genome.fa.s8.2.7.7.80.10.50.1000.31.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  31  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)
12404219--12404251	16	2.1	16	94	0	57	60	30	0	9	1.27
12409893--12409955	32	2.0	32	81	6	74	47	3	0	49	1.17
12421327--12421369	20	2.2	20	83	8	52	39	4	9	46	1.57
12429779--12429813	17	2.1	17	94	0	61	37	17	22	22	1.94
12429826--12429899	29	2.5	29	86	4	94	50	16	13	20	1.78
12438940--12439000	31	2.1	28	88	11	88	55	0	3	40	1.16
12448916--12448964	25	2.0	25	87	0	71	42	0	4	53	1.20
12449033--12449107	27	2.8	27	78	8	89	30	21	28	20	1.98
12449115--12449165	21	2.4	22	80	6	68	31	1	9	56	1.43
12449197--12449271	27	3.0	25	82	9	91	32	1	13	53	1.48
12449415--12449450	16	2.3	16	90	4	56	33	2	5	58	1.36
12452236--12452322	40	2.2	40	81	4	95	27	16	20	35	1.94
12467575--12467626	18	2.9	18	85	5	70	26	44	13	15	1.84
12472438--12472468	16	1.9	16	93	0	53	41	9	12	35	1.76
12473802--12473845	22	2.0	22	90	0	70	36	22	22	18	1.95
12475503--12475593	46	2.0	46	93	0	155	31	20	14	32	1.93
12476130--12476162	14	2.3	15	89	5	50	72	0	3	24	0.98
12476465--12476504	20	2.0	20	85	4	55	42	0	0	57	0.98
12477575--12477644	23	3.2	22	73	17	65	64	1	7	27	1.28
12482935--12482984	23	2.2	24	82	10	68	40	6	18	36	1.75
12486352--12486393	16	2.6	16	88	3	57	26	2	2	69	1.13
12498650--12498700	16	3.1	16	76	15	50	66	7	0	25	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12506738--12506788	24	2.1	24	100	0	102	41	19	3	35	1.70
12509763--12509805	3	14.3	3	95	0	77	32	2	0	65	1.06
12510610--12510649	18	2.2	18	86	8	55	60	2	0	37	1.11
12510620--12510670	17	2.8	19	82	11	54	60	0	0	39	0.97
12510678--12510773	26	3.5	26	72	15	93	51	2	4	42	1.33
12510703--12510795	30	3.2	30	69	17	95	51	2	5	40	1.37
12510683--12510800	58	2.0	58	98	0	227	51	2	5	40	1.37
12510678--12510784	26	3.8	27	71	16	83	50	2	5	41	1.40
12512120--12512177	29	2.0	28	83	9	73	53	5	0	41	1.23
12525378--12525417	18	2.2	18	91	8	64	47	0	0	52	1.00
12526074--12526111	1	38.0	1	100	0	76	0	0	0	100	0.00
12528974--12529046	38	1.9	38	91	0	119	41	17	10	30	1.84
12531063--12531153	6	17.4	5	72	18	53	70	2	24	3	1.14
12531493--12531530	18	2.1	18	100	0	76	42	5	21	31	1.75
12531834--12531880	24	2.0	24	84	16	62	31	0	17	51	1.46
12532913--12532939	11	2.5	11	100	0	54	40	7	0	51	1.30
12532987--12533020	18	1.9	17	88	5	50	55	26	8	8	1.59
12537217--12537257	2	20.5	2	100	0	82	0	48	0	51	1.00
12540215--12540258	19	2.3	19	92	0	79	61	22	0	15	1.34
12540310--12540348	14	2.8	14	84	0	51	35	10	5	48	1.59
12540851--12540882	16	2.0	16	93	0	55	56	28	0	15	1.40
12547331--12547386	23	2.5	22	83	11	69	46	0	7	46	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12547958--12548005	25	1.9	25	87	8	71	33	0	2	64	1.05
12565217--12565368	44	3.5	44	65	13	123	49	5	5	40	1.48
12565218--12565396	88	2.0	89	98	1	351	45	6	6	41	1.57
12574803--12574859	27	2.1	27	80	6	62	45	7	1	45	1.40
12583000--12583065	19	3.5	20	81	8	75	59	6	1	33	1.31
12583000--12583065	10	7.0	9	75	16	62	59	6	1	33	1.31
12582999--12583046	20	2.5	19	86	3	69	58	8	0	33	1.28
12590344--12590370	1	27.0	1	100	0	54	0	0	0	100	0.00
12594645--12594682	19	2.0	19	85	10	51	63	5	2	28	1.30
12604371--12604421	9	5.7	9	92	0	84	25	11	27	35	1.91
12604371--12604428	27	2.1	27	87	6	82	27	12	24	36	1.91
12605714--12605748	17	2.0	18	88	5	54	51	0	0	48	1.00
12617561--12617615	27	2.0	27	89	0	83	29	38	23	9	1.85
12618589--12618658	6	11.7	6	74	6	52	8	45	1	44	1.43
12618593--12618658	12	5.5	12	75	0	69	9	45	1	43	1.44
12618593--12618656	18	3.6	18	78	0	65	9	45	1	43	1.45
12620911--12620958	17	2.9	17	90	3	71	27	0	18	54	1.44
12632434--12632478	22	2.1	21	84	12	56	35	2	2	60	1.22
12632433--12632477	16	2.6	17	83	16	58	37	2	2	57	1.23
12639737--12639802	31	2.1	32	83	8	82	43	15	9	31	1.77
12654982--12655020	20	2.0	20	94	0	69	61	0	2	35	1.10
12655109--12655153	19	2.3	19	80	3	54	57	0	4	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12655120--12655174	29	2.0	26	86	10	74	60	0	5	34	1.20
12655169--12655215	17	2.8	17	83	0	58	61	0	0	38	0.96
12667305--12667380	23	3.3	23	96	0	143	21	21	26	31	1.98
12667510--12667582	38	1.9	37	86	8	103	45	1	21	31	1.61
12669246--12669304	28	2.1	28	100	0	118	38	22	10	28	1.86
12669252--12669312	28	2.2	28	93	0	104	40	18	9	31	1.83
12677222--12677246	6	4.2	6	100	0	50	32	0	0	68	0.90
12677876--12678030	75	2.0	76	92	3	258	17	8	14	59	1.59
12678174--12678245	36	2.0	36	100	0	144	25	13	25	36	1.93
12679390--12679445	28	2.0	28	100	0	112	32	32	7	28	1.84
12681464--12681524	31	2.0	31	90	6	97	27	16	16	39	1.90
12696602--12696630	13	2.1	14	93	6	51	31	20	6	41	1.79
12708699--12708743	14	2.9	16	81	12	51	44	4	4	46	1.43
12717052--12717106	28	2.0	28	100	0	110	38	18	18	25	1.93
12718283--12718333	26	2.0	24	85	7	66	31	0	1	66	1.03
12719483--12719540	19	2.9	19	80	12	55	60	5	15	18	1.53
12719505--12719560	30	1.9	28	85	7	76	67	5	12	14	1.38
12719534--12719586	20	2.7	20	82	5	63	75	9	3	11	1.16
12719773--12719840	34	2.0	35	82	8	86	55	0	0	44	0.99
12724249--12724297	19	2.4	21	86	6	66	53	8	6	32	1.55
12725413--12725437	13	1.9	13	100	0	50	84	0	0	16	0.63
12733979--12734021	21	2.0	21	100	0	86	34	23	9	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12766180--12766226	25	2.0	24	84	16	62	57	19	8	14	1.63
12767324--12767400	26	3.1	26	72	24	83	41	0	5	53	1.23
12767362--12767403	19	2.2	19	87	8	59	45	0	2	52	1.13
12779666--12779721	29	1.9	29	85	0	76	32	21	5	41	1.76
12787848--12788184	167	2.0	169	91	3	547	42	12	21	23	1.86
12791790--12791827	15	2.5	15	80	16	51	55	5	10	28	1.56
12798056--12798115	29	2.0	30	84	9	79	26	15	6	51	1.67
12806946--12806984	15	2.4	16	91	8	62	38	0	0	61	0.96
12811722--12811755	3	11.3	3	100	0	68	0	32	0	67	0.91
12816074--12816111	13	2.7	14	84	12	51	36	0	0	63	0.95
12819059--12819106	17	2.9	17	90	3	71	27	0	18	54	1.44
12820216--12820314	49	2.0	49	98	0	189	42	17	7	33	1.76
12821194--12821317	46	2.8	46	91	3	200	33	16	22	28	1.95
12828630--12828670	18	2.2	19	83	12	50	70	9	0	19	1.14
12851639--12851663	13	1.9	13	100	0	50	72	0	0	28	0.86
12854086--12854690	90	6.7	90	92	0	942	29	17	29	22	1.97
12863338--12863368	16	1.9	16	100	0	62	51	32	0	16	1.44
12870165--12870405	42	5.7	42	89	0	365	22	32	10	34	1.88
12871843--12872076	116	2.0	118	95	3	429	45	5	10	39	1.60
12875017--12875079	30	2.1	30	93	0	108	58	15	1	23	1.46
12879835--12879891	28	2.0	30	82	6	73	40	8	12	38	1.74
12885123--12885155	9	3.3	10	87	12	50	69	0	3	27	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12887301--12887358	23	2.5	23	83	8	73	53	1	0	44	1.10
12887770--12887815	23	2.0	24	84	16	62	28	13	8	50	1.70
12889341--12889415	24	3.3	23	78	12	73	40	1	4	54	1.27
12889373--12889412	15	2.5	17	84	12	57	35	2	0	62	1.09
12891506--12891533	9	3.1	9	100	0	56	57	10	0	32	1.33
12891465--12891685	68	3.3	68	98	1	419	46	8	4	40	1.55
12891574--12891601	9	3.1	9	100	0	56	57	10	0	32	1.33
12891674--12891715	16	2.6	16	92	0	66	42	7	2	47	1.43
12891689--12891749	22	2.8	22	82	0	68	47	3	1	47	1.28
12892030--12892215	94	2.0	94	98	0	363	41	8	20	29	1.82

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