genome.fa.s9.2.7.7.80.10.50.1000.15.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  15  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)
5139656--5139826	80	2.1	80	83	4	220	19	28	18	33	1.96
5152672--5152863	40	4.8	40	81	3	235	21	28	15	34	1.94
5152674--5152901	40	5.7	39	79	6	201	21	28	15	33	1.94
5152672--5152912	80	3.0	80	85	3	299	21	29	16	33	1.95
5152674--5152901	120	1.9	119	81	7	273	21	28	15	33	1.94
5157579--5157660	30	2.7	30	88	0	119	25	17	20	36	1.94
5159841--5160052	43	5.0	42	78	9	137	33	27	15	23	1.95
5159841--5160052	85	2.5	84	77	11	207	33	27	15	23	1.95
5167775--5167896	43	2.8	43	81	1	154	32	26	17	23	1.96
5168923--5168948	5	5.2	5	100	0	52	42	19	19	19	1.90
5174268--5174326	21	2.8	20	80	14	57	54	3	1	40	1.27
5174317--5174350	18	2.0	16	88	11	50	58	0	0	41	0.98
5177831--5177950	60	2.0	60	81	0	141	32	25	15	26	1.96
5178806--5178874	33	2.1	32	81	7	77	30	4	2	62	1.29
5183772--5183829	21	2.8	21	86	0	80	31	27	13	27	1.94
5195932--5196031	50	2.0	48	88	7	148	47	9	16	28	1.76
5201516--5201546	16	1.9	16	93	0	53	32	25	16	25	1.96
5201909--5201979	34	2.1	34	84	5	90	22	21	25	30	1.98
5205961--5206002	21	2.0	21	85	0	57	35	11	9	42	1.74
5219187--5219225	20	2.0	20	90	10	62	30	5	15	48	1.66
5225512--5225554	22	2.0	22	86	9	61	44	20	2	32	1.65
5225918--5225944	3	9.0	3	100	0	54	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5250046--5250169	29	4.1	29	70	10	79	42	16	16	24	1.88
5255096--5255192	10	9.4	10	73	17	65	65	1	2	30	1.10
5255106--5255142	19	2.0	19	89	5	58	70	0	5	24	1.08
5258539--5258698	29	5.3	29	68	8	113	35	12	25	27	1.92
5258539--5258760	61	3.6	61	83	1	248	33	13	26	27	1.93
5260392--5260428	3	12.3	3	100	0	74	67	0	32	0	0.91
5261627--5261671	16	2.8	17	78	18	51	33	2	2	62	1.20
5261649--5261720	30	2.4	29	80	13	83	38	4	4	52	1.40
5264669--5264735	33	2.0	33	85	5	91	38	5	20	34	1.77
5264820--5264862	22	1.9	23	85	4	61	44	2	13	39	1.57
5265081--5265130	20	2.5	20	87	6	66	26	14	16	44	1.85
5266272--5266775	116	4.3	116	79	11	568	39	18	14	27	1.90
5266365--5266653	93	3.1	93	92	1	454	39	17	15	27	1.90
5266393--5266778	140	2.8	139	87	4	526	38	18	15	27	1.90
5266274--5266778	23	21.7	23	70	15	226	39	18	14	27	1.89
5266390--5266791	93	4.3	93	86	4	260	39	18	14	27	1.89
5267153--5267347	101	1.9	101	93	2	338	42	17	3	37	1.65
5267610--5267709	28	3.6	27	81	11	114	28	28	12	32	1.92
5271105--5271148	11	4.4	11	78	18	51	40	0	2	56	1.11
5279529--5279565	18	2.1	18	94	0	65	45	10	13	29	1.77
5284610--5285208	312	1.9	311	92	2	1015	38	22	11	27	1.89
5286605--5286646	19	2.2	20	87	12	61	33	4	2	59	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5288579--5288662	26	3.2	26	77	3	89	19	22	19	39	1.93
5290761--5290811	25	2.0	25	100	0	102	35	23	3	37	1.74
5291482--5291549	25	2.7	26	82	11	79	35	16	27	20	1.94
5297663--5297742	29	2.7	29	84	3	88	40	20	10	30	1.85
5299586--5299633	18	2.7	17	75	9	51	16	8	4	70	1.27
5303030--5303061	17	1.9	16	93	6	55	65	12	0	21	1.25
5303025--5303062	17	2.4	16	83	12	51	63	15	0	21	1.31
5306543--5306584	19	2.3	19	87	4	59	50	9	7	33	1.62
5314938--5315604	94	7.1	94	82	3	689	33	18	18	29	1.95
5315371--5315544	44	3.8	44	70	16	131	32	18	20	28	1.96
5314926--5315604	282	2.4	281	81	5	834	33	18	17	29	1.95
5315521--5315686	84	2.0	84	82	0	206	33	16	22	26	1.96
5315727--5315896	50	3.6	48	72	16	165	35	17	17	30	1.92
5315727--5315935	94	2.2	92	88	3	303	35	18	16	29	1.93
5315818--5315913	50	1.9	51	78	4	97	38	17	15	28	1.91
5315768--5316097	94	3.5	94	82	1	349	36	18	18	27	1.94
5315962--5316097	50	3.0	44	65	23	107	37	19	18	25	1.94
5317608--5317636	12	2.3	13	94	5	51	20	6	0	72	1.07
5319280--5319323	21	2.2	20	83	4	52	38	2	0	59	1.10
5321950--5322271	165	2.0	163	93	1	545	27	16	29	26	1.97
5332042--5332088	20	2.3	21	92	7	80	23	10	17	48	1.77
5333220--5333280	32	1.9	32	93	0	104	52	16	3	27	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5333220--5333293	32	2.5	30	82	10	91	52	17	2	27	1.58
5344733--5344757	11	2.3	11	100	0	50	48	20	8	24	1.76
5349566--5349604	6	6.2	6	85	8	51	17	2	0	79	0.84
5350414--5350506	3	31.3	3	75	6	82	27	4	4	63	1.32
5351752--5351797	23	2.0	23	86	0	65	52	2	8	36	1.45
5352657--5352702	23	2.0	23	86	0	65	52	2	8	36	1.45
5382000--5382558	114	4.9	112	76	4	474	25	23	19	31	1.98
5382053--5382477	227	1.9	229	84	3	570	26	23	18	32	1.97
5383205--5383257	17	3.2	17	81	5	63	35	0	3	60	1.15
5394864--5394897	12	2.8	12	95	0	59	38	0	5	55	1.24
5396021--5396269	42	5.9	42	89	2	349	28	15	25	30	1.96
5397282--5397355	25	3.0	25	86	7	105	18	43	10	27	1.83
5400533--5400703	27	6.3	27	74	8	125	26	11	18	43	1.84
5400544--5400703	54	3.0	52	80	7	176	26	11	16	45	1.82
5400560--5400741	27	6.7	27	75	6	100	25	11	18	44	1.83
5400547--5400741	54	3.6	54	73	9	175	25	11	16	45	1.82
5402256--5402303	22	2.2	22	92	0	78	43	18	6	31	1.75
5407602--5407778	49	3.6	49	84	7	225	24	14	29	31	1.95
5411408--5411546	46	3.0	46	87	4	208	35	7	26	29	1.85
5411976--5412057	21	3.8	21	80	3	101	40	23	20	15	1.91
5411976--5412085	23	5.0	23	79	6	113	38	20	20	20	1.94
5416493--5416546	26	2.1	26	85	0	72	31	12	9	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5418248--5418300	26	2.2	24	81	15	72	56	5	0	37	1.23
5418254--5418307	26	2.1	26	100	0	108	59	3	0	37	1.15
5421616--5421648	3	11.0	3	100	0	66	66	0	0	33	0.92
5421882--5421910	11	2.5	12	94	5	51	79	0	0	20	0.74
5424385--5424434	5	10.0	5	78	8	57	44	0	2	54	1.11
5431752--5431816	21	3.1	21	77	0	76	38	23	20	18	1.93
5432955--5433026	5	14.2	5	77	13	58	56	4	0	38	1.18
5433560--5433604	23	2.0	23	90	0	72	33	8	17	40	1.81
5443590--5443641	21	2.4	21	77	3	59	53	3	0	42	1.19
5445688--5445943	79	3.2	79	100	0	512	54	1	3	40	1.25
5445744--5445991	44	6.0	44	66	22	171	54	2	4	39	1.34
5450157--5450198	11	3.6	11	81	12	57	35	0	4	59	1.19
5451333--5452121	393	2.0	393	100	0	1578	38	5	19	36	1.75
5454825--5454976	62	2.5	62	85	2	189	24	28	21	25	1.99
5456165--5456240	20	4.2	18	73	17	68	65	3	0	30	1.10
5456168--5456209	11	4.0	11	78	12	52	59	4	0	35	1.19
5456145--5456247	26	3.8	26	74	16	86	65	2	1	30	1.18
5456161--5456253	18	5.2	17	74	16	57	64	4	0	31	1.13
5458007--5458036	14	2.1	14	100	0	60	20	13	26	40	1.89
5458623--5458672	20	2.5	19	84	9	64	60	2	2	36	1.20
5459247--5459287	21	2.0	21	90	9	66	34	0	4	60	1.18
5461328--5461360	17	1.9	18	88	11	52	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5463557--5463592	14	2.6	14	86	0	54	72	0	8	19	1.10
5463722--5463766	23	2.0	23	86	8	65	62	13	0	24	1.31
5465322--5465996	88	7.6	88	86	1	825	23	24	22	28	1.99
5465403--5466009	44	13.8	45	63	8	120	23	25	23	28	1.99
5465885--5466027	45	3.2	45	73	2	144	25	24	24	25	2.00
5467286--5467332	15	3.1	15	82	11	60	12	17	0	70	1.17
5467289--5467347	30	1.9	29	83	10	73	13	13	0	72	1.11
5467813--5467921	17	6.4	17	68	12	62	0	15	5	78	0.92
5467813--5467907	9	10.8	8	71	23	50	0	14	6	78	0.93
5467812--5467874	29	2.2	29	76	18	69	0	17	4	77	0.93

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