genome.fa.s10.2.7.7.80.10.50.1000.14.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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   132   133   134   135   136   

This is table  14  of  136  ( 16211 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)
4371135--4371242	27	4.3	27	75	15	88	38	4	4	51	1.43
4371149--4371216	13	5.2	13	87	3	91	36	1	5	55	1.33
4371612--4371890	137	2.0	138	97	0	524	36	19	18	25	1.95
4373551--4373585	9	3.9	9	88	0	52	34	14	37	14	1.86
4373549--4373585	18	2.1	18	94	0	65	35	13	37	13	1.84
4373791--4373849	30	2.0	30	89	0	91	38	10	18	32	1.84
4378435--4378527	25	3.6	25	78	5	87	32	22	22	22	1.98
4378430--4378527	52	1.9	51	85	6	135	32	22	21	23	1.98
4380484--4380510	6	4.5	6	100	0	54	14	66	18	0	1.25
4380857--4380892	14	2.5	15	90	4	56	44	44	11	0	1.39
4380845--4381004	82	2.0	81	98	1	311	40	31	11	16	1.83
4380939--4380974	14	2.5	15	90	4	56	44	44	11	0	1.39
4382078--4382127	3	16.7	3	100	0	100	34	0	0	66	0.92
4400654--4401610	96	9.8	97	84	5	940	32	25	20	21	1.97
4400793--4401135	50	7.0	50	70	12	214	34	26	18	20	1.96
4400700--4401552	49	17.5	50	67	10	290	33	25	20	21	1.97
4403163--4403225	3	20.7	3	90	3	90	31	3	1	63	1.19
4406147--4406178	1	32.0	1	93	0	55	0	96	0	3	0.20
4406795--4406934	72	1.9	72	98	0	271	42	7	23	26	1.79
4406884--4406984	50	2.0	50	92	0	166	44	6	23	24	1.78
4411579--4411613	17	2.1	17	100	0	70	48	0	11	40	1.39
4417453--4417485	15	2.2	15	100	0	66	45	6	24	24	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4425145--4425244	20	5.0	20	77	0	101	13	30	20	37	1.90
4425119--4425284	60	2.8	60	86	1	235	16	30	19	33	1.94
4428885--4429009	50	2.5	50	82	0	142	25	29	18	26	1.98
4440555--4440609	19	3.3	19	67	32	61	25	16	9	49	1.75
4440550--4440609	31	2.0	30	96	3	111	23	18	10	48	1.78
4449523--4449548	5	5.2	5	100	0	52	19	0	0	80	0.71
4451823--4451950	40	3.2	40	86	1	175	31	20	26	21	1.98
4454690--4454796	39	2.7	40	77	7	112	32	29	14	22	1.94
4454818--4455201	39	9.9	39	88	0	565	33	33	17	16	1.92
4454818--4455200	78	4.9	78	94	0	635	33	32	17	16	1.92
4455535--4455568	18	1.9	18	88	5	52	47	11	0	41	1.40
4462518--4462759	39	6.2	39	82	4	290	34	31	17	16	1.92
4462518--4462759	117	2.1	117	87	3	344	34	31	17	16	1.92
4479507--4479614	40	2.7	40	85	7	139	64	0	0	33	1.06
4488837--4488928	35	2.6	35	81	3	96	25	19	17	38	1.93
4500449--4500487	21	1.9	21	89	5	62	28	2	2	66	1.18
4506037--4506083	24	1.9	24	86	4	67	36	0	34	29	1.58
4506692--4506778	27	3.3	27	93	1	149	40	18	19	21	1.92
4508809--4508843	18	2.0	18	88	5	54	28	0	2	68	1.04
4508851--4508881	5	6.2	5	100	0	62	0	41	58	0	0.98
4510049--4510097	20	2.5	20	86	0	62	30	10	24	34	1.89
4510065--4510106	20	2.1	20	100	0	84	28	16	21	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4510585--4510624	14	2.9	14	84	0	53	32	7	17	42	1.77
4510608--4510647	20	2.0	20	90	0	62	27	10	12	50	1.72
4510593--4510659	34	1.9	35	90	3	109	31	8	13	46	1.74
4510587--4510663	14	5.0	15	71	20	52	32	9	15	42	1.78
4526622--4526695	25	3.0	25	89	0	103	29	17	17	35	1.93
4527430--4527466	19	1.9	19	94	0	65	40	16	16	27	1.89
4530584--4530612	12	2.3	13	94	5	51	20	6	6	65	1.40
4544142--4544175	13	2.6	13	90	0	50	32	5	14	47	1.69
4546894--4546972	22	3.6	21	68	13	52	36	8	1	53	1.40
4546882--4546974	43	2.1	44	82	5	109	44	8	1	46	1.41
4552365--4552389	7	3.6	7	100	0	50	40	32	12	16	1.84
4552537--4552630	20	4.7	19	74	11	73	42	18	25	13	1.87
4554406--4554450	20	2.3	20	85	7	58	48	20	0	31	1.49
4554105--4554501	214	1.9	214	85	2	564	48	16	4	30	1.66
4561159--4561235	38	2.0	38	90	5	120	24	19	18	37	1.94
4563611--4563635	6	4.2	6	100	0	50	84	0	0	16	0.63
4566232--4566290	22	2.9	20	79	16	59	59	3	6	30	1.40
4566230--4566308	30	2.5	30	78	12	77	62	3	5	29	1.34
4566239--4566290	22	2.5	20	84	12	61	59	3	5	30	1.39
4566899--4566934	16	2.2	16	90	5	54	80	0	0	19	0.71
4568029--4568292	100	2.6	100	94	0	465	25	23	22	29	1.99
4568037--4568292	50	5.1	50	68	5	194	24	23	21	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4584528--4584565	5	7.8	5	85	5	51	78	0	2	18	0.86
4586954--4587185	42	5.5	41	80	10	238	37	23	18	20	1.94
4586954--4587185	84	2.8	84	91	0	374	37	23	18	20	1.94
4587617--4587671	20	2.6	21	85	8	76	25	16	29	29	1.97
4588902--4588927	11	2.4	11	100	0	52	53	0	7	38	1.30
4588924--4588953	9	3.3	9	95	0	51	86	0	0	13	0.57
4590477--4590653	40	4.4	40	98	0	336	41	16	27	14	1.87
4590477--4590691	80	2.7	80	90	2	270	40	16	27	14	1.88
4590477--4590699	120	1.9	121	84	4	308	41	16	28	14	1.87
4590637--4590720	20	4.2	20	71	6	80	38	21	30	9	1.85
4592523--4593049	139	3.8	139	96	1	925	44	4	8	42	1.55
4596062--4596098	6	6.3	6	87	12	51	45	0	2	51	1.15
4596062--4596098	17	2.1	18	95	5	67	45	0	2	51	1.15
4608008--4608042	5	7.0	5	93	0	61	20	0	2	77	0.90
4609847--4609890	14	3.1	14	77	9	54	43	34	9	13	1.76
4609908--4609974	7	9.7	7	83	3	91	31	31	10	26	1.90
4612072--4612279	104	2.0	104	99	0	407	28	7	8	55	1.58
4613577--4613601	2	12.5	2	100	0	50	48	0	0	52	1.00
4615288--4615342	29	1.9	28	82	10	67	41	9	5	43	1.59
4615541--4615609	21	3.5	20	69	26	65	56	15	14	13	1.67
4615528--4615624	39	2.5	39	96	0	185	52	17	16	13	1.75
4616680--4616723	18	2.4	18	85	7	54	52	4	2	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4616910--4616986	14	5.0	15	70	20	52	33	9	15	41	1.79
4627863--4627962	41	2.4	41	81	0	110	22	31	28	19	1.97
4629479--4629909	107	4.0	106	89	2	607	31	15	17	35	1.91
4630504--4630529	3	8.7	3	100	0	52	30	0	0	69	0.89
4638954--4639018	8	7.3	9	86	13	91	80	9	0	10	0.92
4638951--4639045	44	2.2	42	81	9	111	77	7	5	9	1.10
4639033--4639065	7	4.6	7	96	3	57	87	0	12	0	0.53
4639872--4639906	14	2.6	14	90	4	54	65	0	20	14	1.26
4639872--4639909	20	1.9	20	84	10	51	63	0	21	15	1.31
4641116--4641994	46	19.1	46	88	0	1238	26	15	29	28	1.96
4642048--4642466	88	4.8	86	68	13	226	30	19	25	25	1.98
4641979--4642642	132	5.0	132	98	0	1265	30	18	25	26	1.98
4645998--4646042	21	2.1	22	91	4	74	68	2	22	6	1.24
4647641--4647775	64	2.1	64	95	1	245	48	8	7	35	1.61
4651471--4651625	43	3.6	43	87	3	215	29	14	25	29	1.95
4651471--4651612	42	3.3	42	90	4	205	28	14	26	30	1.95
4651471--4651639	85	2.0	86	82	3	207	30	15	24	29	1.96
4652561--4652612	24	2.2	23	86	6	77	50	25	7	17	1.72
4653111--4653164	26	2.1	25	89	3	81	42	9	18	29	1.81
4653316--4653350	17	2.1	17	100	0	70	45	14	11	28	1.79
4653667--4653699	17	1.9	17	93	0	57	6	12	24	57	1.57
4660556--4660735	48	3.8	48	81	1	164	35	16	17	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4666160--4666485	160	2.0	161	89	2	505	43	19	10	26	1.83
4672825--4673047	27	8.3	27	78	5	200	38	19	19	22	1.93
4672825--4673047	81	2.8	81	81	7	247	38	19	19	22	1.93
4677113--4677162	14	3.7	13	78	21	50	60	4	8	28	1.43
4685430--4685554	33	3.5	33	71	23	108	32	28	18	20	1.96
4685602--4685683	27	2.7	30	85	10	98	34	29	20	15	1.94
4685457--4685788	102	3.3	102	90	2	515	34	27	18	20	1.96
4694055--4694089	9	3.9	9	88	0	52	45	0	2	51	1.16
4696415--4696464	3	16.7	3	100	0	100	66	0	0	34	0.92
4699618--4699643	3	8.7	3	100	0	52	0	30	0	69	0.89

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   132   133   134   135   136