genome.fa.s17.2.7.7.80.10.50.1000.35.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  35  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)
9638384--9638761	189	2.0	189	100	0	756	26	19	13	40	1.89
9642618--9642646	13	2.2	13	100	0	58	13	13	0	72	1.13
9670405--9670543	43	3.3	43	80	6	174	30	16	23	29	1.96
9672721--9672747	13	2.1	13	100	0	54	59	0	0	40	0.98
9674006--9674041	16	2.2	16	95	0	63	38	2	5	52	1.39
9684128--9684256	41	3.1	41	93	0	231	24	28	17	29	1.97
9690646--9690678	3	11.0	3	100	0	66	33	0	0	66	0.92
9691755--9691883	41	3.1	41	93	0	231	24	28	17	29	1.97
9698347--9698505	34	4.6	34	71	5	113	20	25	23	29	1.99
9698347--9698499	69	2.2	69	83	4	202	20	25	24	29	1.99
9702540--9702786	70	3.5	70	79	6	257	34	21	21	23	1.97
9704269--9704455	70	2.7	67	82	7	205	35	20	20	24	1.96
9704401--9704537	70	2.0	70	82	2	168	40	21	15	21	1.90
9705214--9705361	58	2.6	59	82	6	171	29	12	12	45	1.79
9708400--9708651	45	5.6	45	92	2	409	32	15	23	27	1.95
9708400--9708651	91	2.8	89	92	2	407	32	15	23	27	1.95
9712775--9712820	21	2.2	21	96	0	83	52	10	10	26	1.69
9716431--9716473	19	2.3	19	100	0	86	37	9	16	37	1.81
9716432--9716492	19	3.1	19	82	13	70	39	8	14	37	1.76
9716713--9716757	23	2.0	23	81	0	54	22	0	15	62	1.33
9717194--9717256	23	2.6	25	72	10	67	34	7	0	57	1.28
9721669--9721711	20	2.2	20	91	0	68	27	6	16	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9721758--9721791	12	2.8	12	95	4	59	41	2	0	55	1.15
9727547--9727609	26	2.3	27	86	5	83	36	0	1	61	1.05
9734733--9734771	20	2.0	21	85	10	55	48	2	2	46	1.29
9737795--9737902	43	2.4	45	81	9	141	39	23	17	19	1.92
9739477--9739527	20	2.4	20	83	9	57	58	5	1	33	1.33
9739513--9739538	11	2.4	11	100	0	52	53	0	7	38	1.30
9741064--9741137	17	4.2	18	80	11	82	28	0	2	68	1.03
9741055--9741137	26	3.1	26	77	6	78	26	1	3	68	1.13
9741072--9741171	9	11.6	9	69	18	61	31	0	4	65	1.11
9741335--9741476	35	4.1	35	91	7	243	16	20	19	42	1.89
9744802--9744849	17	2.9	17	81	3	62	16	0	25	58	1.38
9745138--9745196	27	2.2	25	80	16	66	55	18	0	25	1.42
9758632--9758697	31	2.1	32	82	2	80	46	15	9	28	1.76
9758783--9758827	10	4.8	10	83	8	51	26	2	4	66	1.22
9758787--9758836	18	2.8	18	81	6	57	28	2	4	66	1.21
9759228--9759273	22	2.1	22	84	4	58	58	0	0	41	0.98
9759242--9759291	26	1.9	26	92	8	84	66	0	0	34	0.92
9773756--9773790	9	3.9	9	96	0	61	74	0	2	22	0.95
9780193--9780233	3	14.3	3	85	10	59	63	0	36	0	0.95
9780185--9780230	14	3.4	13	88	8	65	63	0	36	0	0.95
9780193--9780237	17	2.7	17	93	3	74	64	0	35	0	0.94
9780192--9780237	14	3.6	14	83	16	64	63	0	36	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9780181--9780241	17	3.6	16	84	8	68	65	0	34	0	0.93
9780181--9780232	14	3.5	15	82	14	63	63	0	36	0	0.95
9780398--9780791	22	17.9	20	65	22	100	32	0	12	54	1.42
9780566--9780872	27	12.7	27	74	21	229	31	0	13	54	1.46
9780534--9780919	49	8.1	48	77	14	379	32	0	13	53	1.46
9780538--9780777	96	2.5	97	96	2	448	31	0	12	55	1.43
9780664--9780872	115	1.8	115	97	0	400	32	0	13	53	1.46
9780538--9780920	96	4.0	96	84	11	420	31	0	14	53	1.46
9780802--9780851	22	2.5	19	76	17	55	32	2	14	52	1.53
9780398--9780796	19	22.2	19	66	23	163	32	0	12	54	1.42
9780664--9780919	115	2.1	114	90	5	359	32	0	14	52	1.48
9781068--9781149	38	2.2	38	90	0	128	56	2	3	37	1.30
9786306--9786408	27	3.8	27	89	2	145	23	36	20	19	1.95
9787718--9787777	30	2.0	31	83	9	79	41	0	38	20	1.52
9787991--9788027	9	4.1	9	92	0	65	29	10	13	45	1.77
9793438--9793534	49	2.0	47	88	6	124	30	8	11	49	1.68
9795105--9795301	44	4.7	46	65	27	125	43	1	3	52	1.26
9795494--9795837	26	13.5	25	64	24	91	42	1	4	51	1.29
9795533--9795579	23	2.0	24	84	15	64	40	2	4	53	1.32
9794906--9795801	358	2.5	357	94	3	1552	42	2	4	50	1.34
9795719--9795837	41	2.9	43	70	20	117	42	0	3	53	1.23
9795752--9795817	18	3.6	17	72	21	53	39	1	4	54	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9794906--9795735	120	6.9	120	96	0	1538	43	2	4	50	1.34
9796006--9796043	16	2.4	16	95	0	67	26	34	2	36	1.71
9799938--9800072	40	3.3	40	80	7	148	24	15	28	31	1.95
9799938--9800115	41	4.4	41	79	9	177	24	15	28	32	1.95
9799938--9800112	81	2.2	80	80	11	194	24	14	28	32	1.95
9800822--9800894	34	2.1	35	85	7	96	24	12	19	43	1.85
9800917--9800959	20	2.2	20	95	0	77	23	16	18	41	1.89
9802958--9803086	43	3.0	43	79	13	156	21	18	28	31	1.97
9804893--9804929	19	1.9	19	88	0	56	40	0	13	45	1.43
9808544--9808589	16	2.9	16	100	0	92	19	34	6	39	1.78
9809840--9809921	31	2.6	31	84	7	103	51	7	4	36	1.51
9809868--9809931	31	2.1	30	82	5	76	53	4	7	34	1.51
9819960--9820010	22	2.3	22	100	0	102	27	33	0	39	1.57
9819982--9820097	51	2.3	51	93	0	205	27	26	0	44	1.60
9822361--9822408	25	1.9	25	100	0	96	45	0	14	39	1.45
9822411--9822447	9	4.2	9	96	3	67	29	0	10	59	1.31
9822474--9822880	23	17.0	23	79	10	322	48	23	2	24	1.65
9822462--9822880	74	5.8	74	80	8	414	48	23	2	24	1.65
9822751--9822834	28	3.1	28	77	18	79	48	23	3	23	1.66
9822462--9822872	97	4.2	98	84	7	423	48	23	2	25	1.64
9822484--9822880	46	8.3	46	80	9	389	48	24	2	24	1.64
9822877--9822908	16	1.9	17	93	6	57	43	37	0	18	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9822908--9823137	115	2.0	115	91	5	376	40	10	7	41	1.66
9826097--9826442	121	2.8	122	90	4	538	32	21	17	28	1.96
9840215--9840283	29	2.4	29	83	4	88	15	21	17	44	1.86
9840292--9840361	29	2.4	30	85	4	83	10	18	24	47	1.79
9840308--9840369	29	2.1	29	88	5	90	9	17	22	50	1.75
9841195--9841253	23	2.5	24	83	2	84	49	22	1	27	1.59
9847917--9848030	24	4.6	24	71	11	86	32	21	27	19	1.97
9861798--9861836	20	1.9	21	84	5	53	69	2	23	5	1.21
9863868--9863954	45	2.0	44	84	6	113	35	4	21	37	1.74
9867750--9867782	15	2.1	16	94	5	59	36	0	0	63	0.95
9867791--9867835	20	2.1	22	88	8	67	53	0	0	46	1.00
9869018--9869060	10	4.4	10	80	13	54	67	0	32	0	0.91
9869018--9869061	19	2.2	20	88	4	63	65	0	34	0	0.93
9869190--9869321	60	2.2	59	82	8	151	31	0	9	58	1.36
9869325--9869368	21	2.1	21	95	0	79	36	11	9	43	1.72
9869939--9870111	56	3.1	56	86	3	242	32	13	11	42	1.80
9870366--9870404	16	2.4	16	95	0	69	38	0	2	58	1.12
9875886--9876003	57	2.1	57	88	0	173	50	11	16	22	1.76
9879130--9879275	72	2.0	72	97	0	274	54	14	11	19	1.71
9887594--9887653	22	2.7	23	80	14	65	48	1	3	46	1.28
9887702--9887738	9	4.0	9	89	3	56	29	0	2	67	1.04
9900383--9900420	20	1.9	19	85	15	51	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9900533--9900711	88	2.1	85	85	4	234	36	19	10	34	1.85
9900875--9900930	21	2.8	21	81	5	62	60	3	1	33	1.24
9901238--9901297	10	6.4	9	76	17	52	28	3	0	68	1.05
9901237--9901299	9	6.6	10	79	15	71	28	3	0	68	1.05
9901237--9901298	29	2.2	28	88	8	90	27	3	0	69	1.04
9901257--9901303	10	4.8	10	82	15	62	34	0	0	65	0.93
9901244--9901302	19	3.2	19	83	9	77	33	1	0	64	1.04
9901252--9901339	29	3.0	29	80	8	81	38	1	1	59	1.13
9902420--9902487	25	2.7	25	81	4	84	36	14	23	25	1.93
9902480--9902675	73	2.6	74	76	9	202	35	21	24	18	1.96

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