genome.fa.s8.2.7.7.80.10.50.1000.23.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  23  of  135  ( 16172 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)
9158857--9158932	38	2.0	38	100	0	152	21	7	21	50	1.74
9162377--9162435	29	2.0	29	90	0	91	45	1	8	44	1.44
9163017--9163099	29	3.0	28	84	12	100	54	2	25	18	1.56
9163018--9163099	27	3.0	27	87	7	103	53	2	25	18	1.56
9163470--9163843	198	1.9	199	82	2	475	34	10	14	39	1.81
9166463--9166507	21	2.1	21	91	0	72	35	42	8	13	1.75
9170870--9170910	6	6.8	6	91	0	55	29	39	31	0	1.57
9171350--9171441	48	1.9	48	97	0	175	48	14	6	30	1.68
9171379--9171623	62	4.0	62	93	4	410	48	9	6	35	1.62
9171451--9171549	26	3.1	35	60	31	83	53	11	6	29	1.60
9178239--9178280	6	7.0	6	94	0	66	78	4	0	16	0.91
9178393--9178458	27	2.4	27	82	0	69	28	25	21	24	1.99
9183884--9184025	34	4.2	34	85	1	151	55	14	9	20	1.66
9183912--9184006	33	2.8	34	95	3	165	58	12	8	20	1.59
9184183--9184447	144	1.8	144	85	3	372	23	21	26	27	1.99
9184161--9184417	72	3.6	73	82	3	297	23	22	25	27	2.00
9200030--9200060	3	10.3	3	100	0	62	67	0	0	32	0.91
9201790--9202138	94	3.7	95	79	5	327	30	22	16	30	1.96
9201873--9202192	94	3.4	94	78	5	310	29	20	17	31	1.96
9206546--9206990	158	2.8	156	73	14	419	30	11	6	51	1.64
9207319--9207501	10	17.9	10	67	16	83	1	28	0	69	0.97
9207347--9207516	44	4.0	44	80	12	194	1	29	0	69	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9207365--9207499	38	3.3	39	79	17	134	0	28	0	71	0.92
9207388--9207487	34	2.8	35	80	19	118	0	28	0	72	0.86
9207384--9207513	24	5.6	23	73	13	115	0	29	0	70	0.87
9207558--9207625	27	2.5	27	85	4	93	16	23	39	20	1.91
9209083--9209120	12	3.2	12	78	14	51	15	5	5	73	1.19
9215419--9215666	124	2.0	125	98	0	480	40	23	7	27	1.82
9218606--9218664	30	2.0	30	93	0	100	27	16	30	25	1.97
9235921--9235964	22	2.0	22	86	0	61	25	4	6	63	1.38
9239981--9240026	23	2.0	23	100	0	92	21	4	4	69	1.24
9244648--9244693	24	1.9	24	86	8	67	28	8	21	41	1.83
9247315--9247348	12	2.8	12	90	0	50	44	11	5	38	1.65
9247400--9247445	23	2.0	24	86	4	67	34	10	0	54	1.36
9247470--9247494	13	1.9	13	100	0	50	32	0	0	68	0.90
9251678--9251723	23	2.0	24	82	4	58	73	6	4	15	1.19
9252303--9252334	15	2.1	15	100	0	64	53	18	12	15	1.73
9252589--9252630	6	6.7	6	94	5	66	71	0	14	14	1.15
9252582--9252631	12	3.8	13	89	7	75	74	0	12	14	1.09
9252582--9252637	14	4.3	13	78	13	53	73	0	12	14	1.11
9253899--9255609	44	39.6	44	75	7	1135	31	21	23	23	1.98
9253940--9255638	127	13.1	130	82	5	1211	31	21	23	24	1.98
9253894--9255638	175	10.1	175	74	9	729	31	21	23	24	1.98
9256340--9256377	20	1.9	20	84	10	51	78	13	7	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9259696--9259749	27	2.2	24	80	12	56	35	11	12	40	1.79
9264707--9264732	3	8.7	3	100	0	52	34	0	0	65	0.93
9265207--9265546	3	113.3	3	100	0	680	33	0	0	66	0.92
9268723--9268818	35	2.7	35	76	13	90	29	22	16	31	1.96
9269737--9269915	42	4.3	42	79	2	162	38	18	17	24	1.93
9269737--9269969	84	2.8	84	79	1	216	37	17	19	25	1.93
9269775--9269969	42	4.6	42	79	1	158	36	15	20	27	1.93
9269806--9269972	42	4.0	42	82	0	190	34	15	22	28	1.94
9269945--9269995	26	2.0	26	92	0	84	37	19	23	19	1.94
9269861--9270082	110	2.0	110	83	3	277	35	17	21	25	1.95
9269901--9270040	68	2.1	68	82	2	165	36	15	22	25	1.94
9269984--9270149	42	4.0	41	74	3	125	36	16	19	26	1.93
9269824--9270121	152	2.0	152	82	1	364	36	16	21	25	1.94
9276255--9276471	91	2.4	91	82	1	238	42	13	9	34	1.77
9286145--9286188	4	11.0	4	95	0	79	0	0	27	72	0.85
9290421--9290448	12	2.3	12	100	0	56	28	0	17	53	1.44
9302234--9302271	12	3.2	12	100	0	76	0	23	42	34	1.55
9302227--9302280	24	2.2	24	87	12	76	0	22	44	33	1.53
9302237--9302272	6	6.0	6	86	0	54	0	22	44	33	1.53
9304053--9304113	3	20.3	3	100	0	122	67	0	0	32	0.91
9306045--9306088	19	2.2	21	84	8	56	31	4	0	63	1.14
9309388--9309426	18	2.1	19	85	4	53	61	5	2	30	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9318937--9318982	24	1.9	24	91	8	76	36	0	2	60	1.09
9319170--9319211	16	2.6	16	92	0	66	42	7	2	47	1.43
9319185--9319240	23	2.5	23	82	2	69	44	1	1	51	1.22
9319079--9319203	66	2.0	66	83	13	165	48	8	2	40	1.47
9319379--9319425	21	2.2	21	88	0	76	12	55	27	4	1.56
9320854--9320910	19	2.9	19	75	15	62	57	3	1	36	1.26
9322190--9322218	7	4.1	7	100	0	58	82	0	0	17	0.66
9335036--9335153	45	2.6	45	89	0	182	44	11	22	22	1.84
9335305--9335366	27	2.3	27	86	5	81	32	22	25	19	1.97
9341150--9341334	101	1.8	101	95	0	334	32	17	23	25	1.96
9341173--9341481	101	3.1	100	79	5	257	32	16	24	27	1.96
9341190--9341469	134	2.1	134	92	0	470	32	17	23	27	1.96
9341190--9341467	33	8.3	33	72	6	141	32	16	23	27	1.96
9341221--9341499	134	2.1	134	89	2	418	32	16	24	26	1.96
9341323--9341534	101	2.1	99	85	5	284	33	16	24	25	1.96
9341221--9341547	134	2.4	134	84	2	343	33	16	24	25	1.96
9344710--9344862	4	37.0	4	72	14	107	66	0	32	0	0.96
9344720--9344888	39	4.4	38	76	16	145	66	0	31	0	1.00
9344710--9344878	26	6.3	26	70	18	100	65	0	33	0	1.01
9344707--9344813	34	3.0	34	76	17	101	65	0	34	0	0.93
9344713--9344922	38	5.3	41	77	16	180	66	0	32	0	0.99
9344788--9344850	11	5.8	11	76	16	53	69	1	28	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9344761--9344918	43	4.0	40	78	13	152	67	0	31	0	1.00
9346953--9346989	17	2.2	17	100	0	74	29	16	8	45	1.76
9347567--9347602	18	2.0	18	94	0	63	33	13	22	30	1.93
9347974--9348002	14	2.1	14	100	0	58	37	6	0	55	1.27
9350352--9350396	18	2.5	18	81	0	63	22	46	2	28	1.63
9350975--9351124	38	4.3	32	74	23	92	0	33	0	66	0.97
9351036--9351146	18	6.1	18	73	15	86	0	32	0	65	1.05
9351067--9351146	34	2.8	28	73	24	76	0	32	1	66	1.00
9351025--9351115	38	2.4	38	96	0	164	1	36	0	62	1.02
9351107--9351149	22	1.9	23	85	4	61	0	30	2	67	1.03
9351069--9351150	28	2.7	30	73	19	80	0	32	1	65	1.00
9351198--9351275	27	2.9	27	88	3	104	15	29	26	28	1.96
9351337--9351397	28	2.2	27	88	8	95	52	0	8	39	1.31
9351338--9351409	29	2.5	28	88	6	92	51	1	8	38	1.41
9362272--9362305	14	2.4	14	90	0	50	58	2	0	38	1.13
9362686--9362745	29	2.0	30	90	3	95	31	0	46	21	1.52
9366729--9366759	15	2.1	15	100	0	62	54	6	12	25	1.62
9373393--9373679	138	2.1	140	95	3	519	43	21	9	25	1.81
9374986--9375030	22	2.0	22	87	8	65	64	4	0	31	1.13
9374986--9375030	11	4.1	10	83	16	54	64	4	0	31	1.13
9375510--9375557	22	2.2	22	85	7	62	64	2	2	31	1.16
9377783--9377863	36	2.2	36	88	0	117	29	4	9	55	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9389382--9389444	30	2.1	30	93	0	108	25	3	12	58	1.49
9389567--9389609	11	3.6	11	77	17	50	67	0	2	30	1.03
9389572--9389613	14	3.2	13	87	9	59	64	0	2	33	1.07
9390177--9390407	114	2.0	116	95	2	421	43	12	16	27	1.84
9390922--9390953	10	3.2	10	95	0	55	43	0	6	50	1.27
9391255--9391312	3	19.3	3	92	0	98	65	1	1	31	1.13
9393152--9393718	44	13.1	43	69	16	218	27	22	19	30	1.98
9393088--9393718	214	2.9	214	89	2	908	28	22	19	30	1.98
9394891--9394933	5	7.8	6	87	12	58	0	0	11	88	0.52
9405259--9405283	4	6.2	4	100	0	50	48	28	0	24	1.52

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