genome.fa.s17.2.7.7.80.10.50.1000.156.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  156  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)
48065302--48065365	2	33.0	2	73	6	51	46	1	6	45	1.37
48065298--48065365	10	7.0	10	71	18	63	45	1	7	45	1.40
48065315--48065367	22	2.7	20	81	16	65	49	0	7	43	1.31
48065287--48065358	12	6.3	12	72	18	57	45	1	8	44	1.42
48067265--48067396	60	2.2	60	86	0	183	37	15	11	36	1.83
48067282--48067419	60	2.3	59	82	5	152	33	14	11	40	1.82
48068959--48069018	28	2.1	29	87	3	86	41	1	3	53	1.27
48070623--48070671	25	2.0	25	84	8	64	24	6	4	65	1.33
48070967--48071161	98	2.0	98	95	0	354	28	9	23	37	1.87
48073272--48073336	31	2.1	31	83	11	80	52	6	18	23	1.67
48076250--48076308	12	4.9	12	71	22	52	50	1	0	47	1.11
48076620--48076659	19	2.1	19	90	0	62	35	22	15	27	1.94
48081473--48081559	42	2.1	42	88	0	129	13	17	21	47	1.82
48083399--48083541	40	3.6	40	76	9	141	31	24	16	27	1.96
48090261--48090287	13	2.1	13	100	0	54	55	7	0	37	1.28
48091819--48091863	23	2.0	23	82	8	56	44	8	2	44	1.47
48095008--48095203	92	2.1	92	86	7	265	46	4	3	45	1.39
48095144--48095191	26	1.9	25	84	16	64	45	0	2	52	1.12
48095269--48095479	66	3.4	63	68	21	183	41	3	6	48	1.45
48095238--48095523	120	2.4	120	93	3	479	42	2	5	49	1.39
48095356--48095407	15	3.6	15	80	12	56	44	0	1	53	1.11
48095485--48095526	15	2.7	16	82	14	52	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48095476--48095517	15	2.9	15	82	10	52	47	0	0	52	1.00
48095460--48095775	156	2.0	157	96	0	589	47	5	3	44	1.41
48095628--48095662	18	2.0	17	88	5	52	45	0	0	54	0.99
48095808--48095917	45	2.6	41	78	8	107	33	28	5	32	1.80
48095898--48095933	16	2.2	16	100	0	72	38	36	0	25	1.56
48097903--48097978	35	2.2	35	87	0	107	30	23	21	25	1.99
48109268--48109315	3	15.7	3	78	4	51	39	4	0	56	1.19
48109274--48109315	12	3.4	12	86	3	57	40	2	0	57	1.12
48109661--48110127	153	3.0	151	87	7	656	45	4	10	39	1.57
48110107--48110151	23	1.9	24	86	4	65	57	4	6	31	1.44
48113892--48113994	33	3.1	33	82	8	120	26	15	44	13	1.83
48116933--48117047	60	1.9	60	89	0	176	50	13	1	33	1.52
48117116--48117141	7	3.7	7	100	0	52	61	0	0	38	0.96
48117230--48117285	3	19.7	3	79	17	57	0	28	0	71	0.86
48117225--48117294	19	3.8	18	78	21	74	0	30	0	70	0.88
48123999--48124067	33	2.1	33	91	0	111	26	28	8	36	1.86
48124962--48125001	14	2.9	14	84	0	53	32	7	17	42	1.77
48124970--48125036	35	1.9	35	87	3	100	31	10	13	44	1.77
48124985--48125024	20	2.0	20	85	0	53	27	12	12	47	1.77
48132598--48132653	25	2.3	23	88	8	85	48	0	0	51	1.00
48136520--48136577	30	1.9	30	100	0	116	25	13	20	39	1.90
48137998--48138041	18	2.4	18	88	0	61	36	0	61	2	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48138625--48138656	15	2.1	15	100	0	64	28	12	31	28	1.93
48149262--48149310	21	2.3	21	85	3	62	44	28	10	16	1.80
48149273--48149312	21	1.9	21	94	0	71	42	30	12	15	1.83
48149729--48149768	21	1.9	22	85	10	57	72	2	2	22	1.09
48150372--48150405	11	3.0	11	95	4	59	70	0	0	29	0.87
48152969--48153095	30	4.3	30	81	2	148	37	17	4	40	1.70
48152969--48153095	59	2.1	60	82	7	152	37	17	4	40	1.70
48153341--48153496	30	5.2	30	81	2	161	37	17	5	40	1.72
48153341--48153484	59	2.4	60	80	10	152	36	18	5	39	1.74
48154433--48154522	37	2.4	37	77	0	90	31	16	11	41	1.83
48154489--48154521	17	2.0	17	88	5	50	27	18	9	45	1.79
48154678--48154947	17	15.4	17	77	9	231	28	13	11	45	1.79
48154678--48154947	35	7.7	35	82	5	339	28	13	11	45	1.79
48155844--48155887	17	2.7	17	86	10	65	52	2	0	45	1.13
48155851--48155894	17	2.5	17	85	14	63	54	0	0	45	0.99
48158128--48158510	122	3.0	125	89	6	515	40	14	16	28	1.87
48169345--48169397	25	2.1	25	96	0	97	28	13	22	35	1.92
48186837--48186863	7	3.9	7	100	0	54	29	11	14	44	1.80
48192271--48192399	10	13.4	10	71	18	71	59	2	3	34	1.26
48194359--48194437	37	2.1	37	100	0	158	35	7	17	39	1.78
48195286--48195318	16	2.0	17	88	5	50	51	0	9	39	1.34
48195489--48195533	3	15.0	3	90	0	72	64	2	2	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48201906--48201943	20	1.9	20	89	10	60	65	5	2	26	1.27
48201882--48201943	30	2.2	28	82	8	72	66	3	3	27	1.23
48202199--48202272	28	2.6	29	83	12	91	35	1	1	62	1.12
48205375--48205480	54	2.0	54	98	0	203	33	18	17	29	1.95
48209686--48209717	7	4.4	7	96	4	55	31	0	0	68	0.90
48210405--48210607	43	4.7	43	75	10	157	29	28	17	25	1.98
48211438--48211539	45	2.3	45	94	0	186	46	20	10	22	1.82
48219962--48220459	45	11.1	45	89	1	687	27	18	26	27	1.98
48219962--48220359	179	2.2	180	92	0	681	27	16	26	29	1.97
48219962--48220375	224	1.8	224	92	0	693	28	16	26	28	1.97
48219962--48220459	134	3.7	134	86	2	651	27	18	26	27	1.98
48219962--48220459	179	2.8	178	84	3	658	27	18	26	27	1.98
48219961--48220452	224	2.2	224	85	2	684	27	18	26	27	1.98
48228763--48228812	13	3.8	13	75	0	55	36	22	6	36	1.79
48228927--48228981	3	18.3	3	100	0	110	67	0	0	32	0.91
48230025--48230068	23	2.0	22	81	4	52	68	6	2	22	1.25
48232667--48232735	26	2.6	27	72	4	70	17	26	21	34	1.95
48232717--48232763	23	2.0	23	83	0	58	14	23	23	38	1.92
48232702--48232842	74	1.9	73	80	9	162	20	24	21	34	1.97
48240711--48240763	23	2.2	25	83	6	65	22	26	18	32	1.97
48241958--48242108	42	3.6	42	94	0	259	15	28	34	21	1.94
48242290--48242320	13	2.4	13	100	0	62	25	45	22	6	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48248728--48248758	16	2.0	15	93	6	53	58	0	0	41	0.98
48255043--48255232	96	2.0	97	91	1	310	35	8	19	36	1.82
48257598--48257631	18	1.9	18	88	5	52	35	2	5	55	1.39
48257599--48257688	44	2.0	44	89	0	135	35	8	5	50	1.57
48265719--48265871	12	12.8	12	65	20	54	54	2	1	40	1.25
48265671--48265820	17	8.7	18	67	25	60	50	4	2	42	1.34
48267340--48267388	20	2.4	21	83	10	66	26	14	18	40	1.89
48267888--48267925	19	2.0	19	100	0	76	31	5	21	42	1.75
48275067--48275262	101	1.9	101	94	0	347	40	8	17	33	1.80
48286039--48286170	22	6.0	22	64	13	56	12	23	21	42	1.87
48289313--48289426	39	2.9	39	86	2	149	37	31	14	16	1.88
48294343--48294577	45	5.3	45	79	8	230	23	25	20	30	1.99
48294329--48294614	90	3.2	89	84	5	355	23	23	22	31	1.99
48294329--48294607	45	6.3	45	78	5	217	22	22	22	31	1.98
48295851--48295929	30	2.6	30	91	2	122	37	5	10	46	1.60
48296217--48296251	18	1.9	18	94	0	61	45	2	2	48	1.32
48297606--48297665	24	2.3	27	80	8	72	28	16	3	51	1.60
48298153--48298205	16	3.7	16	82	14	55	50	0	5	43	1.25
48298172--48298205	4	9.0	4	87	12	54	52	0	0	47	1.00
48298500--48298560	26	2.3	26	82	5	68	40	3	9	45	1.53
48306332--48306389	23	2.5	24	86	11	84	18	10	29	41	1.84
48314622--48314686	5	12.6	5	72	18	53	75	1	3	20	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48314611--48314687	15	4.8	15	77	9	73	74	1	3	20	1.06
48318944--48319196	27	9.4	27	84	3	258	42	18	15	22	1.88
48318940--48319196	54	4.8	54	81	6	306	42	18	15	23	1.88
48318974--48319225	81	3.1	78	73	8	227	41	18	15	25	1.89
48319570--48319637	28	2.4	27	80	7	82	22	23	23	30	1.99
48332003--48332048	21	2.2	21	88	3	67	67	0	0	32	0.91
48337458--48337542	21	4.2	20	75	11	75	42	3	1	52	1.26
48337465--48337542	10	7.6	10	71	9	59	39	3	1	55	1.26
48342758--48342839	27	3.0	27	83	3	112	17	21	36	24	1.94
48342906--48342942	18	2.1	18	94	0	65	67	2	29	0	1.04

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