genome.fa.s18.2.7.7.80.10.50.1000.26.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   200   201   202   203   204   205   206   207   208   

This is table  26  of  208  ( 24943 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)
10102459--10102489	16	2.0	16	93	6	55	38	0	0	61	0.96
10102565--10102631	25	2.5	25	77	15	64	56	1	1	40	1.17
10102817--10102850	13	2.6	13	95	0	59	55	8	0	35	1.31
10104751--10104775	2	12.5	2	100	0	50	52	0	48	0	1.00
10107860--10107899	17	2.3	18	95	4	73	27	12	0	60	1.33
10110018--10110062	22	2.0	22	82	0	54	57	6	0	35	1.25
10110558--10110595	17	2.1	19	85	9	53	55	0	5	39	1.23
10119195--10119222	5	5.6	5	100	0	56	39	0	0	60	0.97
10130904--10130947	21	2.1	21	83	8	54	45	0	6	47	1.29
10131418--10131442	4	6.2	4	100	0	50	24	0	76	0	0.80
10137993--10138017	6	4.2	6	100	0	50	64	36	0	0	0.94
10138020--10138054	15	2.2	16	90	5	54	0	34	11	54	1.37
10143784--10143808	3	8.3	3	100	0	50	0	68	0	32	0.90
10144983--10145016	16	2.1	16	88	0	50	50	14	17	17	1.79
10147810--10147850	21	2.0	21	90	0	64	29	21	29	19	1.98
10149756--10149789	16	2.1	16	88	0	50	50	14	17	17	1.79
10154315--10154918	324	1.9	324	100	0	1208	34	13	18	32	1.90
10163974--10163998	13	1.9	13	100	0	50	48	0	0	52	1.00
10166499--10166536	18	2.1	18	95	0	67	36	21	13	28	1.91
10176336--10176381	23	2.0	23	100	0	92	56	17	4	21	1.58
10180419--10180467	23	2.1	22	82	14	55	26	4	16	53	1.61
10180490--10180536	23	2.0	23	83	4	58	27	4	4	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10180814--10180853	16	2.6	16	84	7	57	27	7	0	65	1.20
10186561--10186803	121	2.0	121	98	0	468	32	23	14	29	1.94
10188743--10188805	31	2.0	31	96	0	117	44	25	1	28	1.63
10191162--10191203	17	2.5	17	81	11	52	28	0	2	69	1.01
10194576--10194607	16	1.9	17	93	6	57	37	21	0	40	1.54
10194768--10194937	43	4.0	43	79	10	163	31	27	18	23	1.97
10194768--10194922	84	1.8	84	82	5	197	30	27	18	23	1.98
10197648--10197795	57	2.5	56	81	10	145	30	18	25	25	1.98
10198977--10199013	18	2.1	18	90	5	58	35	8	0	56	1.29
10199078--10199172	46	2.1	46	100	0	190	44	6	6	43	1.55
10199752--10200042	128	2.3	128	91	1	460	25	29	8	36	1.85
10201891--10201949	20	3.1	18	78	14	57	62	1	0	35	1.05
10202195--10202257	22	2.9	22	76	19	60	39	3	0	57	1.15
10207159--10207205	3	15.7	3	100	0	94	65	0	34	0	0.93
10207452--10207598	39	3.8	39	67	20	94	29	4	13	51	1.61
10211757--10212662	158	5.9	152	85	8	1116	31	9	8	50	1.64
10211757--10212662	309	3.0	303	84	8	1139	31	9	8	50	1.64
10212596--10212631	16	2.1	18	90	10	58	22	5	5	66	1.34
10212989--10213027	20	2.0	20	89	0	60	66	5	2	25	1.25
10213080--10213141	10	5.7	10	77	17	61	0	29	0	70	0.87
10213067--10213149	35	2.3	36	93	4	150	0	32	0	67	0.91
10213083--10213155	25	3.0	25	82	7	80	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10213087--10213153	10	6.9	10	74	19	52	0	29	0	70	0.88
10217234--10217275	10	4.2	10	76	11	50	23	0	4	71	1.05
10217227--10217275	19	2.4	21	83	10	57	20	0	6	73	1.04
10221117--10221146	16	1.9	16	93	6	53	56	0	10	33	1.32
10222793--10222846	26	2.0	27	89	10	85	46	0	5	48	1.25
10227707--10227737	8	3.9	8	91	0	53	61	0	9	29	1.28
10227813--10227864	25	2.1	25	96	0	95	40	3	9	46	1.55
10228979--10229118	66	2.1	66	94	0	253	45	13	12	27	1.80
10241491--10241640	75	2.0	75	100	0	300	38	17	14	29	1.89
10260969--10260997	4	7.2	4	100	0	58	27	24	24	24	2.00
10261196--10261231	18	2.0	18	88	0	54	47	19	11	22	1.80
10261222--10261256	17	2.1	17	94	0	61	31	11	14	42	1.81
10278003--10278038	4	9.0	4	100	0	72	50	25	0	25	1.50
10279799--10279865	30	2.2	30	100	0	134	22	8	10	58	1.59
10297259--10297364	52	2.0	52	89	3	160	46	11	2	39	1.55
10297721--10297759	20	1.9	20	84	5	51	28	10	2	58	1.44
10304096--10304392	81	3.7	80	77	9	275	22	12	35	29	1.91
10305960--10306559	228	2.6	227	89	3	905	22	12	31	33	1.91
10307067--10307139	3	24.7	3	74	13	62	35	2	2	58	1.26
10307583--10307629	10	4.8	10	78	5	51	74	2	10	12	1.16
10307592--10307633	20	2.2	19	86	4	66	73	2	14	9	1.18
10307588--10307634	24	2.0	24	83	8	60	72	2	14	10	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10315227--10315272	24	1.9	24	90	0	74	36	15	23	23	1.93
10317711--10317753	19	2.2	20	88	12	63	27	0	2	69	1.00
10317711--10317777	20	3.3	20	80	13	59	34	0	2	62	1.10
10317764--10317810	16	2.9	16	75	12	51	57	2	4	36	1.30
10321725--10321764	21	1.9	21	85	10	55	30	2	0	67	1.04
10325241--10325270	10	3.0	10	95	0	51	56	0	0	43	0.99
10328674--10328819	23	6.3	23	78	9	134	36	21	15	25	1.93
10328674--10328819	47	3.1	46	81	3	168	36	21	15	25	1.93
10328686--10328817	70	1.9	70	93	0	228	38	21	15	24	1.92
10329581--10329678	41	2.4	41	84	1	117	24	23	11	40	1.87
10344164--10344197	18	1.9	17	88	5	50	14	11	0	73	1.10
10346125--10346189	32	2.0	32	90	0	103	18	26	7	47	1.75
10350589--10350613	13	1.9	13	100	0	50	40	48	0	12	1.40
10350594--10350674	41	2.0	41	88	9	123	51	27	2	18	1.58
10350804--10350878	37	2.0	37	89	0	114	37	5	13	44	1.66
10353232--10353425	83	2.3	83	97	0	361	25	13	18	42	1.87
10363005--10363080	9	8.4	9	74	11	66	40	23	7	27	1.82
10363005--10363072	27	2.5	27	87	0	91	42	22	7	27	1.80
10363023--10363080	18	3.2	17	81	18	73	36	25	8	29	1.86
10363183--10363238	29	2.0	28	82	10	69	16	1	41	41	1.58
10367786--10367906	11	11.9	10	67	23	58	40	3	0	56	1.16
10367785--10367907	10	12.1	10	69	22	60	41	3	0	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10367778--10367903	39	3.2	39	89	8	193	38	3	0	57	1.14
10371016--10371097	40	2.0	42	85	4	114	23	26	28	21	1.99
10371238--10371294	18	2.7	22	74	20	59	50	0	0	49	1.00
10371783--10371816	17	1.9	18	94	5	61	44	5	0	50	1.26
10371865--10372174	95	3.3	96	78	10	347	38	15	2	43	1.61
10373305--10373352	21	2.2	23	85	7	64	70	0	2	27	0.98
10373305--10373354	23	2.2	23	82	7	57	72	0	2	26	0.96
10379887--10379951	24	2.7	24	87	0	94	18	18	24	38	1.93
10388671--10388721	25	2.0	25	84	0	66	37	15	27	19	1.92
10391082--10391115	17	1.9	17	88	5	50	44	5	2	47	1.42
10416869--10416962	47	2.0	47	100	0	188	31	17	21	29	1.96
10420467--10420496	9	3.3	9	90	0	51	70	6	13	10	1.34
10431390--10431451	31	2.0	31	96	0	115	24	8	9	58	1.57
10447507--10447531	10	2.5	10	100	0	50	52	20	0	28	1.47
10448536--10448563	13	2.2	13	100	0	56	0	21	7	71	1.09
10448645--10448682	3	12.7	3	100	0	76	68	0	0	31	0.90
10454511--10454572	30	2.1	30	100	0	124	37	3	19	40	1.68
10457483--10457508	9	2.9	9	100	0	52	23	11	19	46	1.82
10457923--10457962	21	1.9	21	89	0	62	35	0	25	40	1.56
10458412--10458526	26	4.6	26	72	15	82	19	22	20	37	1.94
10458459--10458599	73	1.9	73	82	2	176	19	24	21	34	1.96
10465662--10465715	28	2.0	27	92	3	90	40	29	0	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10467358--10467398	17	2.6	15	81	11	55	36	7	0	56	1.27
10477993--10478022	3	10.0	3	100	0	60	66	0	33	0	0.92
10481020--10481044	3	8.3	3	100	0	50	64	0	36	0	0.94
10481478--10481541	31	2.1	30	85	2	83	40	0	4	54	1.21
10487829--10487880	21	2.4	22	84	12	63	71	15	5	7	1.29
10487833--10487880	24	2.0	24	88	4	71	70	16	6	6	1.28
10494998--10495136	46	3.0	46	94	0	242	35	9	25	29	1.87
10495535--10495642	33	3.3	33	72	14	105	25	20	17	37	1.94
10495535--10495676	66	2.2	66	90	0	221	26	21	16	35	1.95
10495567--10495675	33	3.3	33	78	5	121	27	21	16	34	1.94

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   200   201   202   203   204   205   206   207   208