genome.fa.s1.2.7.7.80.10.50.1000.10.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:  37323695

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   

This is table  10  of  93  ( 11113 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)
5158942--5158994	21	2.5	21	100	0	106	35	39	9	15	1.79
5171531--5171638	18	6.0	18	80	4	110	39	19	15	25	1.91
5173134--5173206	29	2.5	29	78	10	76	28	19	9	42	1.82
5173827--5173882	25	2.4	23	83	13	71	37	8	16	37	1.80
5174108--5174171	6	10.5	6	74	15	51	81	1	1	15	0.85
5174108--5174171	7	9.3	7	79	14	71	81	1	1	15	0.85
5175389--5175451	24	2.7	24	76	9	69	66	4	1	26	1.20
5176738--5176837	50	2.0	50	100	0	200	52	6	8	34	1.55
5179394--5179697	111	2.7	111	86	1	412	31	22	36	9	1.86
5180597--5180648	19	2.9	18	83	8	61	71	1	3	23	1.13
5180737--5180782	22	2.1	21	88	4	65	78	2	0	19	0.86
5185348--5185389	10	4.2	10	84	9	59	69	0	0	30	0.89
5185348--5185387	11	3.9	11	81	18	50	70	0	0	30	0.88
5185348--5185406	28	2.0	28	84	12	75	69	0	0	30	0.89
5185354--5185408	19	2.9	18	84	10	67	72	0	0	27	0.85
5185354--5185393	19	2.2	19	95	4	73	77	0	0	22	0.77
5185550--5185575	12	2.2	12	100	0	52	15	0	0	84	0.62
5185618--5185657	21	1.9	21	84	0	53	42	2	0	55	1.13
5185482--5185848	181	2.0	183	97	2	695	31	7	2	57	1.40
5185793--5185841	22	2.2	23	85	3	64	36	2	0	61	1.08
5188919--5188956	4	9.5	4	88	0	58	47	2	2	47	1.30
5188919--5188956	6	6.3	6	93	0	58	47	2	2	47	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5193440--5193464	2	12.5	2	100	0	50	52	0	0	48	1.00
5195579--5195726	73	2.0	74	97	2	280	39	17	12	31	1.86
5201723--5201757	17	2.1	17	88	0	52	68	2	0	28	1.04
5201813--5201844	3	11.0	3	93	6	57	68	0	0	31	0.90
5201867--5201910	21	2.1	21	87	4	63	81	0	2	15	0.78
5201870--5201907	18	2.2	18	85	4	51	84	0	2	13	0.73
5203636--5203677	15	2.9	15	82	3	50	45	0	0	54	0.99
5204962--5205001	19	2.0	20	90	4	64	80	0	2	17	0.83
5204961--5205010	15	3.3	15	75	16	50	74	0	2	24	0.93
5204494--5205527	514	2.0	515	97	1	1966	56	5	7	30	1.51
5205476--5205525	15	3.3	15	83	13	50	76	0	2	22	0.89
5205477--5205526	19	2.5	20	83	12	66	76	0	2	22	0.89
5205494--5205526	16	2.0	17	94	5	59	75	0	0	24	0.80
5207882--5208088	103	2.0	103	99	0	405	30	22	17	28	1.97
5208081--5208117	2	18.5	2	100	0	74	51	0	0	48	1.00
5208612--5208770	56	2.9	56	79	2	169	42	10	11	34	1.76
5218176--5218260	3	28.3	3	71	21	54	28	1	2	68	1.09
5218191--5218228	20	1.9	20	84	10	51	23	0	0	76	0.79
5218345--5218377	5	6.8	5	86	6	50	18	0	0	81	0.68
5218340--5218382	8	5.5	8	77	5	52	18	0	0	81	0.69
5219319--5219375	29	1.9	30	82	10	73	17	3	0	78	0.88
5219341--5219383	20	2.2	19	87	4	59	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5219341--5219383	10	4.4	10	82	2	52	25	0	0	74	0.82
5222290--5222338	19	2.7	17	79	14	53	36	0	0	63	0.95
5222290--5222344	9	6.0	9	74	17	51	38	0	0	61	0.96
5233497--5233536	14	2.9	14	85	7	55	37	12	7	42	1.71
5239135--5239173	13	3.0	13	92	0	60	41	15	7	35	1.76
5240658--5240692	13	2.6	14	91	8	56	42	17	8	31	1.79
5241288--5241320	2	16.5	2	93	0	57	48	0	3	48	1.17
5258554--5258599	23	2.0	23	91	0	74	47	21	10	19	1.80
5265647--5265676	15	1.9	16	93	6	53	10	6	6	76	1.15
5282324--5282371	16	3.1	15	76	8	51	72	0	4	22	1.01
5282487--5282517	15	2.1	15	100	0	62	6	0	93	0	0.35
5282491--5282515	13	1.9	13	100	0	50	4	0	96	0	0.24
5282490--5282516	14	1.9	14	100	0	54	3	0	96	0	0.23
5282648--5282690	20	2.3	18	92	8	68	16	2	4	76	1.05
5282633--5282739	34	3.2	34	80	12	116	24	1	5	68	1.21
5282668--5282759	13	6.3	13	73	22	60	22	1	6	69	1.18
5282668--5282755	14	5.8	15	76	16	92	23	1	6	68	1.21
5284199--5284251	21	2.5	21	90	3	79	26	15	20	37	1.92
5284984--5285030	18	2.5	19	82	3	60	68	0	10	21	1.20
5285626--5285673	25	1.9	25	83	8	62	60	8	2	29	1.37
5287709--5287759	11	4.5	11	85	7	66	0	15	0	84	0.63
5287708--5287759	16	3.3	15	82	10	59	0	17	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5287709--5287752	12	3.6	12	85	14	63	0	15	0	84	0.63
5287709--5287759	9	6.2	8	76	19	52	0	15	0	84	0.63
5289521--5289593	22	3.2	22	64	7	56	35	9	13	41	1.77
5296086--5296124	17	2.2	18	86	13	55	30	0	7	61	1.24
5299150--5299261	22	5.0	22	74	15	95	47	0	3	49	1.19
5299150--5299269	44	2.7	46	84	8	149	45	0	4	50	1.21
5299193--5299268	20	3.6	20	73	13	71	47	0	3	48	1.20
5299309--5299541	62	3.5	62	68	21	175	37	6	3	51	1.47
5299302--5299579	140	2.0	141	92	4	465	37	7	3	50	1.50
5299743--5299818	37	2.1	37	97	0	143	22	18	17	42	1.89
5320187--5320241	23	2.4	23	96	0	101	20	20	20	40	1.92
5326266--5326340	35	2.1	35	97	0	141	34	10	24	30	1.89
5333169--5333215	17	2.8	17	74	9	51	68	0	2	29	1.02
5343421--5343519	33	3.0	33	84	10	132	28	2	0	69	0.99
5343565--5343609	16	2.6	18	77	19	51	57	2	4	35	1.31
5345925--5345957	3	11.7	3	87	12	52	0	33	0	66	0.92
5347291--5347593	152	2.0	152	96	0	552	30	17	16	35	1.92
5358738--5358801	31	2.1	29	82	5	74	54	6	12	26	1.61
5365498--5365523	2	13.0	2	100	0	52	0	50	0	50	1.00
5367474--5367503	9	3.3	9	95	0	51	43	20	10	26	1.83
5367554--5367578	12	2.1	12	100	0	50	68	0	0	32	0.90
5368095--5368128	2	17.0	2	100	0	68	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)
5370304--5370366	18	3.5	19	72	10	53	77	1	3	17	0.97
5370304--5370366	19	3.5	18	75	23	53	77	1	3	17	0.97
5379335--5379360	2	13.0	2	100	0	52	50	0	50	0	1.00
5382652--5382693	19	2.2	19	100	0	84	35	4	4	54	1.42
5385688--5385720	14	2.4	14	90	10	50	54	0	6	39	1.25
5387396--5387420	6	4.2	6	100	0	50	16	0	0	84	0.63
5390265--5390340	27	2.8	27	95	0	134	23	9	31	35	1.86
5414670--5414721	27	1.9	27	96	0	95	23	15	23	38	1.92
5419701--5419735	13	2.7	13	86	0	52	80	2	17	0	0.84
5425508--5425538	2	15.5	2	100	0	62	51	0	0	48	1.00
5437579--5437603	12	2.1	12	100	0	50	20	8	8	64	1.46
5442712--5442741	14	2.2	13	94	5	51	0	36	0	63	0.95
5450670--5450715	21	2.2	21	92	0	74	23	15	23	36	1.93
5450572--5450754	66	2.8	66	80	0	204	34	14	18	32	1.91
5450700--5450806	45	2.4	45	91	0	178	35	13	17	33	1.89
5450818--5450856	21	2.0	20	90	10	62	28	20	15	35	1.93
5450785--5450887	51	2.0	52	88	1	154	37	14	13	33	1.86
5450890--5450947	26	2.3	25	85	11	66	48	15	12	24	1.79
5450792--5450921	51	2.5	51	81	7	136	41	15	12	30	1.84
5450898--5450947	26	1.9	26	92	8	84	44	16	14	26	1.85
5451407--5451472	23	2.9	23	90	2	98	56	9	24	10	1.62
5453098--5453132	18	2.0	17	88	5	52	45	0	54	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5456166--5456443	89	3.1	89	84	3	337	21	33	17	27	1.96
5460708--5460745	2	19.0	2	100	0	76	50	0	0	50	1.00
5486394--5486474	10	8.1	10	78	9	76	17	1	0	81	0.76
5486405--5486476	19	3.8	19	77	20	80	20	0	0	79	0.74
5486404--5486476	15	4.9	14	76	15	74	20	0	0	79	0.73
5489290--5489328	15	2.6	15	84	12	53	15	10	0	74	1.07
5489529--5489601	25	2.8	26	81	4	85	38	12	6	42	1.69
5489537--5489610	25	3.0	24	84	7	85	39	12	6	41	1.69
5518085--5518126	22	1.9	22	95	0	75	11	2	26	59	1.45
5518206--5518340	45	3.0	45	85	0	162	37	14	17	31	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