059516	14	6.4	13	76	14	77	3	6	6	82	0.93
4063502--4063542	17	2.5	17	88	4	57	68	0	2	29	1.03
4063554--4063611	27	2.1	27	81	6	64	53	1	6	37	1.38
4068409--4068446	19	2.1	18	90	5	58	65	0	18	15	1.27
4069125--4069170	22	2.1	22	100	0	92	47	17	26	8	1.76
4070690--4070714	12	2.1	12	100	0	50	8	0	16	76	1.02
4076081--4076250	83	2.0	84	98	1	333	42	2	5	48	1.40
4081569--4081646	31	2.5	31	83	8	79	51	12	6	29	1.65
4081590--4081654	31	2.1	31	91	5	105	47	10	7	33	1.67
4081604--4081662	31	2.0	31	90	6	95	49	10	6	33	1.63
4105012--4105079	24	2.8	24	81	0	73	26	14	11	47	1.79
4107239--4107268	5	6.0	5	100	0	60	40	0	20	40	1.52
4117426--4117490	34	1.9	34	84	6	87	33	18	24	23	1.96
4124000--4124066	21	3.2	20	73	12	64	53	16	2	26	1.57
4124546--4124914	185	2.0	185	98	1	722	39	4	9	46	1.58
4128149--4128260	56	2.0	56	98	0	215	22	35	0	41	1.60
4128522--4128673	76	2.0	76	86	0	214	34	11	13	40	1.81
4133094--4133278	60	3.1	60	100	0	370	37	14	17	30	1.90
4146097--4146136	19	2.1	20	86	9	57	20	27	27	25	1.99
4156750--4156794	7	6.4	7	97	0	81	48	37	0	13	1.42
4156924--4156971	6	7.8	6	88	2	60	58	0	25	16	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159300--4159325	12	2.2	12	100	0	52	7	0	19	73	1.07
4160783--4160838	18	3.1	18	67	10	51	19	8	3	67	1.32
4171871--4171913	21	2.2	19	83	8	50	58	13	4	23	1.55
4174339--4174430	6	15.5	6	74	10	64	25	10	15	48	1.77
4174336--4174394	30	2.0	30	89	0	91	23	8	15	52	1.70
4174357--4174425	24	2.9	24	86	0	93	27	10	14	47	1.76
4175020--4175057	12	3.1	12	82	17	51	39	0	0	60	0.97
4175007--4175064	5	11.0	5	81	17	64	37	0	1	60	1.07
4175004--4175064	17	3.5	17	86	11	79	39	0	1	59	1.08
4177724--4177768	22	2.0	22	100	0	90	4	17	22	55	1.60
4181967--4182027	21	2.8	21	80	5	68	32	29	24	13	1.93
4183321--4183436	61	1.9	61	94	0	205	38	6	7	46	1.60
4183526--4183575	23	2.3	22	86	6	66	42	6	6	46	1.53
4183532--4183575	23	1.9	23	90	0	70	43	6	4	45	1.51
4189151--4189239	27	3.2	28	66	15	67	53	19	3	23	1.59
4189165--4189277	56	2.0	57	98	1	219	53	19	5	21	1.64
4190082--4190120	4	9.8	4	83	10	53	20	5	0	74	1.01
4196486--4196533	18	2.7	18	86	0	69	43	0	16	39	1.48
4200265--4200297	11	3.0	11	91	8	50	15	3	0	81	0.80
4202985--4203030	24	2.0	23	83	12	58	65	4	2	28	1.23
4203026--4203078	25	2.1	26	82	10	65	47	0	3	49	1.19
4203175--4203222	14	3.5	14	75	16	55	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4216137--4216202	34	1.9	34	87	6	98	24	18	21	36	1.95
4216142--4216215	34	2.2	34	79	16	82	24	20	22	32	1.98
4217452--4217496	19	2.3	20	75	17	51	17	51	0	31	1.46
4220549--4220694	42	3.5	42	79	10	145	36	24	15	23	1.93
4220701--4220844	41	3.5	41	94	0	252	23	26	20	29	1.99
4220633--4220762	67	1.9	68	87	4	192	29	27	20	23	1.98
4223469--4223501	12	2.9	12	86	13	52	75	9	6	9	1.18
4233257--4233429	27	6.6	27	85	4	228	18	18	20	42	1.89
4233228--4233429	27	7.7	26	83	6	221	19	19	19	41	1.91
4233257--4233429	53	3.3	53	88	3	242	18	18	20	42	1.89

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131