genome.fa.s17.2.7.7.80.10.50.1000.126.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  126  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)
39332111--39332157	24	2.0	24	82	0	58	46	8	21	23	1.78
39332056--39332205	78	1.9	78	84	2	203	40	14	21	24	1.90
39332266--39332368	54	1.9	54	85	0	143	37	19	19	23	1.94
39332396--39332529	42	3.2	42	76	2	144	40	14	20	24	1.90
39332656--39332791	54	2.5	54	84	0	164	40	19	17	22	1.91
39332496--39332880	147	2.6	149	78	6	352	41	14	18	25	1.88
39332863--39333126	42	6.4	42	77	4	169	40	15	22	21	1.91
39333113--39333289	54	3.3	52	84	5	219	35	16	22	25	1.95
39333516--39333598	39	2.1	39	86	0	112	40	16	24	18	1.90
39333544--39333826	83	3.4	83	85	3	340	37	15	25	21	1.93
39333518--39333825	42	7.5	42	80	5	297	37	15	25	21	1.93
39332493--39334114	654	2.5	641	78	5	1720	39	15	21	23	1.91
39333967--39334087	54	2.2	54	78	7	138	41	15	19	23	1.90
39334150--39334324	77	2.3	77	96	3	318	48	19	10	21	1.78
39340599--39340650	24	2.2	24	89	0	77	57	7	1	32	1.38
39341794--39341862	28	2.5	28	92	4	113	40	10	1	47	1.46
39342377--39342457	36	2.3	35	83	10	103	35	0	9	54	1.34
39343079--39343117	18	2.2	18	95	0	69	30	2	51	15	1.57
39343086--39343123	18	2.1	18	90	0	58	36	7	47	7	1.62
39347572--39347603	15	2.1	15	100	0	64	40	6	0	53	1.26
39348393--39348530	5	27.8	5	71	17	51	0	30	0	69	0.89
39348454--39348594	4	36.0	4	73	13	64	1	31	0	66	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39348393--39348563	41	4.2	39	78	16	136	0	30	0	69	0.89
39348477--39348541	19	3.3	19	66	19	51	0	32	0	67	0.91
39348423--39348563	41	3.4	43	84	13	197	0	30	0	69	0.89
39348637--39348706	27	2.6	27	81	4	88	15	25	28	30	1.96
39348637--39348715	27	2.9	27	76	0	86	15	27	27	29	1.96
39363113--39363211	49	2.0	49	96	0	180	29	17	16	37	1.91
39370844--39370877	12	2.8	12	86	4	50	76	5	2	14	1.09
39370827--39370877	25	2.0	25	82	14	61	74	5	1	17	1.11
39379021--39379134	22	5.2	22	63	16	65	50	9	2	37	1.49
39379021--39379257	44	5.4	44	93	2	386	49	10	2	37	1.52
39379186--39379255	22	3.2	22	64	22	56	47	12	1	38	1.51
39379416--39379483	35	1.9	36	87	3	102	23	29	25	22	1.99
39379673--39379755	22	3.4	24	75	22	91	62	0	14	22	1.31
39379986--39380025	21	1.9	21	89	0	62	65	2	7	25	1.32
39380064--39380108	16	2.9	15	87	9	54	66	0	11	22	1.22
39380178--39380258	23	3.3	23	78	13	83	46	0	18	34	1.49
39380194--39380266	11	6.7	10	73	16	56	50	0	19	30	1.48
39380406--39380439	6	5.8	6	96	3	61	52	0	29	17	1.45
39382986--39383402	90	4.6	90	91	2	617	52	15	7	24	1.68
39383028--39383450	180	2.3	179	86	5	541	52	15	7	24	1.69
39384067--39384279	112	1.9	109	91	3	347	31	23	20	25	1.98
39387864--39387936	10	7.0	11	76	14	75	41	1	1	56	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39387860--39387936	20	3.8	20	80	17	88	40	1	1	57	1.15
39387866--39387947	10	8.1	10	70	17	62	42	1	1	54	1.15
39388118--39388174	27	2.0	29	86	6	82	50	5	3	40	1.42
39389748--39389803	27	2.1	27	93	0	94	37	16	8	37	1.80
39392744--39392806	21	3.0	21	76	21	69	36	15	22	25	1.94
39396836--39397083	50	4.8	50	84	3	271	27	20	29	23	1.99
39398522--39398601	31	2.6	30	80	7	83	35	13	5	46	1.65
39404392--39404460	35	2.0	35	88	5	104	50	21	13	14	1.76
39413864--39413899	18	1.9	18	88	5	54	58	2	0	38	1.13
39413892--39413942	16	3.2	16	70	13	52	49	0	3	47	1.20
39413989--39414013	13	1.9	13	100	0	50	32	0	4	64	1.12
39419050--39419081	15	2.1	15	94	0	55	15	6	9	68	1.36
39426288--39426331	22	2.0	23	90	4	72	36	4	18	40	1.71
39426288--39426346	22	2.7	23	81	5	68	32	3	18	45	1.66
39427112--39427148	9	4.1	9	92	0	65	45	13	10	29	1.77
39427684--39427712	9	3.2	9	100	0	58	31	0	0	68	0.89
39449272--39449313	18	2.2	20	87	8	61	50	7	11	30	1.66
39454057--39454198	25	5.7	25	67	11	78	20	24	21	33	1.97
39454093--39454256	73	2.2	73	79	5	188	18	23	21	35	1.96
39457689--39457741	27	2.0	27	100	0	106	18	11	20	49	1.78
39472963--39473020	29	2.0	29	93	0	98	24	22	31	22	1.99
39482824--39482864	15	2.7	15	92	0	64	14	29	21	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39483704--39483739	18	2.0	18	88	0	54	25	13	13	47	1.80
39485745--39485861	44	2.7	43	78	11	121	31	26	17	24	1.97
39486282--39486325	15	3.1	14	80	12	54	43	6	0	50	1.29
39487133--39487189	21	2.7	21	97	0	105	29	8	12	49	1.70
39494593--39494629	19	2.1	19	90	10	60	56	2	10	29	1.47
39501824--39501860	19	2.0	19	89	5	58	35	0	8	56	1.29
39512122--39512213	45	2.0	45	87	4	132	31	22	18	27	1.97
39512210--39512396	51	3.7	51	82	0	223	32	28	16	22	1.96
39512217--39512399	101	1.8	102	89	1	287	32	28	16	22	1.96
39515869--39516149	138	2.0	138	94	1	492	44	7	7	40	1.62
39527869--39527994	63	2.0	63	96	0	234	30	23	20	25	1.99
39528906--39528938	15	2.1	16	88	5	50	39	12	0	48	1.40
39529167--39529219	23	2.3	23	96	0	97	30	24	20	24	1.99
39539114--39539150	17	2.2	17	95	0	65	21	45	21	10	1.82
39539983--39540025	22	2.0	22	90	9	70	46	20	9	23	1.79
39540272--39540308	18	2.0	19	89	5	58	45	29	0	24	1.53
39545266--39545300	16	2.2	16	89	0	52	37	0	25	37	1.57
39545477--39545562	23	3.7	23	83	9	93	41	1	1	55	1.14
39545506--39545543	11	3.2	13	78	21	55	42	0	0	57	0.98
39548692--39548732	15	2.8	15	85	10	50	41	9	0	48	1.36
39550016--39550113	18	5.0	18	78	20	99	0	54	7	38	1.28
39550016--39550144	21	6.3	21	76	12	108	0	55	7	35	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39550016--39550140	39	3.1	41	86	8	145	0	56	7	36	1.33
39550034--39550102	24	3.0	24	87	6	90	0	55	8	36	1.31
39550019--39550140	63	1.9	63	83	6	158	0	55	6	36	1.32
39550016--39550144	42	3.2	40	82	11	147	0	55	7	35	1.34
39550193--39550235	18	2.4	18	84	0	50	4	37	9	48	1.56
39574980--39575019	21	1.9	21	94	0	71	40	2	0	57	1.12
39576568--39576643	30	2.5	31	76	14	79	39	13	17	30	1.87
39583994--39584041	25	2.0	25	84	12	64	47	2	0	50	1.12
39587915--39587985	27	2.5	28	78	15	74	59	7	4	29	1.43
39589808--39590143	44	7.8	43	78	7	326	29	24	17	28	1.98
39589982--39590060	38	2.1	38	87	0	113	25	21	18	34	1.96
39589946--39590103	82	1.9	82	85	2	219	28	23	18	29	1.98
39589808--39590143	126	2.6	128	86	2	460	29	24	17	28	1.98
39590143--39590816	88	7.7	88	88	0	947	21	24	26	28	1.99
39590440--39590758	44	7.2	44	65	4	176	22	24	26	26	2.00
39590483--39590802	44	7.3	44	63	4	142	20	23	28	27	1.99
39597065--39597130	28	2.3	29	79	10	73	60	6	4	28	1.40
39600376--39600404	9	3.2	9	100	0	58	0	10	0	89	0.48
39608975--39609037	27	2.3	27	86	0	90	22	25	14	38	1.92
39609149--39609247	50	2.0	50	81	0	117	28	22	16	33	1.95
39614461--39614496	8	4.4	8	89	3	54	25	11	2	61	1.43
39615155--39615183	6	4.8	6	100	0	58	82	0	0	17	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39621088--39621309	67	3.3	66	92	1	365	39	1	16	43	1.56
39621258--39621351	49	1.9	49	93	0	161	36	4	20	39	1.72
39621611--39621656	23	1.9	25	82	8	60	30	28	13	28	1.94
39622685--39622709	13	1.9	13	100	0	50	48	0	16	36	1.46
39623128--39623183	29	2.0	28	82	10	69	23	7	0	69	1.12
39625834--39625873	19	2.1	20	86	9	57	15	10	12	62	1.54
39627733--39627889	42	3.7	42	77	3	147	16	22	15	45	1.85
39629432--39629463	4	8.0	4	100	0	64	75	0	0	25	0.81
39635222--39635377	42	3.7	42	75	4	145	17	20	16	46	1.84
39635221--39635375	84	1.8	84	83	2	204	16	20	16	47	1.83

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