genome.fa.s17.2.7.7.80.10.50.1000.157.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   

This is table  157  of  185  ( 22116 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)
48342895--48342948	22	2.4	23	76	20	60	68	1	27	1	1.10
48345934--48345975	22	1.9	22	100	0	84	50	7	0	42	1.30
48348048--48348129	38	2.2	38	93	0	137	41	2	2	53	1.27
48348163--48348284	60	2.0	60	85	3	165	54	14	0	30	1.47
48348346--48348675	19	17.5	19	71	19	203	54	12	0	31	1.44
48348338--48348389	8	6.1	8	80	12	59	51	13	0	34	1.41
48348325--48348502	27	7.1	27	83	13	222	53	13	0	32	1.44
48348467--48348673	22	10.1	21	75	14	175	57	12	0	29	1.42
48348429--48348675	41	6.1	41	77	16	253	55	12	0	30	1.42
48348447--48348702	61	4.2	60	72	11	166	55	12	0	30	1.43
48348742--48348767	12	2.2	12	100	0	52	46	15	0	38	1.46
48348847--48348884	3	13.3	3	83	10	53	0	36	0	63	0.95
48348843--48348884	14	3.1	14	90	10	61	0	35	0	64	0.94
48348848--48348893	11	4.3	11	83	13	51	0	39	0	60	0.97
48348850--48348896	14	3.6	13	80	16	53	0	38	0	61	0.96
48348845--48348891	20	2.3	21	85	7	69	0	38	0	61	0.96
48357077--48357136	30	2.0	30	87	3	86	16	33	28	21	1.95
48357880--48357927	19	2.5	19	80	10	53	68	0	2	29	1.01
48367606--48367701	46	2.1	46	90	5	151	44	8	16	30	1.77
48370975--48371224	127	2.0	127	93	0	428	43	13	6	36	1.70
48372259--48372330	31	2.3	33	76	16	89	45	2	0	51	1.15
48372275--48372327	10	5.1	10	80	19	56	39	3	0	56	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48372275--48372321	21	2.3	20	89	10	69	38	4	0	57	1.18
48380099--48380184	6	14.7	6	84	7	61	68	10	6	13	1.38
48380081--48380186	40	2.5	43	76	13	112	69	9	7	13	1.35
48380169--48380225	23	2.6	21	78	15	62	73	0	22	3	0.98
48381068--48381115	21	2.2	23	88	7	73	77	2	10	10	1.09
48382417--48382767	50	7.0	50	68	5	206	32	22	19	25	1.97
48382417--48382945	100	5.4	98	80	12	572	32	22	19	25	1.97
48382680--48382852	85	2.0	85	92	0	283	31	24	17	26	1.97
48382802--48382952	50	3.0	50	73	3	169	30	23	19	26	1.98
48382580--48383137	185	3.0	185	89	2	825	32	24	18	25	1.97
48382865--48383037	85	2.0	85	90	0	274	31	26	17	24	1.97
48382998--48383180	50	3.7	50	71	8	156	34	24	16	25	1.95
48382950--48383256	100	3.1	100	85	0	364	34	23	18	24	1.96
48390666--48390765	43	2.3	43	96	0	182	26	10	21	43	1.83
48390930--48391006	20	3.8	20	73	13	86	58	3	3	33	1.35
48395400--48395629	50	4.6	50	86	2	286	20	29	23	26	1.99
48404324--48404361	11	3.5	11	92	0	58	23	2	21	52	1.59
48407272--48407346	32	2.3	32	100	0	150	45	6	21	26	1.76
48429580--48429765	93	2.0	93	100	0	372	43	9	23	23	1.83
48430130--48430427	147	2.0	148	91	0	481	31	13	17	36	1.89
48432808--48432839	16	2.0	16	93	0	55	59	21	0	18	1.38
48437349--48437415	14	4.8	14	79	18	68	73	7	19	0	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48437349--48437415	26	2.4	27	82	12	82	73	7	19	0	1.07
48438486--48438547	24	2.5	26	74	15	67	69	1	12	16	1.27
48440747--48440994	96	2.6	95	85	3	309	35	2	17	43	1.64
48441543--48441588	11	4.2	11	78	18	51	43	0	32	23	1.54
48441549--48441591	10	4.0	10	82	14	50	46	0	30	23	1.52
48443636--48443685	25	2.0	25	92	0	82	4	36	4	56	1.37
48446268--48446306	14	2.8	14	84	0	51	41	17	2	38	1.64
48447517--48447825	32	9.7	32	78	8	290	41	15	11	31	1.83
48447528--48447810	64	4.4	64	90	0	440	39	15	12	32	1.85
48447532--48447812	96	2.9	95	83	3	375	39	15	12	32	1.85
48450016--48450066	23	2.2	23	93	6	86	15	17	31	35	1.92
48450052--48450112	22	2.7	22	82	2	68	14	21	22	40	1.90
48450023--48450112	23	4.0	23	80	1	74	16	18	25	38	1.92
48451224--48451252	15	1.9	15	100	0	58	72	6	13	6	1.26
48455981--48456024	19	2.3	19	84	4	61	34	6	11	47	1.66
48461179--48461348	86	2.0	86	92	0	286	34	18	22	25	1.96
48464197--48464265	27	2.6	27	77	11	70	47	11	13	27	1.76
48468846--48469213	184	2.0	184	95	0	664	17	23	20	38	1.93
48471074--48471153	27	2.9	28	80	14	87	50	8	12	28	1.70
48472703--48473451	44	16.9	44	79	2	640	34	17	19	27	1.95
48472703--48473449	89	8.4	89	80	3	652	34	17	19	27	1.95
48472703--48473450	133	5.6	134	84	2	803	34	17	19	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48473117--48473494	132	2.9	131	81	6	320	33	16	23	26	1.96
48474909--48475037	66	2.0	66	90	1	206	27	6	3	62	1.36
48483118--48483181	31	2.1	31	93	0	110	32	17	20	29	1.95
48484746--48484786	9	3.9	11	78	21	52	21	0	0	78	0.76
48484754--48484786	14	2.3	14	94	5	57	18	0	0	81	0.68
48503468--48503545	31	2.5	31	83	6	97	20	11	23	44	1.84
48504527--48504590	22	2.9	22	95	0	119	29	7	12	50	1.68
48506000--48506057	26	2.2	25	87	9	80	67	0	5	27	1.12
48505999--48506057	28	2.2	26	87	6	82	67	0	5	27	1.11
48506232--48506558	102	3.0	101	67	21	261	35	3	17	43	1.65
48506548--48506591	6	7.2	6	79	5	52	18	2	43	36	1.63
48506697--48506791	35	2.7	35	91	4	140	25	31	32	10	1.90
48506716--48506791	35	2.2	35	100	0	152	23	32	31	11	1.91
48507291--48507335	17	2.6	18	89	7	74	44	4	0	51	1.21
48510242--48510290	19	2.6	19	93	0	89	40	0	22	36	1.54
48512603--48512703	27	3.8	26	81	3	87	19	26	15	37	1.92
48512617--48512703	27	3.3	27	83	1	113	20	27	17	34	1.95
48512709--48512853	57	2.5	57	86	2	202	25	23	12	38	1.90
48514225--48514261	9	4.1	9	92	0	65	45	13	10	29	1.77
48514476--48514534	30	2.0	30	86	6	84	20	38	0	40	1.53
48515185--48515210	5	5.2	5	100	0	52	23	19	19	38	1.93
48515300--48515325	5	5.2	5	100	0	52	19	19	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48521385--48521423	21	2.0	21	85	10	55	20	0	2	76	0.90
48529723--48529775	24	2.2	24	83	3	63	41	13	13	32	1.82
48529789--48529839	26	1.9	27	84	11	70	56	11	11	19	1.65
48530268--48530302	18	1.9	18	88	0	52	11	40	25	22	1.88
48531603--48531627	6	4.2	6	100	0	50	52	16	0	32	1.44
48544095--48544134	19	2.2	19	86	4	55	10	0	12	77	0.99
48544081--48544148	31	2.3	29	78	14	84	14	0	14	70	1.17
48547648--48547869	37	6.0	37	83	5	245	18	13	29	38	1.89
48547648--48547846	74	2.7	74	85	0	272	17	14	28	39	1.88
48547648--48547847	111	1.8	111	90	4	323	17	14	28	40	1.88
48547647--48547881	111	2.1	112	85	7	318	17	12	30	39	1.87
48550318--48550374	22	2.6	22	82	0	69	36	24	14	24	1.92
48561428--48561639	102	2.1	103	95	0	381	37	19	5	37	1.76
48568731--48568791	30	2.0	31	93	3	106	37	0	42	19	1.52
48572127--48572197	23	3.1	23	83	0	106	21	22	26	29	1.99
48577661--48577790	64	2.0	64	93	0	224	41	15	15	27	1.87
48590225--48590287	4	15.8	4	100	0	126	25	23	0	50	1.49
48592467--48592611	41	3.5	41	84	1	175	21	26	18	33	1.96
48592491--48592554	21	3.1	21	68	4	67	17	23	20	39	1.92
48592541--48592626	41	2.1	41	82	4	102	24	27	16	31	1.96
48594070--48594168	42	2.4	42	84	6	121	30	27	21	21	1.98
48597824--48597869	15	2.9	15	81	9	56	73	2	21	2	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48598688--48599024	85	4.0	84	83	4	394	31	19	15	33	1.94
48600651--48600867	119	1.8	119	81	0	272	26	25	22	25	2.00
48605032--48605064	15	2.1	16	94	5	59	42	15	0	42	1.46
48613205--48613229	10	2.5	10	100	0	50	84	0	16	0	0.63
48613816--48613858	14	2.9	15	76	16	54	34	2	11	51	1.51
48614014--48614169	41	3.8	41	85	3	181	18	21	26	33	1.96
48614014--48614168	81	1.9	81	83	0	202	18	21	26	33	1.96
48617181--48617219	19	2.1	19	85	0	51	43	0	2	53	1.14
48617721--48617758	20	1.9	19	89	5	58	57	2	2	36	1.26
48617757--48617829	30	2.7	27	78	17	80	58	0	2	38	1.12

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185