genome.fa.s22.2.7.7.80.10.50.1000.13.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: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  13  of  172  ( 20605 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)
3439562--3439763	58	3.5	57	78	2	217	37	18	19	25	1.94
3441608--3441698	41	2.2	41	90	0	146	27	18	23	30	1.98
3447640--3447725	29	3.0	29	77	6	102	38	19	19	22	1.94
3447524--3447725	58	3.5	57	77	2	208	36	18	19	25	1.94
3449567--3449657	41	2.2	41	94	0	155	27	19	23	29	1.98
3451853--3452148	27	11.0	27	85	2	362	17	18	21	41	1.90
3461344--3461400	19	2.8	21	76	13	55	0	50	3	45	1.18
3461712--3461823	6	18.2	6	69	21	54	20	4	1	73	1.10
3472248--3473145	44	20.6	45	70	11	354	29	20	23	27	1.99
3472248--3473145	89	10.3	86	69	15	381	29	20	23	27	1.99
3472251--3472541	133	2.2	133	96	0	528	28	21	25	25	1.99
3472384--3473145	217	3.5	217	90	0	1150	29	20	22	27	1.98
3477297--3477357	32	1.9	32	96	3	115	47	13	6	32	1.68
3481959--3482136	40	4.5	39	85	4	198	26	20	27	25	1.99
3481965--3482136	80	2.2	79	85	3	229	25	21	27	25	1.99
3481992--3482169	79	2.2	80	82	3	200	25	21	28	24	1.99
3489835--3490058	40	5.6	39	79	8	134	26	20	27	25	1.99
3489888--3490058	39	4.3	39	83	6	177	26	20	27	25	1.99
3489891--3490058	79	2.1	78	80	6	187	27	19	27	25	1.99
3494149--3494209	32	1.9	32	93	3	106	45	13	6	34	1.69
3504220--3505201	89	11.3	87	69	15	434	30	20	22	27	1.98
3504127--3505201	217	5.0	217	92	0	1715	29	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3504262--3504591	173	1.9	173	81	8	395	29	20	23	26	1.99
3504479--3504804	173	1.9	173	79	8	369	28	21	23	26	1.99
3504356--3505166	84	9.4	83	70	14	351	29	19	22	27	1.98
3504220--3505166	44	21.8	44	70	13	402	29	20	22	27	1.98
3506705--3506743	20	1.9	21	84	5	53	28	2	7	61	1.37
3507521--3508483	44	22.2	43	68	15	346	30	20	22	27	1.98
3507521--3508437	217	4.2	217	91	1	1416	29	20	22	27	1.98
3516729--3516772	11	4.0	11	93	0	79	27	6	9	56	1.55
3517346--3517435	45	2.0	45	86	0	126	34	27	21	16	1.95
3525510--3525571	31	2.0	31	100	0	124	45	22	9	22	1.81
3528221--3528339	24	5.0	24	85	4	141	23	16	25	34	1.95
3528293--3528444	64	2.4	63	87	2	205	26	18	25	30	1.98
3529833--3529951	48	2.5	48	88	2	168	26	21	24	27	1.99
3529833--3529949	24	4.9	24	81	3	128	26	21	23	28	1.99
3529939--3530276	180	1.9	180	91	0	550	26	14	26	31	1.95
3533159--3533213	26	2.1	27	83	10	69	56	1	0	41	1.10
3533195--3533222	7	4.0	7	100	0	56	57	0	0	42	0.99
3533186--3533230	20	2.2	20	84	8	54	62	0	0	37	0.96
3537588--3537673	40	2.2	39	81	10	104	36	23	20	19	1.95
3537965--3538720	114	6.6	114	90	0	1062	34	19	20	25	1.96
3539278--3539365	7	12.6	7	78	4	61	13	1	39	45	1.51
3539279--3539360	21	3.9	21	77	0	92	14	0	39	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3539916--3540143	72	3.1	72	69	14	214	23	14	22	38	1.92
3539949--3540171	72	3.1	72	68	12	211	24	14	21	39	1.91
3539923--3540219	146	2.0	146	95	0	531	24	14	20	40	1.90
3540410--3540444	18	1.9	18	88	0	52	31	37	2	28	1.72
3542117--3542284	20	8.7	20	71	15	138	47	7	5	39	1.55
3542138--3542317	57	3.2	57	91	1	290	45	8	5	40	1.59
3542229--3542422	87	2.2	84	80	12	214	41	11	4	42	1.61
3547905--3547951	21	2.2	21	84	0	58	38	19	40	2	1.63
3548569--3548687	41	2.9	41	83	1	148	27	22	21	27	1.99
3550695--3550738	21	2.1	21	91	0	70	36	15	11	36	1.84
3551112--3551498	44	8.8	44	82	2	409	29	24	16	30	1.96
3551111--3551498	133	2.9	132	84	1	438	29	24	16	30	1.96
3551112--3551498	177	2.2	175	89	0	576	29	24	16	30	1.96
3551112--3551573	177	2.6	177	85	2	527	28	24	17	29	1.98
3551499--3552223	88	8.2	88	86	1	853	24	24	24	26	2.00
3551549--3551880	44	7.6	42	66	12	141	26	26	21	25	2.00
3551499--3552223	264	2.7	263	85	1	939	24	24	24	26	2.00
3558743--3558797	21	2.7	21	91	5	87	36	18	10	34	1.86
3561249--3561426	97	1.8	98	89	3	279	34	17	18	29	1.94
3561846--3561891	19	2.3	20	85	7	58	28	2	4	65	1.23
3564103--3564267	5	33.0	5	89	4	253	40	1	18	39	1.62
3564975--3565009	17	2.0	17	88	5	52	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3570170--3570260	48	2.1	41	82	15	103	25	25	5	43	1.75
3577526--3577733	70	3.0	70	82	1	238	33	23	20	22	1.97
3578237--3578286	16	3.3	16	69	25	54	32	16	2	50	1.56
3578224--3578296	29	2.5	29	97	0	137	31	16	4	47	1.65
3578687--3578739	19	2.7	20	77	11	65	71	0	1	26	0.96
3579593--3579635	13	3.5	13	81	18	65	48	16	0	34	1.46
3579591--3579637	23	2.0	23	100	0	94	46	17	0	36	1.48
3579595--3579644	23	2.2	23	92	0	82	52	14	0	34	1.42
3581608--3581646	19	2.1	19	95	0	69	23	20	25	30	1.98
3582419--3582452	6	5.3	6	86	13	50	20	0	0	79	0.73
3589509--3589558	23	2.2	23	92	0	82	54	12	0	34	1.38
3613998--3614068	30	2.4	29	82	15	83	0	22	1	76	0.87
3624870--3624963	9	10.6	9	73	14	70	27	5	1	65	1.20
3624869--3624963	26	3.6	25	71	22	70	27	5	1	66	1.20
3625277--3625332	28	2.0	29	86	10	80	28	0	1	69	0.98
3627381--3627490	51	2.2	51	86	3	150	29	14	9	47	1.75
3628427--3628474	24	2.0	24	100	0	96	29	12	12	45	1.78
3629293--3629340	15	3.0	16	75	9	53	37	0	4	58	1.18
3635609--3635672	33	2.0	32	87	6	94	50	3	0	46	1.17
3638823--3638873	26	2.0	26	100	0	102	31	27	5	35	1.81
3647615--3647658	16	2.6	17	89	3	63	18	0	25	56	1.41
3647618--3647658	17	2.5	16	88	4	55	17	0	26	56	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3648111--3648152	20	2.0	21	81	9	50	54	2	7	35	1.41
3654053--3654085	9	3.8	9	96	4	59	81	0	0	18	0.68
3662251--3662368	30	3.8	29	76	15	101	27	23	16	31	1.97
3664359--3664383	6	4.2	6	100	0	50	16	0	0	84	0.63
3665758--3665831	21	3.5	22	78	12	77	43	2	5	48	1.40
3670467--3670506	11	3.6	11	96	0	71	65	0	0	35	0.93
3671824--3671856	17	1.9	17	100	0	66	36	21	12	30	1.90
3673613--3673659	13	3.5	13	78	18	51	70	6	2	21	1.20
3675760--3675830	19	3.6	19	87	7	106	36	8	15	39	1.78
3675760--3675819	21	3.0	21	90	4	97	36	8	15	40	1.77
3675769--3675853	19	4.0	22	77	14	72	37	5	16	40	1.73
3675819--3675863	23	2.0	23	86	4	65	33	4	15	46	1.66
3675966--3675998	17	1.9	17	88	11	50	63	6	21	9	1.45
3676034--3676072	19	2.0	21	85	10	55	15	10	5	69	1.34
3676276--3676325	3	17.0	3	80	12	59	30	2	2	66	1.14
3676343--3676497	23	6.4	24	73	11	120	34	8	6	50	1.58
3677868--3677981	43	2.6	45	80	5	135	26	19	21	32	1.97
3677999--3678110	44	2.6	44	85	4	147	27	19	22	30	1.98
3678118--3678275	50	3.2	50	64	0	127	26	20	20	32	1.97
3678118--3678305	100	1.9	100	92	0	313	26	20	21	31	1.98
3678152--3678314	50	3.3	50	66	3	130	25	23	20	30	1.99
3678600--3678695	44	2.2	44	90	3	149	32	23	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3678695--3679269	88	6.6	88	88	1	823	20	23	28	27	1.99
3678695--3679269	174	3.3	175	89	1	830	20	23	28	27	1.99
3678706--3679269	262	2.1	263	89	0	851	20	23	28	27	1.99
3679127--3679252	43	2.9	44	70	7	130	18	25	29	26	1.98
3685192--3685238	13	3.5	13	78	18	51	70	6	2	21	1.20
3685690--3685734	23	2.0	22	83	12	56	64	0	4	31	1.13
3685793--3685836	17	2.6	17	85	3	63	47	0	11	40	1.39
3685789--3685840	27	1.9	27	84	0	68	53	0	9	36	1.34
3691784--3691836	23	2.4	22	76	20	56	9	18	1	69	1.25
3691795--3691883	18	4.8	18	69	17	56	10	23	1	65	1.30

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