genome.fa.s9.2.7.7.80.10.50.1000.73.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  73  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)
29153416--29153492	23	3.3	23	70	10	66	22	32	18	27	1.97
29153246--29153584	140	2.4	140	83	2	412	25	31	16	26	1.96
29153552--29153603	23	2.3	23	86	0	68	21	28	15	34	1.94
29153246--29153584	47	7.2	47	82	2	340	25	31	16	26	1.96
29153246--29153568	94	3.5	93	82	4	380	26	31	16	26	1.96
29168699--29168725	13	2.1	13	100	0	54	37	40	0	22	1.54
29175145--29175184	18	2.2	18	86	8	55	35	5	2	57	1.34
29183756--29183857	34	2.9	34	76	7	89	31	10	24	33	1.90
29189287--29189325	20	2.0	20	100	0	78	53	10	20	15	1.70
29193109--29193150	9	4.7	9	77	11	50	19	40	7	33	1.78
29193487--29193806	31	10.3	31	91	0	496	26	17	16	38	1.92
29197300--29197976	86	7.9	86	86	0	852	20	20	31	27	1.97
29199373--29199638	81	3.3	81	84	3	311	28	32	18	20	1.96
29202015--29202497	55	9.0	54	77	7	446	44	30	12	12	1.80
29202202--29202302	46	2.2	47	83	1	123	40	29	14	14	1.87
29202032--29202497	156	2.9	160	78	7	464	44	30	12	12	1.79
29202149--29202448	101	2.9	101	78	9	284	43	30	12	13	1.81
29202951--29203052	23	4.5	23	85	3	118	20	30	23	25	1.99
29203071--29203194	57	2.2	57	88	0	185	24	33	12	29	1.93
29203082--29203137	23	2.4	23	75	0	58	25	28	12	33	1.92
29203138--29203197	23	2.6	23	83	0	75	25	33	11	30	1.91
29203130--29204117	104	9.6	104	76	4	907	23	32	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29203347--29203426	23	3.5	23	82	0	79	21	31	18	28	1.97
29203129--29204115	208	4.8	206	87	4	1234	23	32	14	29	1.94
29203129--29204117	312	3.2	309	76	5	1011	23	32	14	29	1.94
29203450--29203505	23	2.4	23	72	0	58	26	33	8	30	1.87
29203575--29203634	23	2.6	23	81	0	66	21	30	20	28	1.98
29203658--29203713	23	2.4	23	72	0	58	26	33	8	30	1.87
29203765--29203910	23	6.3	23	71	1	94	21	30	17	30	1.96
29203773--29203942	93	1.8	93	84	2	234	24	30	16	29	1.96
29203866--29204118	103	2.5	104	75	7	255	24	33	13	28	1.93
29204068--29204183	23	5.0	23	77	8	101	24	34	12	28	1.92
29205707--29205806	50	2.0	50	100	0	200	34	22	12	32	1.90
29205992--29206031	20	1.9	22	90	10	66	22	5	22	50	1.68
29206330--29206377	23	2.1	23	92	0	78	25	12	31	31	1.92
29206337--29206389	23	2.3	23	90	0	79	26	13	28	32	1.93
29206397--29206478	22	3.7	22	86	0	101	42	20	12	24	1.86
29206423--29206494	22	3.3	22	90	3	101	47	15	12	25	1.80
29209737--29209999	73	3.6	73	91	0	382	37	16	20	25	1.93
29218792--29218969	67	2.6	67	84	5	221	38	17	19	24	1.93
29237587--29237617	2	15.5	2	100	0	62	0	48	0	51	1.00
29237607--29237644	18	2.1	19	85	5	51	5	23	2	68	1.23
29238281--29238321	22	1.9	22	95	5	75	63	0	2	34	1.08
29238281--29238329	22	2.3	21	86	10	64	61	2	2	34	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29240376--29240423	4	11.2	4	86	8	51	79	0	0	20	0.74
29240376--29240424	22	2.3	21	89	3	71	79	0	0	20	0.73
29241327--29241360	7	4.6	7	86	13	50	82	0	0	17	0.67
29241317--29241366	9	5.4	9	78	21	59	84	0	0	16	0.63
29241318--29241365	16	2.9	16	87	3	69	83	0	0	16	0.65
29252598--29252671	21	3.5	21	77	14	80	29	9	14	45	1.77
29252806--29252887	38	2.2	38	86	0	110	37	13	10	37	1.80
29253346--29253401	29	1.9	29	82	7	69	33	14	0	51	1.42
29253690--29253765	30	2.6	30	83	6	102	64	5	5	25	1.36
29268182--29268297	57	2.0	58	89	1	180	48	21	14	15	1.81
29272221--29272346	65	1.9	65	100	0	252	29	16	22	31	1.96
29273033--29273144	58	1.9	58	87	3	163	50	21	12	16	1.78
29279812--29279852	21	2.0	21	95	0	73	68	0	2	29	1.03
29306359--29306390	16	2.1	15	94	5	55	50	0	28	21	1.49
29306548--29306625	22	3.6	22	69	19	65	41	3	0	55	1.18
29306603--29306658	26	2.2	26	80	6	60	39	0	3	57	1.16
29306642--29306674	16	2.1	16	94	5	59	33	0	0	66	0.92
29311603--29311639	17	2.2	17	90	0	56	2	43	0	54	1.14
29320632--29320670	17	2.3	18	86	8	55	48	0	2	48	1.15
29320625--29320682	18	3.1	19	78	16	66	50	0	1	48	1.11
29320796--29320853	23	2.5	24	80	11	66	31	0	1	67	1.01
29320981--29321024	22	2.0	22	82	8	54	47	2	0	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29326782--29326816	15	2.2	15	90	10	52	34	0	0	65	0.93
29331842--29332009	54	3.2	53	66	20	134	25	22	11	40	1.87
29331777--29332009	105	2.2	105	89	3	344	24	21	12	41	1.88
29331843--29332073	105	2.2	104	82	6	270	25	21	12	41	1.87
29333805--29333879	27	2.8	26	74	6	78	29	20	30	20	1.97
29333849--29333978	27	4.8	27	80	3	120	32	17	33	16	1.92
29333847--29333978	54	2.4	54	77	5	140	31	18	33	15	1.93
29334314--29334397	27	3.2	26	71	19	66	26	35	22	15	1.94
29334334--29334400	26	2.5	27	87	4	100	28	32	23	14	1.95
29353026--29353121	39	2.5	39	91	0	147	30	3	17	48	1.62
29353026--29353136	39	2.8	39	86	0	105	30	4	17	47	1.67
29353820--29353879	28	2.1	28	93	0	102	26	10	13	50	1.73
29354649--29354682	17	2.0	17	88	0	50	50	2	0	47	1.16
29355189--29355220	16	2.1	16	94	5	57	65	0	0	34	0.93
29355271--29355302	16	2.0	16	93	0	55	53	0	0	46	1.00
29356145--29356295	39	3.8	39	78	0	140	49	15	2	32	1.59
29361496--29361539	19	2.2	19	84	8	52	34	18	2	45	1.62
29366652--29366767	61	1.9	62	89	1	180	29	27	14	28	1.95
29380037--29380089	24	2.2	25	83	10	65	3	24	3	67	1.23
29380548--29380589	21	2.0	21	90	0	66	26	26	11	35	1.91
29388932--29388977	20	2.3	20	96	0	83	28	4	21	45	1.71
29391917--29391950	18	1.9	18	88	5	52	14	26	23	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29394035--29394074	16	2.5	16	83	0	53	50	0	0	50	1.00
29408985--29409019	16	2.3	15	90	5	52	82	0	11	5	0.82
29409752--29409790	19	2.1	19	85	4	53	33	5	0	61	1.18
29409879--29409960	24	3.6	23	76	18	73	47	0	2	50	1.14
29415143--29415201	22	2.6	22	78	10	57	25	11	18	44	1.84
29415212--29415353	26	5.8	23	76	10	99	35	23	14	26	1.93
29415259--29415454	52	4.0	52	79	12	259	37	23	13	25	1.91
29415285--29415488	94	2.1	96	87	6	297	38	24	12	24	1.90
29415259--29415454	26	7.9	26	78	10	214	37	23	13	25	1.91
29415413--29415470	26	2.2	26	87	0	80	43	24	8	24	1.82
29415464--29415511	21	2.3	21	85	0	69	37	29	14	18	1.91
29422645--29422685	2	20.5	2	94	0	73	48	0	0	51	1.00
29426423--29426447	3	8.3	3	100	0	50	64	0	36	0	0.94
29437526--29437560	16	2.2	16	90	5	54	37	5	5	51	1.50
29437578--29437608	12	2.7	12	95	5	55	61	0	0	38	0.96
29437667--29437771	2	54.5	2	85	7	146	54	0	0	43	1.06
29440588--29440819	61	3.8	61	87	0	320	27	31	16	24	1.97
29441846--29441911	33	2.0	32	91	2	105	31	27	6	33	1.81
29446078--29446147	26	3.0	22	76	19	70	48	0	0	51	1.00
29450880--29450907	2	14.0	2	100	0	56	50	0	0	50	1.00
29451152--29451180	2	14.5	2	100	0	58	48	0	0	51	1.00
29453737--29454133	198	2.0	198	98	0	776	26	16	19	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29455481--29455735	130	2.0	130	95	0	456	33	12	22	31	1.92
29455924--29456293	185	2.0	186	85	1	501	17	16	22	44	1.86
29463991--29464041	25	2.0	25	88	0	75	45	0	0	54	0.99
29469848--29469881	18	2.0	17	88	11	52	67	0	2	29	1.05
29472085--29472113	5	5.8	5	100	0	58	82	0	0	17	0.66
29476637--29476669	2	16.5	2	100	0	66	0	48	0	51	1.00
29497368--29497821	149	3.0	147	80	9	463	32	13	5	48	1.67
29499306--29499357	20	2.7	19	85	8	70	48	3	1	46	1.31
29499332--29499457	62	2.0	61	93	1	216	50	1	5	41	1.35
29499406--29499434	13	2.1	14	93	6	51	37	0	3	58	1.15

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