genome.fa.s9.2.7.7.80.10.50.1000.72.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:  38630433

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   

This is table  72  of  97  ( 11551 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)
28793744--28794302	24	23.4	23	61	17	88	27	48	3	20	1.67
28793740--28793822	27	3.3	26	72	19	86	27	46	3	21	1.68
28798085--28798306	48	4.7	48	74	3	198	24	46	4	24	1.70
28798039--28798281	93	2.6	92	80	5	254	23	46	3	27	1.69
28798473--28798517	21	2.1	21	87	0	63	26	57	0	15	1.38
28799076--28799171	51	1.9	50	82	6	122	47	30	12	9	1.73
28810512--28810568	27	2.1	27	81	9	64	40	8	5	45	1.58
28811796--28811841	23	2.0	23	100	0	92	39	17	4	39	1.69
28814130--28814217	37	2.4	37	82	3	97	44	22	15	17	1.86
28814205--28814288	37	2.3	37	83	4	98	39	19	20	21	1.93
28817259--28817287	15	1.9	15	100	0	58	41	3	0	55	1.17
28817581--28817615	17	2.1	17	94	0	61	37	8	5	48	1.58
28818880--28818923	8	5.4	8	89	5	70	13	0	11	72	1.08
28818880--28818923	17	2.7	16	86	6	70	13	0	11	72	1.08
28820499--28821120	48	13.0	48	74	7	453	41	18	12	27	1.87
28820772--28820950	97	1.9	96	84	3	243	42	16	12	27	1.85
28820727--28821079	145	2.4	143	81	4	404	41	16	13	28	1.87
28837644--28837697	23	2.4	22	75	22	58	48	27	5	18	1.70
28837798--28837914	47	2.5	47	95	1	218	5	38	4	52	1.43
28838127--28838164	20	1.9	20	94	0	67	34	39	0	26	1.57
28842196--28842230	5	7.0	5	90	0	52	34	0	25	40	1.56
28845239--28845263	5	5.0	5	100	0	50	40	20	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28845299--28845342	22	2.0	22	86	0	61	47	13	6	31	1.69
28849389--28849414	2	13.0	2	100	0	52	50	0	0	50	1.00
28849903--28849964	25	2.5	24	89	5	79	17	20	12	48	1.80
28850190--28850309	34	3.5	34	82	4	143	35	26	12	25	1.92
28850418--28850471	23	2.4	22	75	22	58	48	25	5	20	1.71
28859321--28859597	142	2.0	142	99	0	545	33	11	18	35	1.87
28870919--28870956	19	2.0	19	89	0	58	26	5	2	65	1.27
28871660--28871712	24	2.2	24	80	6	63	20	3	39	35	1.71
28871679--28872482	60	13.5	60	82	4	739	24	6	40	28	1.80
28871679--28872482	90	9.0	90	81	3	755	24	6	40	28	1.80
28872012--28872096	24	3.3	24	68	17	62	27	7	38	27	1.82
28871679--28872482	30	27.0	30	81	4	649	24	6	40	28	1.80
28878420--28878464	18	2.5	18	81	0	54	40	20	20	20	1.92
28881376--28881408	2	16.5	2	93	0	57	51	3	0	45	1.16
28885382--28885839	60	7.7	59	88	2	551	34	18	12	33	1.89
28885382--28885856	179	2.6	179	85	3	591	34	18	13	33	1.90
28897698--28897773	29	2.6	30	82	10	79	25	1	5	67	1.19
28897716--28897781	31	2.2	30	84	10	82	24	0	4	69	1.06
28904776--28904912	27	5.2	26	72	18	77	7	20	0	71	1.14
28917805--28917844	16	2.5	16	79	0	53	75	0	0	25	0.81
28949956--28950167	48	4.4	48	84	0	244	25	4	50	20	1.66
28949956--28950167	96	2.2	96	85	0	280	25	4	50	20	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28950133--28950284	27	6.1	27	66	17	94	25	4	47	22	1.70
28950082--28950242	75	2.1	75	83	2	198	24	4	50	20	1.66
28950037--28950284	123	2.0	123	85	1	336	25	4	49	21	1.67
28950157--28950311	48	3.2	48	87	3	206	22	3	50	22	1.65
28950282--28950317	18	2.0	18	88	0	54	11	0	63	25	1.27
28950206--28950677	129	3.7	126	74	10	438	23	4	47	23	1.69
28950254--28950422	81	2.1	81	82	7	204	22	5	48	23	1.71
28950557--28950626	30	2.5	27	78	13	77	22	7	45	24	1.77
28950411--28950598	48	3.9	48	79	6	182	24	3	47	24	1.68
28950565--28950633	30	2.3	30	87	2	93	24	5	46	23	1.74
28950511--28950676	78	2.1	78	82	4	192	21	4	49	24	1.69
28950589--28950717	48	2.7	48	84	7	147	22	3	50	23	1.65
28950468--28950724	126	2.0	125	79	4	266	24	4	47	23	1.70
28953684--28953747	30	2.1	30	97	0	119	53	9	12	25	1.68
28954003--28954056	26	2.1	26	96	0	99	46	16	12	24	1.82
28958697--28958774	9	8.6	9	75	8	68	80	2	2	14	0.92
28958697--28958791	48	2.0	49	80	15	110	77	2	6	13	1.04
28959372--28959405	13	2.7	12	86	13	50	50	0	44	5	1.26
28959370--28959409	14	2.8	15	85	14	66	55	0	40	5	1.22
28964700--28964761	30	2.1	29	93	3	106	58	8	0	33	1.28
28964701--28964755	18	3.4	18	69	27	59	61	7	0	30	1.23
28985484--28985521	15	2.5	15	91	0	58	28	2	23	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28989293--28989325	2	16.5	2	100	0	66	51	0	0	48	1.00
28989877--28989940	19	3.2	19	67	26	51	70	1	6	21	1.18
28989842--28989943	41	2.5	41	85	3	136	70	0	4	23	1.12
28992353--28992546	72	2.7	73	83	7	225	35	20	20	23	1.96
29005123--29005284	77	2.1	77	90	4	256	41	8	12	37	1.73
29009282--29009356	33	2.3	33	85	0	114	45	9	12	33	1.73
29009956--29010143	72	2.6	73	80	5	197	47	12	12	28	1.77
29016078--29016142	33	2.0	33	96	0	121	44	4	13	36	1.65
29018628--29018689	28	2.2	29	82	2	72	46	19	6	27	1.74
29019426--29019543	35	3.4	32	77	13	110	17	14	21	46	1.83
29024595--29024682	35	2.5	34	81	3	95	20	11	17	51	1.75
29025221--29025261	2	20.5	2	100	0	82	48	0	0	51	1.00
29028825--29028862	19	2.0	19	89	0	58	52	2	2	42	1.29
29035174--29035227	20	2.9	19	81	10	67	25	5	0	68	1.11
29035362--29035419	15	4.4	14	77	16	61	27	1	0	70	0.97
29035576--29035606	4	8.0	4	92	7	55	25	0	0	74	0.82
29048178--29048250	22	3.3	22	94	0	128	13	41	20	24	1.89
29048988--29049021	2	17.0	2	87	0	50	52	2	0	44	1.16
29052843--29052885	19	2.3	19	87	0	59	46	0	0	53	1.00
29052843--29052885	21	2.0	21	86	0	59	46	0	0	53	1.00
29052833--29052884	17	3.2	17	71	17	56	42	0	0	57	0.98
29054059--29054110	26	2.0	26	100	0	104	15	23	23	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29064767--29064835	23	3.0	23	100	0	138	47	4	4	43	1.42
29078892--29078939	21	2.3	20	75	10	51	12	22	6	58	1.57
29082734--29082772	20	1.9	21	84	5	53	38	28	12	20	1.89
29083706--29083739	5	6.8	5	86	0	50	17	5	0	76	0.98
29087072--29087207	45	3.0	45	81	6	150	8	22	9	59	1.55
29088529--29088565	14	2.6	14	86	0	56	59	0	32	8	1.27
29094129--29094190	26	2.4	26	91	0	97	32	38	3	25	1.72
29094425--29094547	42	2.9	42	95	0	210	21	30	22	24	1.99
29097768--29097805	20	1.9	20	94	0	67	36	21	18	23	1.95
29103849--29103951	38	2.7	38	87	3	134	20	15	39	24	1.91
29104172--29104359	91	2.1	91	93	0	322	21	25	24	28	1.99
29105529--29105600	29	2.5	29	95	4	128	22	11	2	63	1.39
29105544--29105593	16	3.3	16	69	25	54	18	12	4	66	1.39
29106121--29106176	26	2.1	27	80	9	62	19	1	14	64	1.38
29106143--29106196	21	2.5	22	77	17	60	22	1	16	59	1.47
29107559--29107601	21	2.0	22	90	4	70	25	0	2	72	0.97
29107562--29107602	18	2.4	17	91	4	64	26	0	2	70	0.99
29113088--29113145	29	2.0	29	86	3	80	43	8	3	44	1.51
29124951--29124983	5	6.8	5	93	6	59	39	21	0	39	1.53
29124951--29124983	14	2.3	15	94	5	59	39	21	0	39	1.53
29125018--29125068	15	3.4	15	81	10	59	50	17	1	29	1.57
29127601--29127638	19	2.0	19	94	0	67	42	28	0	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29140999--29141028	14	2.1	15	93	6	53	6	0	16	76	0.99
29142198--29142335	31	4.5	31	89	0	204	28	15	17	39	1.90
29146222--29146299	31	2.5	30	76	13	86	23	17	33	25	1.96
29146221--29146614	117	3.4	117	91	1	601	22	18	30	27	1.98
29146458--29146530	31	2.3	32	74	6	78	23	19	34	23	1.97
29149808--29150138	145	2.3	145	81	4	391	29	19	22	29	1.98
29152277--29152328	23	2.4	21	81	9	61	21	26	21	30	1.98
29152312--29152508	47	4.2	47	78	2	198	25	30	18	25	1.98
29152297--29152508	94	2.3	94	84	1	264	25	29	18	26	1.98
29153276--29153400	23	5.4	23	70	1	79	28	32	12	26	1.93

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