genome.fa.s12.2.7.7.80.10.50.1000.14.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  14  of  128  ( 15303 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)
4096336--4096365	14	2.1	14	93	0	51	30	50	0	20	1.49
4096493--4096545	7	7.6	7	81	8	54	33	45	0	20	1.52
4096494--4096551	21	2.8	21	79	7	64	34	43	0	22	1.54
4096660--4096684	13	1.9	13	100	0	50	32	60	0	8	1.26
4096516--4096684	74	2.2	76	87	3	252	42	31	0	26	1.56
4097136--4097282	41	3.6	40	80	8	163	28	25	21	23	1.99
4097307--4097403	40	2.4	39	80	8	106	19	18	19	42	1.90
4097329--4097420	40	2.3	38	83	9	121	23	22	18	34	1.96
4109806--4110026	63	3.5	62	80	3	228	24	9	32	33	1.87
4109805--4110034	126	1.8	126	81	3	284	24	9	31	34	1.87
4110650--4110797	41	3.6	41	84	0	197	33	18	28	19	1.95
4145016--4145056	17	2.5	17	92	4	66	36	31	4	26	1.78
4145164--4145209	14	3.0	16	81	9	51	19	43	2	34	1.63
4145972--4146005	16	2.1	16	100	0	68	38	0	11	50	1.39
4149282--4149340	24	2.5	24	94	0	100	42	0	27	30	1.56
4149390--4149450	17	3.4	17	68	12	50	32	1	11	54	1.46
4149457--4149564	9	11.6	9	85	7	117	21	8	35	35	1.83
4149469--4149519	11	5.0	11	84	15	74	19	7	29	43	1.79
4152875--4152910	18	1.9	19	94	5	65	30	5	0	63	1.17
4156406--4156456	21	2.5	21	81	6	61	62	1	1	33	1.17
4157419--4157613	96	2.0	96	98	0	381	38	18	12	29	1.88
4165400--4165465	20	3.3	20	66	8	53	12	24	27	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4165480--4165585	20	5.3	20	68	2	79	17	21	22	37	1.94
4165454--4165587	40	3.3	40	83	4	137	20	21	21	35	1.96
4169961--4170001	14	2.6	17	74	18	52	34	26	9	29	1.88
4177871--4177908	17	2.2	17	100	0	76	50	10	10	28	1.70
4178845--4178869	10	2.5	10	100	0	50	32	8	0	60	1.26
4181262--4181298	19	1.9	19	94	0	65	27	0	8	64	1.21
4183217--4183390	61	2.9	61	85	0	233	31	16	24	27	1.96
4183665--4183695	10	3.1	10	90	0	53	51	12	9	25	1.70
4183937--4183979	6	6.5	6	80	19	50	79	4	2	13	1.00
4183937--4183979	13	3.2	13	83	9	59	79	4	2	13	1.00
4185589--4185643	26	2.2	26	80	3	67	78	3	3	14	1.03
4185606--4185649	19	2.2	19	84	8	52	81	2	2	13	0.88
4185597--4185649	26	2.0	26	85	7	72	77	5	1	15	1.04
4189635--4189685	13	3.9	13	78	17	61	74	1	0	23	0.92
4189635--4189690	19	2.9	19	73	7	51	73	1	1	23	1.03
4194448--4194575	29	4.4	28	80	5	130	37	21	14	25	1.92
4199059--4199091	2	16.5	2	93	0	57	48	0	3	48	1.17
4209973--4209998	12	2.2	12	100	0	52	65	0	0	34	0.93
4217599--4217687	45	2.0	45	91	4	144	20	17	21	40	1.92
4217611--4217704	45	2.1	45	87	0	134	20	19	21	39	1.93
4218860--4218893	12	2.9	12	86	4	52	32	0	0	67	0.91
4220592--4220624	15	2.3	15	89	5	50	18	12	3	66	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4227057--4227099	9	5.0	8	81	13	50	39	2	2	55	1.25
4227057--4227099	18	2.5	16	85	14	59	39	2	2	55	1.25
4228338--4228713	126	3.0	124	84	2	511	30	16	22	30	1.96
4230388--4230564	45	4.0	45	84	0	212	40	20	19	19	1.91
4230388--4230554	90	1.9	89	85	1	235	40	20	19	19	1.92
4230814--4230901	45	2.0	44	88	2	131	42	21	19	17	1.90
4234770--4235217	21	21.3	21	80	8	430	17	0	36	44	1.54
4234769--4235352	43	14.1	43	80	9	605	17	0	36	45	1.54
4234765--4235352	64	9.5	64	77	12	557	17	0	36	45	1.54
4234914--4235230	15	22.4	13	64	21	63	18	0	36	44	1.56
4234775--4235359	21	27.5	21	75	14	99	17	0	36	45	1.54
4235321--4235362	14	3.0	14	79	10	50	14	0	35	50	1.43
4235314--4235398	28	3.3	27	75	14	81	17	2	32	47	1.61
4235402--4235441	21	1.9	21	85	10	55	35	0	20	45	1.51
4236015--4236054	18	2.2	18	90	0	62	42	7	30	20	1.79
4237960--4238015	22	2.5	23	77	11	62	41	1	33	23	1.65
4239447--4239573	58	2.2	58	89	1	200	18	29	18	33	1.95
4243764--4243887	44	2.8	45	80	4	144	30	22	17	29	1.97
4243860--4243973	44	2.6	44	78	2	122	23	26	22	27	2.00
4244069--4244363	86	3.4	86	93	0	473	23	24	24	27	2.00
4244095--4244316	43	5.1	43	63	16	127	23	25	24	26	2.00
4246000--4246048	19	2.5	19	87	12	64	8	14	10	67	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4246050--4246098	6	8.5	6	88	6	75	14	0	16	69	1.19
4252855--4252897	15	2.8	16	79	10	54	62	2	0	34	1.08
4260137--4260189	22	2.3	24	77	6	65	32	1	3	62	1.24
4260144--4260187	23	1.9	23	86	9	63	36	2	4	56	1.32
4260170--4260207	16	2.2	17	90	9	60	18	2	0	78	0.86
4260184--4260235	19	2.8	19	85	8	63	13	5	1	78	1.01
4260187--4260219	12	2.6	13	85	9	50	15	3	0	81	0.80
4260185--4260235	18	2.7	19	85	8	61	13	5	1	78	1.02
4260345--4260405	30	2.0	30	83	0	77	37	11	13	37	1.80
4260766--4260792	14	1.9	14	100	0	54	62	7	0	29	1.22
4260837--4260904	29	2.4	29	78	7	77	67	0	5	26	1.13
4260881--4260909	11	2.6	11	100	0	58	79	0	0	20	0.74
4260901--4260945	19	2.4	18	85	10	63	62	0	2	35	1.08
4260841--4260944	39	2.7	40	78	3	122	65	0	3	30	1.10
4260898--4260944	20	2.3	21	82	10	62	63	0	2	34	1.06
4261044--4261156	11	10.4	11	65	18	58	46	4	0	48	1.22
4261035--4261146	56	2.0	56	98	0	215	48	6	0	45	1.27
4262603--4262643	21	2.0	21	100	0	82	14	19	19	46	1.84
4262815--4262852	10	3.8	10	83	10	51	39	7	31	21	1.82
4264225--4264278	21	2.6	21	83	11	67	33	0	1	64	1.04
4264233--4264297	22	2.7	25	79	15	75	35	0	4	60	1.18
4265118--4265156	20	2.0	20	95	5	71	25	23	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265957--4266003	21	2.2	21	84	0	58	27	14	23	34	1.94
4265964--4266009	21	2.2	21	92	0	74	21	13	23	41	1.88
4267451--4267545	48	2.0	48	93	0	163	43	20	14	22	1.88
4267844--4267915	36	2.0	36	89	2	110	31	26	8	33	1.86
4274100--4274171	36	2.0	35	84	12	94	30	27	8	33	1.86
4274965--4275009	24	1.9	23	86	13	65	33	13	2	51	1.53
4275259--4275302	23	1.9	24	90	9	74	22	20	2	54	1.56
4278018--4278252	72	3.3	72	80	6	253	35	19	23	21	1.96
4279613--4279705	23	4.1	23	79	6	100	38	15	11	34	1.84
4285378--4285406	3	9.7	3	100	0	58	31	0	0	68	0.89
4285492--4285526	6	5.7	6	93	6	61	14	0	0	85	0.59
4285639--4285682	22	2.0	21	86	4	61	36	6	0	56	1.26
4290222--4290270	6	8.2	6	97	0	71	26	48	0	24	1.51
4291829--4293334	753	2.0	753	98	0	2886	31	13	16	39	1.87
4294969--4295020	26	2.0	26	100	0	104	19	11	23	46	1.82
4295104--4295137	12	2.8	12	100	0	68	0	23	14	61	1.33
4295265--4295326	25	2.5	25	97	0	115	29	9	20	40	1.84
4295471--4295511	20	2.2	19	91	8	66	31	0	19	48	1.49
4300201--4300306	44	2.5	41	79	18	135	35	31	3	29	1.75
4300218--4300308	46	2.0	46	93	4	159	38	30	4	26	1.76
4300288--4300324	16	2.3	16	100	0	74	21	35	5	37	1.77
4300980--4301015	18	2.0	18	88	0	54	61	11	0	27	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306500--4306542	22	2.0	22	86	4	61	48	20	4	25	1.69
4307273--4307375	23	4.4	23	74	14	86	36	18	23	21	1.95
4307600--4307972	67	5.6	67	89	0	557	41	19	1	36	1.63
4307613--4307972	134	2.7	134	94	0	630	41	20	1	36	1.63
4312991--4313027	2	18.5	2	94	0	65	48	0	0	51	1.00
4313669--4313703	19	1.9	18	88	11	54	65	0	28	5	1.15
4314920--4314962	20	2.2	20	87	8	61	32	30	16	20	1.95
4317437--4317481	23	2.0	23	81	0	54	40	13	8	37	1.76
4319257--4319294	2	19.0	2	100	0	76	50	0	0	50	1.00
4319257--4319383	64	2.0	64	95	3	227	40	1	19	37	1.61

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