genome.fa.s9.2.7.7.80.10.50.1000.16.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  16  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)
7638305--7638342	18	2.2	18	85	4	51	21	7	13	57	1.60
7658835--7658983	74	2.0	74	100	0	298	32	20	20	26	1.97
7667759--7667816	2	29.0	2	92	0	98	53	0	0	46	1.00
7677303--7677407	15	7.0	15	78	0	75	19	41	0	38	1.58
7677378--7677407	12	2.5	12	94	0	51	20	36	0	43	1.52
7689251--7689277	2	13.5	2	100	0	54	48	0	0	51	1.00
7696549--7696591	2	21.5	2	90	0	68	0	44	2	53	1.13
7705659--7705825	10	17.2	10	70	15	84	27	0	17	53	1.48
7705755--7705901	20	7.3	20	66	19	74	29	2	12	55	1.50
7705737--7705825	30	3.0	28	80	12	97	28	1	15	55	1.48
7705854--7705901	10	4.8	10	77	10	53	31	4	8	56	1.48
7705867--7705910	20	2.2	20	83	0	52	36	2	9	52	1.46
7706060--7706120	1	61.0	1	93	0	95	3	0	1	95	0.33
7712782--7712812	2	15.5	2	100	0	62	48	0	0	51	1.00
7713331--7713356	10	2.6	10	100	0	52	15	73	0	11	1.11
7718243--7718316	24	2.9	23	79	18	76	50	1	4	44	1.29
7725228--7725275	24	2.0	25	83	4	62	66	0	12	20	1.24
7729647--7729694	24	2.0	25	83	4	62	66	0	12	20	1.24
7729977--7730038	31	2.0	31	100	0	124	25	3	16	54	1.56
7732567--7732597	2	15.5	2	93	0	53	51	3	0	45	1.17
7732563--7732599	12	3.2	12	88	3	58	51	8	0	40	1.32
7734043--7734099	14	3.9	14	75	8	51	75	5	5	14	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7740068--7740114	24	1.9	24	83	12	60	57	0	6	36	1.24
7740759--7740886	43	3.0	42	86	2	157	27	14	25	33	1.94
7742507--7742536	14	2.1	14	93	0	51	46	26	6	20	1.75
7745383--7745446	31	2.1	31	87	0	92	50	21	17	10	1.77
7748471--7748518	22	2.2	22	92	0	78	29	22	22	25	1.99
7748742--7748844	38	2.7	37	85	10	127	20	37	18	23	1.94
7748778--7748840	19	3.3	19	67	8	56	20	39	17	22	1.92
7748904--7749008	45	2.4	45	91	1	167	41	27	7	22	1.81
7761021--7761045	13	1.9	13	100	0	50	52	0	0	48	1.00
7762189--7762231	15	2.9	14	83	10	50	25	2	18	53	1.56
7767402--7767718	159	2.0	158	98	0	598	29	14	13	41	1.85
7777166--7777198	17	1.9	17	93	0	57	27	6	3	63	1.32
7779094--7779132	14	2.7	15	84	4	53	79	0	17	2	0.84
7781310--7781393	29	2.9	29	80	8	98	41	7	7	44	1.59
7781385--7781438	27	2.0	27	88	3	81	44	18	9	27	1.80
7782813--7782863	7	7.0	7	76	24	52	78	0	3	17	0.90
7782814--7782868	28	1.9	28	85	10	76	78	0	5	16	0.93
7783670--7783701	13	2.5	13	94	0	55	53	0	40	6	1.26
7784129--7784169	5	8.6	5	80	20	52	78	0	0	21	0.76
7784280--7784317	5	7.6	5	85	8	51	78	0	2	18	0.86
7784280--7784316	15	2.5	15	87	12	58	78	0	2	18	0.87
7791768--7791862	48	2.0	48	87	0	136	26	18	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7799053--7799100	20	2.3	20	75	3	51	68	0	6	25	1.12
7799314--7799346	16	2.1	16	100	0	66	30	12	33	24	1.91
7799697--7799746	21	2.3	22	83	10	59	66	0	32	2	1.03
7799717--7799800	37	2.4	35	88	6	116	63	1	33	2	1.15
7799754--7799813	31	1.9	31	86	6	86	61	1	35	1	1.16
7802048--7802085	19	2.0	19	94	0	67	28	0	28	42	1.56
7803308--7803332	13	1.9	13	100	0	50	44	0	8	48	1.32
7805331--7805355	11	2.3	11	100	0	50	76	0	0	24	0.80
7805648--7805877	118	2.0	117	96	0	415	36	10	21	30	1.87
7805911--7805962	19	2.9	17	78	13	52	67	0	7	25	1.17
7806341--7806418	34	2.3	34	86	0	102	23	14	30	32	1.94
7806358--7806437	34	2.4	34	95	0	142	17	12	32	37	1.87
7806749--7806786	5	7.6	5	87	0	58	76	0	21	2	0.91
7806818--7806878	25	2.5	24	87	12	88	50	9	22	16	1.74
7809470--7809519	23	2.2	23	88	0	73	38	14	2	46	1.56
7809916--7810075	87	1.8	87	98	0	311	48	7	12	31	1.68
7811290--7811342	5	10.4	5	80	15	56	75	0	0	24	0.80
7811286--7811354	21	3.3	21	76	13	70	76	0	0	23	0.78
7811299--7811342	16	2.6	17	89	3	72	75	0	0	25	0.81
7811288--7811355	28	2.5	27	81	9	84	77	0	0	22	0.76
7811290--7811352	12	4.7	13	78	21	60	76	0	0	23	0.79
7811290--7811355	16	4.2	16	74	21	52	77	0	0	22	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7812865--7812902	15	2.4	16	86	4	51	78	0	2	18	0.86
7814865--7814942	8	9.4	8	72	12	50	52	1	1	44	1.17
7815014--7815107	40	2.3	39	77	13	91	55	3	1	40	1.23
7815116--7815163	7	7.3	7	76	19	50	45	2	0	52	1.12
7815045--7815131	40	2.1	41	81	6	106	51	2	1	44	1.21
7815555--7815580	2	13.0	2	100	0	52	50	0	0	50	1.00
7815983--7816015	16	2.0	17	88	5	50	60	0	0	39	0.97
7821797--7821846	21	2.3	23	86	13	70	46	4	4	46	1.40
7824553--7824605	24	2.3	23	86	3	70	50	1	1	45	1.23
7824553--7824611	24	2.5	24	83	5	66	54	1	1	42	1.20
7825856--7825908	19	2.7	19	76	2	61	58	1	0	39	1.09
7830715--7830764	13	3.8	13	84	10	57	80	0	2	18	0.82
7830704--7830787	32	2.7	29	80	17	80	76	2	2	19	1.01
7830716--7830761	14	3.4	14	87	3	58	80	0	2	17	0.81
7830727--7830786	25	2.5	22	82	12	66	78	0	1	20	0.84
7831316--7831493	78	2.3	78	91	2	275	28	14	42	15	1.85
7831468--7831496	2	14.5	2	100	0	58	51	0	48	0	1.00
7835446--7835534	40	2.3	38	83	14	105	67	4	1	26	1.17
7843657--7843722	31	2.2	31	88	2	98	39	6	3	51	1.42
7843664--7843722	31	1.9	31	92	0	100	38	6	3	50	1.45
7844024--7844073	10	4.8	11	75	20	54	46	0	0	54	1.00
7858650--7858732	43	2.0	41	84	9	107	49	14	13	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7864070--7864104	5	6.8	5	87	6	52	34	0	22	42	1.54
7864069--7864104	16	2.3	15	90	4	54	33	0	22	44	1.53
7866189--7866217	13	2.2	13	100	0	58	34	13	41	10	1.79
7866726--7866796	7	10.0	7	76	14	74	5	16	0	77	0.95
7866733--7866804	35	2.1	35	100	0	144	8	16	0	75	1.04
7866722--7866817	42	2.3	42	87	5	131	8	17	0	73	1.06
7866734--7866803	16	4.3	16	75	19	65	8	17	0	74	1.06
7878101--7878131	2	15.5	2	100	0	62	51	0	48	0	1.00
7897300--7897379	29	2.7	30	78	5	99	40	7	3	48	1.49
7897471--7897517	25	2.0	25	83	8	62	38	0	12	48	1.41
7905656--7905752	27	4.0	23	74	20	74	46	0	2	51	1.12
7905594--7905730	20	7.0	19	69	21	70	42	1	0	55	1.14
7905708--7905752	22	2.1	21	88	8	65	53	0	2	44	1.13
7910314--7910429	53	2.3	50	81	13	121	38	4	0	56	1.25
7915477--7915511	17	1.9	19	88	11	56	34	2	20	42	1.66
7917664--7917837	60	2.9	59	85	5	233	25	18	31	24	1.98
7936330--7936378	15	3.4	15	68	21	50	8	32	6	53	1.55
7936324--7936392	28	2.5	28	100	0	138	5	36	7	50	1.54
7940969--7941000	2	16.0	2	93	0	55	46	0	0	53	1.00
7943510--7943557	22	2.2	22	84	0	60	25	10	16	47	1.78
7943657--7943698	22	1.9	22	90	0	66	47	26	9	16	1.77
7943821--7943948	60	2.1	60	81	2	141	40	17	7	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7955175--7956288	365	3.2	330	77	13	1030	40	7	6	44	1.59
7955823--7955859	2	18.5	2	100	0	74	48	0	0	51	1.00
7957952--7958041	12	6.9	13	74	17	71	80	3	13	3	0.97
7957957--7958042	14	6.6	13	77	12	79	81	3	10	4	0.96
7957969--7958043	27	2.8	27	80	7	91	80	4	10	5	1.01
7958168--7958221	28	2.0	27	85	10	74	50	25	9	14	1.73
7960272--7960318	3	15.7	3	83	16	62	72	0	0	27	0.85
7960271--7960319	15	3.2	15	86	13	73	73	0	0	26	0.83
7967116--7967168	28	1.9	27	88	3	79	28	22	18	30	1.98
7967213--7967258	20	2.3	20	92	0	74	45	19	4	30	1.70

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