genome.fa.s20.2.7.7.80.10.50.1000.28.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   186   187   188   189   

This is table  28  of  189  ( 22580 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)
9047256--9047288	12	2.8	12	86	13	50	27	0	0	72	0.85
9047432--9047459	6	4.7	6	100	0	56	17	28	17	35	1.93
9065118--9065146	3	9.7	3	100	0	58	34	0	0	65	0.93
9069779--9069809	13	2.4	13	94	0	53	9	3	0	87	0.66
9070252--9070303	6	8.3	6	80	16	52	75	0	3	21	0.97
9070257--9070306	25	2.0	25	85	14	68	70	0	6	24	1.10
9075677--9075729	16	3.2	15	80	17	52	41	0	1	56	1.10
9075652--9075755	44	2.3	44	82	6	129	35	1	5	56	1.34
9082235--9082334	47	2.1	47	88	7	148	23	22	23	32	1.98
9087877--9088360	45	10.8	45	80	0	529	30	18	25	26	1.98
9087877--9088360	90	5.4	90	89	1	657	30	18	25	26	1.98
9087877--9088360	135	3.6	135	83	0	628	30	18	25	26	1.98
9088393--9088434	22	1.9	22	95	0	75	35	14	30	19	1.91
9092180--9092363	63	2.9	62	79	4	190	35	31	8	25	1.85
9101390--9101430	21	2.0	21	90	0	64	29	21	29	19	1.98
9107084--9107135	26	2.0	26	88	0	77	44	1	3	50	1.31
9107112--9107156	21	2.1	21	83	0	54	44	4	4	46	1.43
9108796--9108871	20	3.7	20	74	13	57	68	1	3	26	1.15
9108796--9108843	22	2.2	22	88	7	71	72	0	4	22	1.01
9108779--9108862	42	2.0	40	82	8	98	66	2	3	27	1.20
9108818--9108882	19	3.3	19	82	8	60	64	4	4	26	1.32
9108988--9109018	16	2.0	16	93	6	55	70	9	0	19	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9114153--9114193	21	2.0	21	90	0	64	29	21	29	19	1.98
9119997--9120039	22	2.0	22	95	0	77	9	20	27	41	1.83
9120103--9120498	43	9.2	43	72	3	289	27	28	19	24	1.99
9120103--9120498	86	4.6	86	83	4	410	27	28	19	24	1.99
9120835--9120923	21	4.4	21	80	8	85	4	42	19	33	1.71
9120914--9121043	69	1.9	70	88	7	203	13	26	19	40	1.89
9121525--9121586	30	2.1	30	100	0	124	17	19	16	46	1.84
9126482--9126598	16	7.8	16	66	25	67	33	2	18	45	1.63
9126493--9126565	25	2.7	25	81	10	74	34	2	16	46	1.61
9126550--9126978	9	49.7	9	68	20	111	39	2	13	44	1.56
9126552--9126699	34	4.4	33	72	16	108	37	1	18	42	1.59
9126552--9126699	16	8.9	16	75	11	104	37	1	18	42	1.59
9126838--9127048	22	10.1	22	69	22	107	39	2	10	47	1.51
9126805--9127422	65	9.8	64	76	18	466	40	2	10	47	1.51
9126836--9127416	9	62.6	9	66	23	83	39	2	10	47	1.51
9126716--9127510	221	3.5	222	81	13	866	40	2	11	46	1.52
9127010--9127063	22	2.3	22	87	9	72	40	1	11	46	1.50
9126947--9127409	94	5.0	94	81	13	607	40	1	9	47	1.48
9127059--9127222	22	7.7	22	68	22	91	38	3	10	46	1.57
9127321--9127397	38	2.0	38	100	0	154	41	0	7	50	1.31
9126887--9127443	94	5.9	93	79	12	568	40	2	10	46	1.50
9127430--9127482	16	3.3	16	79	12	56	32	1	22	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9127433--9127479	23	2.0	23	95	0	85	31	2	21	44	1.64
9130431--9130502	37	1.9	38	91	2	119	34	43	1	20	1.61
9132331--9132650	41	7.8	41	76	11	237	34	25	23	17	1.96
9132331--9132650	82	3.9	82	82	5	317	34	25	23	17	1.96
9132330--9132650	123	2.6	120	82	7	344	33	25	23	17	1.96
9133057--9133087	15	2.1	14	94	5	53	61	0	0	38	0.96
9135527--9135564	18	2.3	16	86	13	51	36	13	21	28	1.91
9135531--9135567	18	2.1	18	100	0	74	32	10	21	35	1.88
9141369--9141405	19	1.9	19	88	0	56	70	16	0	13	1.17
9145007--9145042	3	12.0	3	100	0	72	66	0	0	33	0.92
9145742--9145789	24	2.0	25	87	4	71	52	0	10	37	1.36
9145896--9145929	15	2.3	15	89	0	50	50	0	2	47	1.16
9152577--9152632	29	1.9	29	88	0	85	25	16	39	19	1.91
9157622--9157661	20	2.0	20	90	0	62	27	10	12	50	1.72
9157607--9157673	34	1.9	35	90	3	109	31	8	13	46	1.74
9157601--9157677	14	5.0	15	71	20	52	33	9	14	42	1.77
9172416--9172455	6	6.7	6	97	0	71	37	12	0	50	1.41
9187502--9187647	37	4.0	37	92	1	233	25	21	16	36	1.94
9187611--9187833	52	4.6	46	87	7	284	28	22	14	34	1.93
9187700--9187733	7	4.7	7	88	3	50	26	26	2	44	1.69
9190958--9191152	49	4.0	49	93	0	309	31	29	14	24	1.95
9192405--9192550	37	4.0	37	92	1	233	25	21	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9192514--9192736	52	4.6	46	86	7	266	29	22	13	34	1.92
9192603--9192636	7	4.7	7	88	3	50	26	26	2	44	1.69
9192514--9192736	98	2.3	98	81	9	260	29	22	13	34	1.92
9195391--9195610	88	2.5	86	78	11	223	30	26	14	28	1.95
9195375--9195606	44	5.3	44	74	8	186	29	26	14	29	1.95
9202621--9202696	29	2.6	29	82	15	95	26	11	10	51	1.71
9217630--9217696	7	8.7	7	72	18	53	34	1	1	62	1.13
9217630--9217693	24	2.7	22	79	13	74	35	1	1	60	1.15
9223620--9223678	21	2.8	20	80	14	57	54	3	1	40	1.27
9223660--9223726	11	6.4	11	75	18	54	61	0	2	35	1.12
9223651--9223744	40	2.4	39	91	5	161	65	0	2	31	1.04
9225356--9225488	66	2.0	66	100	0	266	40	6	16	36	1.73
9226138--9226189	3	17.3	3	76	7	52	36	3	1	57	1.28
9226138--9226189	24	2.2	24	86	6	70	36	3	1	57	1.28
9228165--9228190	13	2.0	13	100	0	52	30	7	15	46	1.74
9231090--9231159	7	9.7	7	83	10	88	68	0	18	12	1.20
9231100--9231166	21	3.2	20	83	8	89	68	0	17	13	1.21
9232360--9233008	132	4.9	132	91	0	994	28	17	24	29	1.97
9233181--9233391	44	4.8	44	69	4	147	33	18	22	26	1.97
9233072--9233451	132	2.9	131	88	3	539	31	18	22	27	1.97
9233097--9233499	132	3.1	129	82	7	393	31	19	22	27	1.98
9235010--9235061	3	17.3	3	76	7	52	36	3	1	57	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9235010--9235061	24	2.2	24	86	6	70	36	3	1	57	1.28
9258122--9258175	28	2.0	27	85	10	74	24	12	5	57	1.57
9264025--9264066	20	2.0	21	86	4	59	26	2	11	59	1.45
9267936--9267970	3	11.7	3	100	0	70	65	0	0	34	0.93
9275496--9275777	125	2.3	125	88	4	426	29	15	21	32	1.94
9277648--9280218	856	3.0	856	97	0	4881	27	19	25	27	1.99
9280633--9281033	29	13.7	29	85	3	507	29	1	24	44	1.64
9280633--9281033	59	6.8	59	89	2	531	29	1	24	44	1.64
9280625--9281023	148	2.7	146	92	2	690	30	1	24	43	1.64
9281319--9281374	24	2.3	24	93	0	94	19	16	35	28	1.93
9282625--9282719	39	2.4	39	96	0	163	44	16	3	35	1.64
9282649--9282713	22	3.2	22	70	20	68	47	16	4	30	1.67
9282655--9282716	19	3.2	19	70	20	65	45	16	3	35	1.63
9282635--9282697	20	3.2	20	70	20	60	46	12	3	38	1.58
9282755--9282800	9	5.1	9	89	0	65	13	39	10	36	1.79
9285253--9285372	42	2.9	42	87	5	197	41	3	5	50	1.41
9286240--9286284	8	6.1	8	75	19	53	64	11	0	24	1.26
9289031--9289089	30	2.0	29	90	6	93	57	1	0	40	1.09
9289123--9289173	22	2.3	21	83	9	66	33	0	33	33	1.58
9289842--9289872	15	2.0	16	93	6	55	16	0	12	70	1.16
9299871--9299984	60	1.9	61	88	1	176	34	17	11	36	1.86
9300048--9300195	60	2.5	60	84	6	183	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9303349--9303405	30	1.9	30	85	7	80	38	3	0	57	1.16
9305163--9305226	29	2.2	29	85	2	83	62	6	6	25	1.42
9306076--9306129	19	2.8	19	82	0	72	38	11	14	35	1.82
9306336--9306380	23	2.0	23	81	0	54	22	0	15	62	1.33
9311953--9312603	88	7.4	88	88	1	955	29	27	22	19	1.98
9311953--9312597	263	2.4	264	89	1	954	29	28	22	20	1.98
9312614--9312734	43	2.8	44	83	7	149	27	17	26	28	1.97
9311963--9312617	351	1.9	351	89	1	891	29	28	22	19	1.98
9313311--9313408	44	2.2	44	78	3	99	34	19	15	30	1.93
9313440--9313599	45	3.6	45	83	4	171	30	23	21	25	1.99

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   186   187   188   189