genome.fa.s9.2.7.7.80.10.50.1000.30.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  30  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)
12632172--12632241	36	1.9	36	82	0	86	14	12	40	32	1.84
12635919--12635971	2	27.5	2	92	7	92	52	0	0	47	1.00
12636287--12636472	54	3.5	54	83	2	207	26	23	13	37	1.92
12636474--12636521	25	1.9	25	95	0	87	27	22	14	35	1.93
12636605--12636639	18	1.9	18	88	0	52	22	28	14	34	1.93
12636837--12636951	57	2.0	57	81	9	137	41	6	6	46	1.53
12637401--12637567	28	5.6	28	76	15	165	46	5	14	32	1.69
12637401--12637598	28	6.5	31	74	19	150	46	6	15	32	1.70
12637401--12637598	61	3.2	61	86	3	272	46	6	15	32	1.70
12638385--12638473	36	2.5	36	90	1	135	24	15	21	38	1.92
12646521--12646573	8	6.9	8	80	6	56	28	1	41	28	1.67
12646816--12646853	12	3.3	12	82	14	53	21	0	0	78	0.74
12656942--12656980	2	19.5	2	94	0	69	48	0	0	51	1.00
12657333--12657448	34	3.4	35	74	10	89	25	12	27	34	1.91
12657580--12657646	1	67.0	1	81	0	80	91	2	5	0	0.52
12660040--12660251	54	3.9	54	84	1	255	24	23	15	36	1.94
12665179--12665217	20	2.0	20	84	0	51	23	0	15	61	1.33
12668089--12668234	42	3.5	41	88	3	202	21	20	32	24	1.97
12669812--12670127	163	1.9	163	90	0	497	34	12	17	36	1.87
12672682--12672721	19	2.0	20	95	4	73	42	27	0	30	1.56
12672760--12672822	26	2.5	26	97	2	119	23	30	17	28	1.97
12673623--12673781	52	2.9	53	81	8	187	30	11	20	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12673633--12673778	56	2.7	56	84	7	151	31	11	20	36	1.89
12676221--12676268	2	24.0	2	95	0	87	50	2	0	47	1.12
12676314--12676432	43	2.8	43	80	2	132	21	36	19	23	1.95
12679507--12680120	211	2.8	214	86	6	775	21	13	20	44	1.85
12679572--12680120	211	2.6	211	89	4	807	22	13	20	44	1.85
12682438--12682779	173	2.0	174	95	2	618	37	13	14	34	1.85
12686340--12686587	124	2.0	124	100	0	496	25	17	22	33	1.96
12693317--12693369	2	28.0	2	87	11	76	47	0	1	50	1.12
12693382--12693445	2	33.5	2	89	9	98	48	0	1	50	1.10
12706827--12707050	59	4.1	52	78	11	214	31	12	21	33	1.91
12706937--12707059	59	2.1	59	100	0	246	30	13	21	35	1.91
12708557--12708613	28	2.0	29	86	3	80	68	0	3	28	1.06
12710358--12710513	79	2.0	79	92	2	260	37	31	11	19	1.88
12711728--12711760	17	1.9	17	93	0	57	15	15	12	57	1.65
12712616--12712670	27	2.0	27	82	7	65	27	21	10	40	1.87
12721774--12721811	19	2.0	20	94	5	69	47	5	18	28	1.70
12728240--12728392	35	4.3	35	77	2	153	45	13	3	36	1.62
12728242--12728392	71	2.1	71	91	2	241	45	13	3	37	1.63
12730230--12730258	2	14.5	2	100	0	58	51	0	0	48	1.00
12730289--12730318	2	15.0	2	100	0	60	50	0	0	50	1.00
12732684--12732788	35	2.8	37	78	13	108	33	26	9	30	1.88
12735143--12735177	2	17.5	2	93	0	61	48	2	0	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12740347--12740382	2	18.0	2	88	0	54	50	5	0	44	1.25
12742643--12742690	24	2.1	24	88	7	73	20	20	12	45	1.83
12742642--12742690	22	2.1	25	81	14	68	20	20	12	46	1.82
12746755--12746806	26	2.0	27	84	3	70	38	0	1	59	1.08
12746755--12746892	19	7.3	19	65	26	62	37	2	1	58	1.19
12746814--12746930	24	5.0	24	74	17	95	41	2	0	54	1.20
12746878--12746993	60	1.9	62	81	15	145	40	0	3	56	1.16
12746950--12747127	27	6.6	27	69	14	84	39	0	4	55	1.25
12746975--12747092	43	2.9	39	75	18	118	38	0	3	57	1.21
12746901--12747131	106	2.2	106	87	6	333	40	0	4	54	1.23
12747146--12747173	11	2.5	11	100	0	56	17	0	0	82	0.68
12746945--12747267	111	2.9	113	79	11	266	37	0	4	57	1.22
12749044--12749085	6	7.0	6	94	0	66	0	21	33	45	1.52
12754671--12754717	21	2.3	20	78	10	51	31	0	4	63	1.13
12764290--12764432	75	1.9	74	89	1	223	39	5	9	45	1.61
12768680--12768940	44	5.8	44	85	4	306	43	13	14	28	1.83
12768719--12768940	90	2.5	88	85	2	300	43	13	14	27	1.84
12774516--12774562	19	2.4	19	80	20	53	65	2	19	12	1.35
12775602--12775636	12	3.0	12	95	4	63	25	17	8	48	1.75
12778633--12778945	108	2.9	107	92	0	491	46	12	21	19	1.82
12779618--12779921	48	6.6	48	74	10	242	27	13	19	39	1.89
12780092--12780131	17	2.4	17	87	4	55	75	2	2	20	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12781564--12781821	73	3.5	73	84	2	295	38	17	20	23	1.93
12781785--12781823	21	1.9	20	89	5	60	41	12	17	28	1.87
12782211--12782318	35	3.2	35	73	18	120	24	12	25	37	1.90
12782206--12782341	67	2.0	67	90	5	213	24	12	26	36	1.91
12782206--12782306	32	3.1	31	73	18	105	22	12	24	39	1.89
12782228--12782343	35	3.4	35	72	10	114	27	12	26	33	1.92
12785796--12785837	14	3.0	15	80	13	54	57	0	0	42	0.99
12787505--12787744	44	5.8	44	71	17	208	21	13	38	26	1.91
12787566--12787781	37	5.5	37	69	20	141	21	12	39	26	1.89
12787522--12787793	81	3.4	81	90	0	427	22	13	37	26	1.91
12790459--12790501	2	21.5	2	100	0	86	51	0	0	48	1.00
12790535--12790650	43	2.7	43	89	2	162	25	37	14	21	1.92
12793286--12793875	23	25.5	23	73	8	349	33	11	31	23	1.91
12793286--12793875	46	12.8	46	74	5	384	33	11	31	23	1.91
12793286--12793873	69	8.5	69	76	5	427	33	11	31	22	1.91
12793702--12793875	91	1.9	92	82	8	221	32	12	32	23	1.91
12804246--12804283	20	2.0	20	89	5	60	42	15	0	42	1.47
12818059--12818105	20	2.3	20	85	7	60	63	6	4	25	1.36
12823306--12823355	18	2.9	16	80	16	55	0	26	4	70	1.05
12826136--12826220	42	2.0	42	97	0	161	40	17	16	25	1.90
12826177--12826376	71	2.8	71	81	6	226	37	19	18	25	1.94
12829363--12829435	36	2.0	36	100	0	146	30	27	10	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12829780--12829871	25	3.6	25	85	1	112	36	18	11	32	1.87
12830271--12830310	9	4.4	9	83	0	53	37	2	35	25	1.69
12830271--12830310	18	2.2	18	90	0	62	37	2	35	25	1.69
12839378--12839436	26	2.3	26	84	0	82	59	3	25	11	1.48
12844771--12844889	43	2.8	43	85	2	159	23	20	36	20	1.95
12844897--12844967	3	24.7	3	72	18	53	26	1	38	33	1.65
12844900--12844952	11	4.7	11	80	13	54	24	0	41	33	1.55
12844901--12844969	34	2.0	34	88	0	102	26	1	40	31	1.65
12845264--12845372	39	2.8	39	81	5	123	22	24	21	32	1.98
12848940--12849162	80	2.8	79	86	2	304	33	8	24	33	1.86
12862616--12862733	43	2.7	43	83	7	150	27	15	35	22	1.94
12862742--12862800	23	2.6	23	94	0	109	23	3	42	30	1.71
12863030--12863146	61	1.9	61	98	0	225	36	17	19	25	1.94
12863034--12863161	61	2.1	61	91	0	202	39	17	17	25	1.92
12868815--12868900	29	3.0	29	96	0	154	46	17	12	23	1.82
12877297--12877361	34	1.9	34	84	6	87	21	10	38	29	1.87
12877408--12877485	35	2.3	34	80	6	95	20	12	34	32	1.90
12878939--12879004	29	2.3	29	83	0	78	48	10	9	31	1.69
12887364--12887510	26	5.5	27	84	6	183	30	17	11	40	1.85
12887364--12887518	54	2.9	54	89	1	231	30	16	12	40	1.86
12890870--12890905	19	2.0	17	89	10	54	22	5	0	72	1.05
12891050--12891089	19	2.2	19	90	4	64	80	12	0	7	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12891833--12891865	17	1.9	17	93	0	57	21	0	3	75	0.93
12900666--12900717	22	2.5	20	76	14	59	23	0	9	67	1.20
12903576--12903618	20	2.2	20	86	0	59	18	18	13	48	1.80
12903505--12903691	73	2.6	73	75	12	163	18	18	19	44	1.87
12904042--12904075	17	2.0	17	88	0	50	8	32	23	35	1.86
12909243--12909272	15	2.0	15	93	0	51	26	43	0	30	1.55
12914208--12914249	20	2.1	20	95	0	75	14	26	9	50	1.73
12916869--12916918	25	2.0	25	96	0	91	38	16	4	42	1.66
12932011--12932048	19	2.0	19	94	0	67	44	5	21	28	1.73
12933539--12933614	21	3.7	21	74	10	84	35	15	13	35	1.87

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