genome.fa.s16.2.7.7.80.10.50.1000.5.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: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  5  of  170  ( 20315 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)
1421624--1421672	22	2.2	21	86	10	71	36	0	4	59	1.17
1422723--1422772	17	2.7	20	78	18	70	10	0	44	46	1.37
1427362--1427411	17	2.7	20	78	18	70	10	0	44	46	1.37
1446375--1446470	48	2.0	48	97	0	183	38	4	11	45	1.60
1447421--1447511	34	2.7	34	94	0	164	41	1	16	40	1.55
1447755--1447862	49	2.2	49	93	1	180	25	14	12	47	1.79
1447913--1447993	27	3.0	27	80	5	101	23	25	27	23	2.00
1452709--1452750	13	3.3	13	96	3	77	0	28	0	71	0.86
1452817--1452857	20	2.0	20	90	0	64	29	17	43	9	1.80
1453184--1453517	124	2.7	126	87	1	485	37	17	16	28	1.91
1453184--1453520	126	2.7	124	88	0	494	37	17	16	29	1.92
1456758--1456809	21	2.5	21	84	3	70	17	21	36	25	1.94
1457069--1457111	18	2.4	18	88	0	59	44	9	25	20	1.81
1458628--1458675	14	3.2	16	80	13	59	68	0	0	31	0.90
1496002--1496046	23	2.0	23	86	0	63	35	0	11	53	1.37
1496038--1496072	6	5.8	6	86	0	52	28	2	0	68	1.04
1498044--1498076	17	1.9	17	100	0	66	48	0	9	42	1.35
1498842--1498911	27	2.5	27	79	4	77	40	35	2	21	1.68
1498828--1498893	34	1.9	34	90	0	105	43	30	1	24	1.63
1498858--1498903	20	2.2	21	88	3	67	39	32	4	23	1.75
1502774--1502857	33	2.8	28	78	18	89	44	13	7	35	1.71
1503534--1503568	17	2.1	17	100	0	70	28	5	20	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505090--1505224	59	2.3	59	89	2	209	25	20	11	42	1.85
1505254--1505388	59	2.3	60	79	6	141	40	20	17	22	1.92
1506986--1507021	18	1.9	19	88	5	56	38	2	5	52	1.39
1506967--1507028	27	2.3	27	78	13	65	40	1	6	51	1.37
1507777--1507827	24	2.2	23	82	3	57	50	7	3	37	1.50
1510033--1510108	31	2.5	31	74	8	75	46	0	10	43	1.38
1517426--1517464	2	20.0	2	94	5	71	48	0	0	51	1.00
1521935--1521990	29	1.9	29	85	7	78	37	3	10	48	1.56
1523060--1523099	20	2.0	20	85	0	53	50	10	10	30	1.69
1523252--1523294	19	2.3	18	84	7	59	48	9	2	39	1.48
1529953--1530011	30	2.0	29	83	3	73	49	11	10	28	1.72
1531493--1531582	41	2.2	42	95	2	164	58	16	5	18	1.57
1536619--1536643	6	4.2	6	100	0	50	36	0	0	64	0.94
1543689--1543724	18	2.0	18	88	0	54	33	5	30	30	1.81
1545435--1545476	18	2.4	18	88	4	59	45	0	7	47	1.30
1545435--1545476	12	3.6	12	83	3	50	45	0	7	47	1.30
1548623--1548672	25	2.0	25	100	0	100	24	28	8	40	1.83
1548580--1548718	71	2.0	68	91	4	224	26	24	13	35	1.93
1548648--1548848	46	4.6	46	79	17	248	28	20	13	36	1.91
1548740--1548812	36	2.0	36	89	5	112	27	17	15	39	1.90
1548694--1548848	82	1.9	82	91	2	258	28	20	13	38	1.90
1551308--1551381	31	2.4	31	86	0	103	31	16	24	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555092--1555120	3	9.7	3	100	0	58	34	0	0	65	0.93
1557787--1557827	20	2.0	20	90	0	64	26	2	4	65	1.25
1577091--1577135	18	2.6	17	77	19	56	33	2	2	62	1.20
1584022--1584058	12	3.0	13	84	11	51	29	40	18	10	1.85
1586080--1586114	14	2.5	14	90	9	54	48	14	8	28	1.73
1597152--1597189	18	2.1	19	90	5	60	52	5	21	21	1.66
1605298--1605371	36	2.1	36	100	0	148	18	25	13	41	1.87
1607144--1607168	13	1.9	13	100	0	50	32	8	0	60	1.26
1607201--1607235	18	1.9	18	94	0	61	11	20	22	45	1.82
1610746--1610793	21	2.1	23	85	11	64	35	0	2	62	1.07
1610862--1610933	23	3.2	23	77	14	78	41	0	1	56	1.07
1610871--1610939	21	3.2	20	77	18	66	42	1	1	55	1.18
1610997--1611119	22	5.5	22	69	13	58	55	2	0	42	1.13
1610990--1611110	35	3.5	33	79	11	129	55	2	0	42	1.13
1610947--1611119	35	5.2	30	72	20	107	53	2	1	42	1.23
1611237--1611283	22	2.0	24	88	8	71	59	0	0	40	0.97
1611202--1611275	35	2.1	34	85	7	94	59	1	0	39	1.06
1615194--1615336	78	1.8	77	91	4	234	47	2	4	45	1.36
1625504--1625566	28	2.2	29	86	8	85	73	1	7	17	1.16
1628223--1628254	13	2.5	13	94	0	55	65	0	3	31	1.08
1633655--1633696	21	2.0	21	86	13	59	64	0	0	35	0.94
1635436--1635472	2	19.0	2	94	5	67	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635888--1635917	3	10.0	3	92	0	51	36	63	0	0	0.95
1640300--1640329	7	4.3	7	100	0	60	53	0	0	46	1.00
1642686--1642724	15	2.6	16	84	12	55	56	0	0	43	0.99
1653116--1653148	13	2.6	13	90	4	50	69	0	27	3	1.03
1655262--1655360	28	3.5	28	93	4	164	38	12	0	49	1.40
1655361--1655392	11	2.8	12	90	9	50	90	3	0	6	0.53
1655364--1655397	10	3.4	10	95	0	59	91	5	0	2	0.51
1655353--1655398	15	3.1	15	81	15	51	82	8	0	8	0.84
1655440--1655515	27	2.8	27	91	0	116	23	27	30	18	1.98
1655628--1655666	19	2.0	21	85	10	55	25	0	7	66	1.18
1655919--1656017	26	3.0	36	63	27	92	36	1	12	50	1.46
1655999--1656029	12	2.6	12	94	0	53	19	0	19	61	1.35
1662363--1662478	40	3.0	38	80	13	146	0	31	0	68	0.90
1662391--1662500	4	26.2	4	71	23	68	0	32	0	67	0.91
1662395--1662482	34	2.6	35	82	12	112	0	31	0	68	0.90
1662344--1662499	44	3.7	45	78	17	140	0	33	0	66	0.92
1662394--1662484	35	2.7	32	83	11	87	0	31	0	68	0.90
1662358--1662491	19	6.9	19	74	20	82	0	32	0	67	0.91
1662360--1662484	37	3.5	36	82	12	134	0	32	0	68	0.90
1662542--1662608	27	2.5	27	92	0	107	14	25	29	29	1.95
1662671--1662772	28	3.7	28	91	8	165	47	0	11	41	1.40
1665707--1665734	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665755--1665793	16	2.4	16	91	0	60	53	2	7	35	1.43
1667826--1668678	88	9.7	88	92	0	1280	26	24	21	27	1.99
1669787--1669833	21	2.2	21	88	0	67	25	38	10	25	1.88
1669916--1669968	23	2.3	23	83	6	63	13	15	0	71	1.14
1669916--1669969	16	3.6	14	83	14	63	12	14	0	72	1.13
1670782--1670843	1	62.0	1	73	0	52	0	3	9	87	0.66
1670781--1670840	13	4.7	13	85	8	63	0	5	10	85	0.75
1670784--1670841	7	8.9	7	88	7	70	0	3	10	86	0.69
1670798--1670840	6	6.8	6	92	7	68	0	0	13	86	0.58
1673459--1673515	19	2.9	20	79	10	64	45	12	17	24	1.83
1675628--1675666	16	2.4	16	91	0	60	53	2	7	35	1.43
1677909--1677976	5	13.4	5	77	20	61	42	0	0	57	0.98
1677904--1677975	31	2.4	31	79	11	85	40	0	1	58	1.07
1678226--1678270	17	2.6	17	96	0	81	64	2	33	0	1.06
1678908--1678944	19	1.9	19	88	0	56	35	0	18	45	1.50
1681232--1681954	130	5.5	128	82	7	750	36	12	19	31	1.89
1681475--1681537	24	2.5	25	89	7	92	41	12	14	31	1.83
1681237--1681942	271	2.7	260	82	5	842	37	12	18	31	1.89
1688001--1688052	26	2.0	27	81	11	63	34	9	21	34	1.86
1691474--1691505	16	2.1	16	94	5	57	46	0	0	53	1.00
1692483--1692532	17	2.7	20	78	18	70	10	0	44	46	1.37
1697122--1697171	17	2.7	20	78	18	70	10	0	44	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1698172--1698212	21	2.0	21	85	9	57	51	2	0	46	1.14
1698263--1698310	14	3.1	14	80	14	51	33	4	0	62	1.14
1700451--1700731	142	2.0	141	92	0	463	51	7	21	18	1.71
1702242--1702284	14	3.0	14	75	3	50	65	0	2	32	1.06
1710247--1710323	41	1.9	40	83	2	100	54	9	3	32	1.50
1715375--1715503	45	2.9	45	84	1	161	34	29	15	20	1.94
1725973--1726019	19	2.5	19	80	16	62	46	2	0	51	1.13
1725973--1726020	20	2.6	18	83	12	53	47	2	0	50	1.12
1725983--1726020	20	2.0	20	89	5	60	44	2	0	52	1.14
1729813--1729892	31	2.7	28	73	16	72	43	8	8	38	1.67

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