genome.fa.s9.2.7.7.80.10.50.1000.75.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  75  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)
29897221--29897263	18	2.4	19	80	11	54	58	0	2	39	1.11
29897274--29897314	14	3.1	14	80	19	52	43	0	7	48	1.30
29898775--29898946	22	7.7	22	70	15	95	48	1	5	44	1.35
29911538--29911595	19	2.9	21	80	17	70	29	0	0	70	0.87
29911561--29911599	13	2.9	13	84	3	51	33	0	0	66	0.92
29911667--29911702	9	3.9	9	92	7	63	13	0	0	86	0.58
29911656--29911699	16	2.6	17	89	7	63	15	0	0	84	0.63
29911667--29911700	10	3.5	10	88	4	52	11	0	0	88	0.52
29911803--29911853	19	2.8	18	82	11	59	31	0	3	64	1.11
29912234--29912270	15	2.5	15	84	16	51	18	5	0	75	0.99
29912675--29912924	129	1.9	131	90	3	396	12	35	28	23	1.91
29916288--29916312	13	1.9	13	100	0	50	44	0	8	48	1.32
29920601--29920645	14	3.1	15	82	17	51	26	0	17	55	1.42
29934452--29934487	16	2.3	16	90	4	56	13	5	5	75	1.17
29934561--29934606	22	2.2	22	84	7	60	10	2	6	80	0.98
29936713--29936749	9	3.9	10	82	10	51	29	0	0	70	0.88
29936902--29936958	2	28.5	2	96	0	105	52	0	0	47	1.00
29940036--29940082	15	3.1	15	84	6	51	68	0	12	19	1.21
29940679--29940787	45	2.4	44	83	4	130	46	2	5	44	1.40
29940822--29940895	23	3.3	22	69	14	60	52	4	2	40	1.34
29941630--29941999	183	2.0	184	88	3	559	43	8	13	33	1.75
29942941--29943177	121	2.0	120	80	5	271	50	6	5	37	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29949531--29949589	32	2.0	31	87	12	88	61	0	0	38	0.96
29949724--29950039	155	2.0	156	93	0	535	33	13	9	43	1.76
29963928--29963952	13	1.9	13	100	0	50	48	8	0	44	1.32
29970246--29970291	15	3.1	15	78	12	58	56	17	2	23	1.52
29977234--29977290	2	28.5	2	100	0	114	49	0	0	50	1.00
29981965--29982027	32	2.0	32	90	0	99	23	6	17	52	1.67
29984564--29984602	20	2.0	21	85	10	55	51	2	2	43	1.29
29984796--29984843	25	2.0	24	84	12	62	68	0	6	25	1.12
29985868--29985897	14	2.1	14	100	0	60	43	20	20	16	1.88
29985973--29986004	2	16.0	2	100	0	64	50	0	0	50	1.00
29986058--29986093	15	2.4	15	100	0	72	5	27	11	55	1.57
29986053--29986093	15	2.5	17	80	19	59	4	29	12	53	1.58
29990613--29990648	17	2.1	17	94	0	63	63	0	13	22	1.29
29991577--29991960	212	1.8	211	89	0	597	48	3	7	40	1.48
29991949--29991995	20	2.3	20	88	0	67	44	4	0	51	1.21
29998907--29998996	44	2.0	45	89	2	137	24	32	10	33	1.88
30010479--30010518	5	8.2	5	88	5	55	35	22	2	40	1.68
30010553--30010603	15	3.4	15	83	0	66	49	15	3	31	1.63
30015607--30015646	5	8.2	5	88	5	55	35	22	2	40	1.68
30015681--30015731	15	3.4	15	83	0	66	49	15	3	31	1.63
30020735--30020774	5	8.2	5	88	5	55	35	22	2	40	1.68
30020809--30020859	15	3.4	15	83	0	66	49	15	3	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30024439--30024480	21	2.0	21	81	9	50	28	11	14	45	1.80
30027176--30027208	17	1.9	17	88	11	50	66	18	0	15	1.25
30031380--30031525	75	1.9	75	87	5	215	36	17	15	30	1.90
30031843--30031943	41	2.4	42	88	1	150	38	21	14	24	1.92
30031944--30031982	18	2.2	18	90	0	60	46	15	7	30	1.74
30033031--30033064	2	17.0	2	100	0	68	50	0	0	50	1.00
30041711--30041745	17	2.1	17	88	0	52	40	0	2	57	1.14
30048588--30048616	6	4.8	6	100	0	58	13	0	0	86	0.58
30064459--30064491	2	16.5	2	93	0	57	48	3	0	48	1.17
30064197--30064794	299	2.0	299	99	0	1180	43	11	6	39	1.65
30064764--30064791	2	14.0	2	100	0	56	50	0	0	50	1.00
30067501--30067551	21	2.5	20	84	15	61	52	0	0	47	1.00
30067978--30068016	17	2.3	17	86	8	53	33	5	7	53	1.51
30068977--30069022	20	2.2	21	77	14	51	30	0	2	67	1.03
30076176--30076204	3	9.7	3	100	0	58	31	0	34	34	1.58
30086597--30086632	16	2.2	17	90	5	56	77	0	19	2	0.88
30090267--30090299	8	4.0	8	96	4	57	0	15	0	84	0.61
30093935--30093966	10	3.1	10	91	8	55	31	3	0	65	1.08
30093975--30094035	33	1.9	32	86	6	88	37	9	4	47	1.58
30094067--30094557	79	6.2	79	97	0	903	36	9	7	45	1.67
30100218--30100289	23	3.2	22	68	14	65	40	4	4	51	1.40
30100372--30100446	10	7.4	10	74	18	57	52	1	1	45	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30100327--30100420	45	2.1	45	88	4	136	47	5	1	45	1.32
30100395--30100440	18	2.4	19	89	7	67	52	0	0	47	1.00
30100395--30100448	18	2.9	18	81	15	65	51	0	0	48	1.00
30101450--30101699	125	2.0	125	93	0	428	38	16	7	38	1.76
30103808--30103916	54	2.0	54	100	0	218	33	25	11	29	1.90
30104812--30104844	14	2.4	14	90	5	50	39	12	9	39	1.74
30106155--30106224	30	2.4	29	86	11	90	64	10	25	0	1.25
30108798--30108836	15	2.7	15	88	7	55	58	5	0	35	1.20
30109066--30109102	18	2.1	18	95	5	67	70	0	0	29	0.88
30113875--30114189	151	2.1	153	83	8	392	25	13	23	37	1.91
30124129--30124169	19	2.2	19	95	0	73	21	19	7	51	1.71
30128130--30128159	3	10.0	3	100	0	60	33	0	0	66	0.92
30132149--30132184	2	18.0	2	94	0	63	47	2	0	50	1.15
30134878--30134918	3	13.7	3	94	0	73	34	2	0	63	1.08
30135350--30135378	15	1.9	15	100	0	58	55	6	0	37	1.27
30149133--30149177	21	2.1	21	83	0	54	33	0	48	17	1.48
30154748--30154780	2	16.5	2	87	12	50	45	0	51	3	1.16
30157549--30157588	2	20.0	2	100	0	80	50	0	50	0	1.00
30165530--30165572	8	5.4	8	78	10	52	16	2	0	81	0.79
30165535--30165559	13	1.9	13	100	0	50	12	0	0	88	0.53
30165617--30165681	9	6.8	9	74	19	60	27	1	0	70	0.96
30165619--30165658	7	5.7	7	85	11	55	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30166078--30166114	12	3.2	11	92	7	56	27	0	0	72	0.84
30168557--30168616	31	1.9	31	86	0	84	35	1	1	61	1.16
30168649--30168678	3	9.7	3	92	7	51	63	0	0	36	0.95
30182708--30182753	23	2.0	23	83	8	58	13	26	6	54	1.62
30183164--30183232	32	2.2	32	86	0	93	40	11	5	42	1.65
30183215--30183328	44	2.6	44	83	4	149	32	15	17	34	1.92
30183260--30183405	66	2.2	66	79	4	177	30	17	19	32	1.95
30200125--30200187	32	2.0	32	93	0	108	39	15	23	20	1.91
30206529--30206560	6	5.3	6	100	0	64	50	15	0	34	1.45
30209037--30209462	212	2.0	212	95	0	762	26	14	17	41	1.88
30209655--30209689	18	1.9	18	94	0	61	40	0	14	45	1.45
30216516--30216541	2	13.0	2	100	0	52	50	0	0	50	1.00
30216535--30216737	102	2.0	102	94	0	352	37	16	10	35	1.83
30217869--30217914	20	2.2	21	92	3	76	52	17	17	13	1.75
30233010--30233049	20	2.0	20	85	5	53	75	2	2	20	1.04
30232989--30233041	26	2.0	26	82	7	63	73	3	1	20	1.08
30233020--30233063	20	2.2	20	87	0	61	68	9	2	20	1.28
30233391--30233498	23	4.4	23	71	18	83	29	12	27	29	1.94
30233396--30233506	54	2.1	54	98	0	213	29	12	27	30	1.93
30234297--30234345	21	2.3	22	85	3	64	57	14	6	22	1.59
30248089--30248119	13	2.5	12	94	5	53	51	0	32	16	1.44
30248344--30248470	29	4.4	29	80	2	139	46	11	28	14	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30248350--30248478	58	2.2	58	83	2	161	46	11	27	13	1.78
30248721--30248800	35	2.3	35	88	0	115	20	12	20	47	1.81
30256538--30256565	13	2.2	13	100	0	56	57	7	14	21	1.61
30258144--30258242	2	46.5	2	80	15	85	42	3	6	47	1.43
30258117--30258242	64	2.0	63	96	0	225	38	5	10	45	1.62
30269743--30270140	38	10.2	38	78	14	298	22	15	19	42	1.88
30269765--30269856	45	2.0	45	97	0	175	22	18	22	35	1.95
30269743--30270128	77	4.9	77	79	11	283	22	15	19	42	1.89
30269825--30270151	38	8.5	37	80	9	354	22	14	18	44	1.86
30269825--30270140	77	4.1	75	82	8	404	22	14	18	43	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