genome.fa.s9.2.7.7.80.10.50.1000.39.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  39  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)
16059785--16059845	23	2.7	22	75	5	68	19	13	29	37	1.90
16063460--16063515	22	2.5	22	94	0	94	19	12	26	41	1.87
16065090--16065373	64	4.5	63	76	6	241	34	14	13	36	1.86
16065716--16065789	30	2.4	30	86	2	103	32	17	9	40	1.82
16066688--16066720	13	2.6	13	90	4	50	12	9	6	72	1.26
16066703--16066744	18	2.3	18	87	4	57	16	2	7	73	1.15
16068009--16068043	18	1.9	18	94	0	61	37	8	11	42	1.72
16072386--16072420	18	1.9	18	94	0	61	37	8	11	42	1.72
16076270--16076304	18	1.9	18	94	0	61	11	14	2	71	1.25
16078876--16078924	15	3.3	15	91	0	80	36	10	24	28	1.88
16078864--16078924	30	2.0	30	90	0	95	39	8	21	31	1.82
16079144--16079225	33	2.5	33	83	2	101	28	6	1	64	1.24
16080967--16081011	21	2.1	21	87	0	63	20	57	6	15	1.60
16080997--16081226	124	1.9	124	80	5	277	26	27	13	32	1.94
16085035--16085087	2	27.0	2	80	3	63	47	5	1	45	1.37
16086530--16086634	45	2.4	45	98	1	203	54	9	8	27	1.62
16087014--16087043	2	15.0	2	100	0	60	50	0	0	50	1.00
16087117--16087146	2	15.0	2	100	0	60	50	0	0	50	1.00
16087284--16087322	20	2.0	20	85	14	55	53	10	20	15	1.70
16091718--16091779	32	1.9	33	90	9	101	24	6	0	69	1.12
16091897--16091941	22	2.2	20	84	15	56	22	4	2	71	1.15
16093613--16093752	72	1.9	72	89	0	217	14	26	27	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16093949--16093996	1	48.0	1	78	0	51	4	0	6	89	0.58
16093950--16093996	10	4.7	10	91	0	67	4	0	6	89	0.59
16093997--16094322	75	4.4	75	83	5	383	41	19	16	23	1.90
16093997--16094322	37	8.8	37	84	4	379	41	19	16	23	1.90
16095177--16095217	16	2.6	16	84	3	57	0	14	0	85	0.60
16106611--16106703	32	2.9	31	72	23	77	22	6	1	69	1.17
16107380--16107440	24	2.5	26	74	17	67	36	9	0	54	1.34
16107381--16107431	22	2.2	24	82	6	61	31	11	0	56	1.35
16112980--16113023	2	22.5	2	95	4	81	52	0	0	47	1.00
16122003--16122037	14	2.4	14	90	4	52	71	5	0	22	1.07
16126962--16127095	66	2.0	65	82	4	162	38	22	14	24	1.91
16128060--16128091	2	16.0	2	100	0	64	50	0	0	50	1.00
16137698--16137727	12	2.5	12	94	0	51	20	30	30	20	1.97
16149324--16149441	50	2.4	49	84	1	137	33	16	18	32	1.93
16158237--16158261	12	2.1	12	100	0	50	48	0	36	16	1.46
16160843--16160874	14	2.3	14	94	0	55	40	0	9	50	1.35
16160790--16160957	83	2.0	83	91	0	273	38	21	6	33	1.79
16160928--16160970	12	3.6	12	80	0	50	44	9	4	41	1.57
16161012--16161165	42	3.7	42	83	0	200	20	35	22	22	1.96
16161011--16161165	84	1.8	84	92	0	265	20	34	21	23	1.96
16161192--16161242	2	25.5	2	100	0	102	50	49	0	0	1.00
16180152--16180315	59	2.8	56	81	6	193	36	11	10	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16180152--16180312	29	5.5	28	81	8	162	37	11	10	40	1.77
16180233--16180324	29	3.2	29	84	6	80	34	14	11	39	1.82
16184526--16184571	15	3.1	15	84	9	67	21	2	19	56	1.52
16195701--16195742	19	2.2	20	87	12	61	69	0	23	7	1.13
16195983--16196074	4	23.2	4	76	12	75	65	0	32	2	1.05
16196045--16196073	14	2.1	14	100	0	58	79	0	20	0	0.74
16196045--16196078	14	2.5	13	90	4	50	76	0	23	0	0.79
16199579--16199696	35	3.4	34	81	3	128	21	16	24	37	1.94
16209193--16209607	33	12.5	33	98	0	758	25	15	48	10	1.78
16209555--16209662	56	1.9	56	83	3	137	35	12	43	9	1.74
16211096--16211130	18	1.9	18	94	0	61	42	11	8	37	1.72
16211970--16212014	12	3.7	12	85	11	56	57	20	0	22	1.40
16211978--16212016	12	3.2	12	85	7	60	53	17	0	28	1.44
16214241--16214271	9	3.3	9	95	4	53	67	0	29	3	1.06
16217614--16217877	31	8.5	31	92	0	431	23	16	20	39	1.92
16222427--16222743	31	10.2	31	89	0	411	36	17	19	26	1.94
16223799--16223868	14	4.6	14	76	10	50	52	2	8	35	1.47
16223815--16223881	16	4.2	16	77	9	66	55	2	4	37	1.36
16223710--16223842	52	2.4	54	83	9	155	50	6	11	32	1.62
16223747--16223894	47	3.0	47	81	8	145	52	4	7	35	1.50
16223829--16223879	15	3.4	15	78	7	50	54	3	3	37	1.37
16225415--16225718	31	9.8	31	85	1	421	38	21	17	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16227908--16228109	31	6.5	31	92	1	223	34	23	17	24	1.96
16227908--16228109	62	3.3	62	88	2	273	34	23	17	24	1.96
16227908--16228109	93	2.2	93	86	3	273	34	23	17	24	1.96
16228652--16228733	24	3.5	24	68	15	71	19	34	19	26	1.96
16228652--16228954	47	6.4	47	85	1	410	23	34	16	26	1.95
16228659--16228968	94	3.3	94	88	3	462	23	34	15	26	1.95
16231581--16231618	20	1.9	21	84	10	53	52	7	2	36	1.45
16232780--16232895	37	3.2	36	93	3	196	23	37	11	27	1.89
16234079--16234244	65	2.5	67	83	3	212	36	10	18	34	1.85
16234383--16234452	31	2.3	31	90	2	106	27	24	31	17	1.97
16234393--16234462	31	2.3	30	87	7	97	25	18	34	21	1.96
16234874--16234903	15	1.9	16	93	6	53	36	3	26	33	1.73
16237171--16237278	36	3.0	36	83	6	130	19	26	14	38	1.91
16239517--16239589	37	2.0	37	83	5	94	45	13	12	28	1.80
16252930--16252983	23	2.3	23	87	6	74	68	3	24	3	1.22
16261175--16261245	26	2.8	26	89	6	101	28	21	15	35	1.94
16262696--16262796	39	2.6	39	87	0	148	34	19	19	25	1.96
16262911--16262967	21	2.7	21	83	0	69	29	17	24	28	1.97
16263213--16263327	43	2.7	43	86	2	142	20	36	19	23	1.95
16286856--16286899	22	2.0	21	82	4	52	31	18	25	25	1.97
16287224--16287248	2	12.5	2	100	0	50	48	0	0	52	1.00
16292387--16292510	43	2.9	42	83	4	158	23	18	37	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16292867--16293000	60	2.2	60	80	7	155	28	22	18	30	1.97
16294290--16294343	26	2.1	26	96	0	99	48	12	3	35	1.60
16307050--16307087	19	2.0	19	94	0	67	28	0	28	42	1.56
16310239--16310589	176	2.0	176	89	1	542	37	13	20	28	1.91
16310757--16310849	33	2.8	33	85	1	123	29	7	2	61	1.35
16315613--16315781	72	2.4	71	81	6	189	30	17	18	33	1.94
16328691--16329012	72	4.5	72	76	6	280	28	15	20	35	1.93
16332718--16332788	36	2.0	36	85	0	97	45	7	8	39	1.62
16335853--16336053	45	4.3	46	75	15	182	29	18	20	30	1.97
16335853--16336053	90	2.2	93	81	15	231	29	18	20	30	1.97
16335930--16336082	51	3.1	52	85	6	187	30	17	21	30	1.96
16336068--16336174	26	4.0	26	73	13	76	40	15	15	28	1.89
16336119--16336220	32	3.3	31	83	5	127	36	10	17	35	1.85
16336623--16336668	23	2.0	23	82	0	56	54	13	21	10	1.69
16345860--16347156	658	2.0	657	94	1	2283	43	9	12	34	1.75
16354955--16354982	2	14.0	2	100	0	56	50	0	0	50	1.00
16365302--16365385	42	2.0	42	88	4	125	23	21	34	20	1.97
16365537--16365569	15	2.2	15	94	0	57	3	33	15	48	1.60
16376719--16376743	2	12.5	2	100	0	50	52	48	0	0	1.00
16400847--16400871	13	1.9	13	100	0	50	44	0	8	48	1.32
16407652--16407740	42	2.1	42	91	0	151	26	24	31	16	1.97
16407780--16407831	2	26.0	2	92	7	88	50	0	1	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16407893--16408220	164	2.0	163	97	0	620	27	18	21	31	1.97
16414558--16414674	22	5.2	22	74	8	110	22	14	21	41	1.89
16414544--16414671	45	2.8	44	83	4	157	21	14	22	41	1.89
16415057--16415210	75	2.1	75	86	6	215	30	13	18	37	1.89
16418249--16418347	32	3.0	32	75	15	94	24	14	25	36	1.93
16418251--16418378	67	1.9	67	83	3	168	25	14	26	33	1.95
16429476--16429591	22	5.2	23	71	11	98	25	15	16	43	1.87
16429476--16429587	44	2.5	45	84	8	149	25	15	16	43	1.86
16429943--16429983	20	2.0	20	85	9	55	46	21	14	17	1.84
16431843--16431992	43	3.5	42	83	9	169	30	11	18	39	1.86

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