genome.fa.s17.2.7.7.80.10.50.1000.109.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  109  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)
34372448--34372548	40	2.7	38	89	8	161	37	10	15	35	1.83
34372735--34372863	19	6.7	19	91	3	213	37	10	14	37	1.82
34372735--34372863	59	2.2	57	90	5	213	37	10	14	37	1.82
34372292--34372828	287	1.9	287	98	0	1038	32	16	18	32	1.93
34373613--34373662	25	2.0	26	88	4	75	32	8	4	56	1.47
34374337--34374531	98	2.0	98	91	0	318	28	10	23	37	1.88
34379366--34379413	20	2.4	21	82	6	64	50	0	0	50	1.00
34379661--34379704	21	2.0	21	82	8	52	11	20	4	63	1.44
34380907--34380939	14	2.4	14	94	0	57	45	21	6	27	1.75
34382298--34382367	24	2.9	24	82	4	88	47	7	5	40	1.55
34382306--34382374	24	2.9	23	82	4	75	47	7	4	40	1.51
34384653--34384766	24	4.9	24	86	8	146	50	7	3	37	1.49
34384678--34384746	21	3.1	21	84	11	93	49	8	5	36	1.58
34384659--34384766	45	2.3	45	84	7	137	50	8	3	37	1.50
34384711--34384754	14	3.4	14	76	23	60	52	9	0	38	1.33
34384966--34385118	49	3.1	49	82	3	191	35	18	13	32	1.90
34391377--34391571	85	2.3	86	85	2	259	31	17	19	31	1.95
34391351--34391650	43	7.0	43	78	4	211	32	19	19	29	1.96
34391377--34391650	42	6.4	43	79	3	227	31	19	20	29	1.97
34391377--34391650	85	3.2	85	80	6	236	31	19	20	29	1.97
34394927--34394989	24	2.5	25	82	7	74	69	3	4	22	1.21
34394974--34395008	6	5.7	6	89	3	52	82	2	0	14	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34402985--34403014	15	2.0	15	100	0	60	53	6	20	20	1.67
34406126--34406290	23	7.2	23	79	5	145	17	15	26	40	1.89
34414642--34414701	28	2.1	28	100	0	120	38	18	16	26	1.92
34417024--34417058	18	2.0	17	88	5	52	54	0	0	45	0.99
34417143--34417176	17	2.0	17	100	0	68	58	0	0	41	0.98
34417352--34417509	26	6.5	26	65	22	83	53	2	0	43	1.19
34417259--34417412	18	8.9	18	66	18	76	54	2	0	42	1.19
34417002--34417528	120	4.4	120	93	2	875	51	3	0	43	1.26
34417002--34417528	237	2.2	237	91	3	860	51	3	0	43	1.26
34421955--34422008	11	4.9	11	80	14	58	24	31	1	42	1.65
34423822--34423864	18	2.4	18	92	0	68	20	27	6	44	1.77
34424081--34424142	21	3.0	21	78	4	63	33	43	16	6	1.73
34424267--34424347	30	2.7	28	75	18	81	43	8	3	44	1.52
34427525--34428067	126	4.3	126	96	0	978	25	22	19	32	1.97
34428085--34428320	96	2.4	97	87	2	323	41	17	3	37	1.67
34428085--34428349	96	2.7	98	84	3	313	42	17	3	36	1.65
34429779--34429809	16	1.9	16	93	0	53	19	6	16	58	1.59
34433291--34433432	68	2.1	68	97	0	266	38	7	17	36	1.77
34437052--34437120	4	17.2	4	72	21	56	71	2	24	1	1.09
34437050--34437126	22	3.5	21	82	10	84	71	2	24	1	1.06
34437944--34438082	37	3.5	40	75	6	140	28	17	21	32	1.96
34440564--34440679	58	2.0	58	94	0	205	34	17	11	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34444594--34444690	48	2.0	48	97	0	185	27	14	11	46	1.79
34454930--34455016	38	2.3	38	78	4	95	39	17	4	39	1.70
34460331--34460385	7	7.9	7	100	0	110	58	0	0	41	0.98
34465264--34465378	28	4.1	28	96	0	203	26	24	26	21	1.99
34465472--34465526	26	2.1	26	89	0	83	36	23	21	18	1.95
34466616--34466662	19	2.4	18	80	19	51	72	2	14	10	1.21
34468357--34468484	25	5.1	25	73	12	84	25	23	21	28	1.99
34470241--34470311	36	2.0	35	83	10	90	36	2	5	54	1.38
34470892--34470936	21	2.1	21	87	0	63	6	17	2	73	1.15
34471545--34471582	20	1.9	20	88	0	58	50	0	10	39	1.37
34471340--34471757	146	2.8	147	86	6	567	42	4	9	43	1.57
34472766--34472791	11	2.4	11	100	0	52	42	0	7	50	1.31
34484322--34484398	35	2.2	34	82	15	88	66	2	24	6	1.28
34484933--34484965	17	1.9	17	93	0	57	81	9	3	6	0.95
34485363--34485617	42	6.1	42	84	0	330	22	18	21	37	1.94
34485363--34485617	126	2.0	126	87	1	368	22	18	21	37	1.94
34486388--34486810	151	2.8	148	87	6	606	41	4	9	43	1.57
34486765--34486843	32	2.4	33	89	2	124	40	7	3	48	1.50
34486629--34486998	182	2.1	179	94	2	654	42	4	8	44	1.55
34487558--34487594	10	3.7	10	86	13	58	18	2	0	78	0.87
34487562--34487614	20	2.7	20	85	5	63	20	5	1	71	1.16
34488126--34488235	40	2.8	39	78	10	116	43	17	18	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34488146--34488264	40	3.0	40	83	3	125	42	16	20	21	1.90
34488167--34488264	40	2.4	41	86	3	137	46	17	19	16	1.84
34488297--34488618	41	7.9	40	77	5	261	19	18	30	31	1.96
34488297--34488618	81	3.9	81	77	6	274	19	18	30	31	1.96
34488994--34489655	279	2.4	269	81	10	748	29	2	25	42	1.68
34489665--34489699	18	1.9	18	88	0	52	31	0	25	42	1.55
34489987--34490257	83	3.3	80	77	10	217	27	15	21	35	1.94
34491521--34491751	34	7.5	28	71	19	110	48	17	1	32	1.58
34491536--34491771	9	25.7	9	69	20	125	47	18	1	32	1.58
34491547--34491636	21	4.3	21	71	17	80	50	15	1	33	1.52
34491550--34491638	12	8.2	12	68	25	56	50	14	1	33	1.50
34491624--34491771	34	4.2	33	77	10	127	45	19	2	32	1.62
34492148--34492201	19	2.9	18	83	10	65	38	1	0	59	1.08
34494027--34494356	43	7.7	42	84	4	353	26	19	30	23	1.98
34494027--34494356	85	3.9	86	87	1	432	26	19	30	23	1.98
34494044--34494355	128	2.4	127	87	3	430	26	19	30	23	1.98
34495876--34495939	23	2.9	23	76	6	78	45	39	3	12	1.58
34498012--34498044	16	2.1	16	94	0	57	42	0	0	57	0.98
34506610--34506662	24	2.2	24	89	0	79	33	1	9	54	1.43
34509433--34509488	27	2.1	26	83	9	69	55	1	5	37	1.33
34509431--34509488	26	2.2	25	80	14	64	55	1	5	37	1.33
34509458--34509511	21	2.8	19	83	8	65	61	0	1	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34509477--34509542	29	2.3	29	84	5	89	63	1	0	34	1.04
34509495--34509531	19	1.9	19	88	0	56	70	2	0	27	1.01
34509477--34509542	10	6.8	10	70	17	50	63	1	0	34	1.04
34515624--34515652	6	4.8	6	100	0	58	65	17	0	17	1.27
34515735--34515801	9	7.4	9	86	0	98	25	11	22	40	1.88
34518446--34518504	30	1.9	31	82	3	75	27	20	3	49	1.65
34518663--34518713	23	2.2	23	89	0	75	31	7	17	43	1.78
34537031--34537137	51	2.1	51	91	5	173	34	22	19	23	1.96
34539754--34539807	25	2.2	25	89	0	81	22	18	5	53	1.65
34539766--34539815	25	2.0	26	96	4	93	20	20	8	52	1.71
34539896--34540187	50	5.7	50	81	6	268	22	28	20	27	1.99
34541525--34541600	31	2.4	33	82	4	93	47	34	6	11	1.66
34545557--34545687	43	3.0	43	77	10	122	30	25	18	25	1.98
34546903--34546965	33	1.9	33	83	0	81	38	12	31	17	1.87
34547398--34547428	16	1.9	16	93	0	53	45	0	12	41	1.42
34547689--34547927	132	1.8	132	84	5	322	31	16	21	30	1.96
34547820--34548019	104	1.9	104	85	0	274	36	20	17	26	1.94
34550242--34550284	17	2.5	17	96	0	77	32	37	11	18	1.87
34554666--34554710	23	2.0	23	82	8	56	42	28	4	24	1.74
34563399--34563908	251	2.0	251	98	0	984	33	16	19	31	1.94
34570417--34571122	364	1.9	365	91	0	1146	31	24	25	18	1.98
34577004--34577434	69	6.3	69	74	4	296	38	23	21	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34577004--34577254	138	1.8	138	84	0	340	37	24	22	16	1.94
34577018--34577400	206	1.9	207	82	3	486	37	24	21	16	1.93
34577385--34577490	53	2.0	53	88	0	158	38	17	21	21	1.93
34577439--34577575	69	2.0	69	82	2	168	39	22	21	16	1.92
34579531--34580337	403	2.0	403	94	0	1411	27	26	19	25	1.99
34586317--34586414	39	2.5	40	83	3	117	37	19	20	22	1.94
34587192--34587243	7	7.3	7	76	4	50	19	0	48	32	1.49
34587188--34587231	14	3.1	14	93	0	70	22	0	43	34	1.54
34589880--34589938	25	2.4	23	86	8	73	52	0	1	45	1.10
34590384--34590446	9	6.6	10	77	15	62	26	1	0	71	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