genome.fa.s20.2.7.7.80.10.50.1000.30.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   190   191   192   
          193   194   195   196   197   198   199   

This is table  30  of  199  ( 23844 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)
9635513--9635542	15	2.0	15	93	0	51	13	3	6	76	1.11
9642104--9642129	5	5.2	5	100	0	52	38	42	0	19	1.51
9643080--9643150	29	2.4	28	81	9	88	46	15	12	25	1.81
9643589--9643625	18	2.1	18	89	0	56	40	2	2	54	1.29
9643920--9644039	40	3.0	40	78	2	132	28	27	21	22	1.99
9644129--9644453	96	3.3	96	85	7	422	40	1	18	39	1.61
9645219--9645303	40	2.1	41	88	2	127	21	21	24	32	1.97
9648900--9648929	14	2.1	14	100	0	60	6	13	46	33	1.69
9654026--9654055	14	2.1	14	100	0	60	6	13	46	33	1.69
9658915--9658953	20	2.0	20	89	0	60	28	12	25	33	1.93
9670838--9670881	22	2.0	22	82	8	54	68	2	6	22	1.25
9672630--9672963	44	7.5	45	75	10	222	30	18	17	33	1.95
9679194--9679260	34	1.9	35	87	3	100	31	8	14	44	1.76
9680249--9680296	20	2.4	20	89	0	78	8	25	33	33	1.86
9684262--9684295	12	2.8	12	100	0	68	41	17	5	35	1.74
9684708--9684823	48	2.4	48	80	9	128	34	22	25	18	1.96
9684738--9684929	24	7.9	24	68	15	92	34	21	26	17	1.96
9684739--9684917	72	2.4	72	78	3	180	34	21	26	17	1.96
9687602--9687748	33	4.4	32	67	12	98	27	22	16	34	1.95
9687576--9687821	101	2.4	101	91	0	393	27	23	15	32	1.95
9689769--9689821	19	2.7	19	78	18	56	41	5	20	32	1.76
9691568--9691613	21	2.2	21	96	0	83	23	19	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9696673--9696755	19	4.3	19	79	14	89	54	0	2	43	1.13
9696673--9696755	38	2.1	40	84	8	109	54	0	2	43	1.13
9696669--9696774	19	5.3	20	75	12	85	56	0	1	40	1.16
9697051--9697098	21	2.3	21	86	10	64	29	4	2	64	1.23
9697092--9697126	18	1.9	18	88	0	52	17	2	0	80	0.84
9708726--9708792	30	2.2	30	89	0	98	55	28	0	16	1.42
9722001--9722048	22	2.2	22	100	0	96	37	14	31	16	1.89
9722250--9722278	4	7.2	4	100	0	58	51	24	0	24	1.48
9722216--9722667	226	2.0	226	92	3	759	42	18	13	25	1.86
9725499--9725569	31	2.3	31	80	0	79	39	2	22	35	1.69
9729242--9729300	26	2.3	26	84	0	82	35	18	23	22	1.96
9729176--9729322	26	6.0	25	71	14	76	33	17	26	22	1.96
9729799--9729830	5	6.2	5	92	7	55	40	18	0	40	1.51
9740928--9740969	21	2.0	21	85	0	57	28	7	45	19	1.76
9740905--9740975	27	2.6	27	79	0	79	28	4	47	19	1.68
9746836--9746870	18	2.0	18	88	5	54	17	5	20	57	1.60
9750672--9750733	2	32.0	2	79	6	56	48	3	3	45	1.34
9750800--9750874	3	25.3	3	76	8	73	61	4	2	32	1.28
9750886--9750973	29	3.0	29	77	9	90	61	6	14	17	1.54
9759246--9759311	21	3.1	21	80	0	78	43	16	22	16	1.87
9759238--9759366	42	3.1	42	82	0	141	44	17	18	19	1.87
9759277--9759397	21	5.8	21	75	1	109	44	19	14	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9761734--9761762	5	5.8	5	100	0	58	20	0	0	79	0.74
9764033--9764058	2	13.0	2	100	0	52	50	0	0	50	1.00
9767360--9767386	2	13.5	2	100	0	54	48	0	0	51	1.00
9768459--9768502	21	2.1	21	87	8	63	18	15	0	65	1.27
9769992--9770080	18	4.9	18	87	0	115	32	24	12	30	1.92
9769990--9770079	36	2.5	36	88	0	135	32	24	12	31	1.92
9775218--9775254	17	2.2	17	100	0	74	35	5	16	43	1.71
9778244--9778306	31	2.1	31	93	3	110	33	12	9	44	1.75
9782194--9782254	28	2.2	28	88	5	81	50	11	1	36	1.48
9787513--9787610	3	30.7	3	76	17	74	31	6	3	59	1.37
9804548--9804572	7	3.6	7	100	0	50	88	0	12	0	0.53
9804555--9804631	30	2.6	29	82	8	93	72	6	10	10	1.27
9804941--9804974	13	2.7	13	86	4	52	73	0	8	17	1.08
9806207--9806469	87	3.0	87	92	0	427	29	23	23	23	1.99
9806666--9806696	9	3.4	9	90	0	53	25	12	22	38	1.90
9806751--9806787	9	4.1	9	92	0	65	45	13	10	29	1.77
9820212--9820242	2	15.5	2	100	0	62	51	0	48	0	1.00
9824219--9824259	20	2.0	20	85	4	55	39	4	2	53	1.35
9826013--9826043	16	2.0	16	93	6	55	58	9	0	32	1.31
9826861--9826892	11	3.0	11	95	4	57	84	0	9	6	0.78
9827559--9828104	50	10.9	50	69	4	375	25	22	20	31	1.98
9827568--9828104	100	5.4	100	93	0	878	25	22	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9831741--9831791	17	2.8	18	85	5	59	80	3	11	3	0.98
9831741--9831797	30	2.0	28	86	6	78	80	5	10	3	0.98
9839797--9839839	21	2.0	21	82	8	52	37	11	4	46	1.61
9840993--9841025	16	2.0	17	88	5	50	42	0	9	48	1.35
9844603--9844637	16	2.1	17	89	5	54	54	2	0	42	1.15
9846782--9846846	25	2.6	25	88	7	89	24	27	15	32	1.95
9849530--9850145	306	2.0	306	99	0	1205	36	13	22	27	1.92
9855319--9855402	5	16.8	5	75	4	62	53	16	23	5	1.65
9855370--9855422	15	3.5	15	76	0	52	56	16	20	5	1.60
9868659--9868690	6	5.3	6	100	0	64	34	0	50	15	1.45
9868659--9868697	18	2.2	18	85	0	51	33	2	46	17	1.62
9870718--9870806	25	3.1	30	82	12	107	42	6	23	26	1.79
9875379--9875464	25	3.0	30	86	9	110	44	6	23	25	1.78
9879665--9880350	229	3.0	229	99	0	1336	30	16	16	36	1.91
9884460--9884572	56	2.0	56	89	0	172	22	34	4	38	1.74
9889090--9889134	18	2.5	18	82	7	56	33	26	4	35	1.77
9894189--9894312	66	1.9	65	81	6	151	12	26	16	43	1.85
9897495--9897534	19	2.1	19	85	0	53	45	10	0	45	1.37
9898029--9898096	21	3.3	21	62	4	57	42	16	4	36	1.68
9898031--9898115	41	2.1	41	100	0	170	40	17	4	37	1.71
9904224--9904332	43	2.5	43	88	2	148	19	18	26	35	1.95
9914206--9914308	43	2.4	43	93	0	170	23	17	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9914206--9914369	43	3.8	43	79	10	167	22	17	28	31	1.97
9918533--9918565	15	2.1	16	94	5	59	63	0	0	36	0.95
9920001--9920181	44	4.2	44	73	11	149	29	20	20	29	1.98
9920014--9921043	128	8.0	128	91	0	1585	25	20	21	32	1.98
9920321--9920927	84	7.1	83	68	14	297	24	21	21	32	1.98
9920020--9920990	44	22.7	43	66	13	216	25	20	22	31	1.98
9921291--9921348	24	2.4	24	91	0	98	27	24	13	34	1.93
9922286--9922335	25	2.0	25	92	7	84	4	24	0	72	1.02
9924017--9924060	23	1.9	22	82	17	54	38	25	0	36	1.56
9924159--9924278	23	5.2	23	89	0	195	34	25	21	19	1.96
9926933--9927040	47	2.2	49	83	6	132	32	24	15	27	1.95
9928823--9928887	32	2.1	32	97	2	123	30	9	12	47	1.72
9929449--9929527	20	4.4	19	72	26	73	73	11	15	0	1.10
9929433--9929516	11	8.0	11	72	19	54	77	8	14	0	0.99
9932657--9932720	32	2.0	32	96	3	121	31	9	12	46	1.73
9933291--9933332	20	2.0	21	86	13	61	71	14	14	0	1.15
9933294--9933368	33	2.2	33	90	6	116	74	10	14	0	1.07
9936500--9936563	32	2.0	32	96	3	121	31	9	12	46	1.73
9937148--9937210	32	2.0	32	90	6	101	74	11	14	0	1.07
9937148--9937192	23	2.0	23	86	0	63	77	11	11	0	0.99
9937128--9937209	9	9.4	9	70	15	57	73	14	12	0	1.11
9940340--9940404	32	2.1	32	94	2	114	29	9	12	49	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9941375--9941418	23	1.9	22	82	17	54	38	25	0	36	1.56
9941517--9941591	23	3.3	23	94	0	123	34	28	18	18	1.95
9945688--9945734	19	2.5	20	86	6	62	42	10	21	25	1.85
9947831--9947962	50	2.6	51	77	9	130	55	2	8	34	1.42
9947949--9948025	2	40.0	2	70	12	54	48	1	6	44	1.37
9947942--9948025	22	3.8	22	73	14	64	48	1	7	42	1.38
9948184--9948216	15	2.1	16	94	5	59	63	0	0	36	0.95
9948885--9948920	11	3.5	11	92	7	58	80	5	5	8	1.01
9953287--9953344	22	2.7	21	86	7	80	31	1	0	67	1.01
9953371--9953408	12	3.2	12	92	7	60	36	0	0	63	0.95

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   190   191   192   
          193   194   195   196   197   198   199