genome.fa.s9.2.7.7.80.10.50.1000.4.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: Chr2
Parameters: 2 7 7 80 10 50 1000
Length:  43198478

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   

This is table  4  of  131  ( 15627 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)
1280773--1280840	17	3.8	18	81	13	79	0	0	13	86	0.56
1280761--1280838	38	2.1	35	86	6	102	0	2	12	84	0.72
1280771--1280840	27	2.6	27	82	13	90	0	0	12	87	0.55
1287087--1287370	34	8.1	35	74	13	126	46	9	12	30	1.74
1287144--1287420	17	15.7	18	73	9	214	46	9	13	30	1.75
1287146--1287264	52	2.3	54	81	11	140	47	9	12	30	1.72
1287169--1287420	36	7.1	36	77	7	191	46	9	13	30	1.74
1287526--1287567	21	2.0	20	90	4	66	40	9	14	35	1.78
1289095--1289151	6	9.3	6	96	3	105	0	1	15	82	0.75
1289360--1289390	16	1.9	16	93	0	53	0	29	0	70	0.87
1289631--1289744	29	3.9	29	87	1	156	39	5	21	34	1.76
1289919--1289967	23	2.1	23	88	0	71	26	12	14	46	1.79
1290880--1290913	18	1.9	17	88	5	50	41	5	0	52	1.25
1294597--1294658	29	2.1	30	81	6	72	40	4	9	45	1.58
1298645--1300184	769	2.0	766	92	0	2571	32	13	16	37	1.87
1300540--1300766	42	5.4	42	87	5	307	29	20	24	25	1.99
1300883--1300916	15	2.3	15	94	0	59	58	26	5	8	1.51
1307113--1307252	12	11.8	12	70	13	92	28	2	16	52	1.55
1307062--1307244	95	1.9	95	92	0	303	26	2	17	53	1.58
1307062--1307300	95	2.5	95	83	6	227	26	2	19	51	1.61
1307445--1307522	9	8.7	9	73	16	63	38	1	15	44	1.55
1307449--1307527	16	5.0	16	75	14	74	37	1	16	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307537--1307624	34	2.6	35	89	5	135	59	3	4	32	1.35
1310727--1310778	12	4.3	12	80	4	52	30	1	5	61	1.30
1310737--1310787	3	17.0	3	83	0	66	31	3	3	60	1.33
1312192--1312242	23	2.2	23	82	10	59	49	0	1	49	1.12
1313154--1313585	229	1.9	227	85	4	591	26	23	19	30	1.98
1312987--1313585	115	5.2	112	74	10	448	27	22	19	30	1.98
1313003--1313597	114	5.2	112	74	8	393	27	22	19	31	1.98
1313536--1313676	75	1.9	75	87	0	210	26	21	17	34	1.95
1313527--1313694	75	2.3	75	79	5	196	25	23	17	33	1.96
1313611--1313879	112	2.4	111	80	6	292	26	21	16	34	1.95
1319645--1319702	30	1.9	31	85	3	82	27	17	15	39	1.90
1328647--1328696	15	3.5	13	78	19	55	68	2	2	28	1.12
1330342--1330401	30	2.0	30	100	0	120	56	13	13	16	1.67
1331823--1331861	20	1.9	21	84	5	53	51	5	5	38	1.46
1332235--1332284	1	50.0	1	91	0	64	4	4	0	92	0.48
1332219--1332270	24	2.2	24	85	0	68	11	9	1	76	1.09
1335779--1335942	88	1.8	91	82	8	212	22	12	13	51	1.75
1338159--1338480	160	2.0	161	99	0	637	30	8	7	53	1.58
1343004--1343044	17	2.6	15	82	14	55	68	0	0	31	0.90
1343999--1344061	4	15.8	4	96	0	117	74	0	23	1	0.90
1350658--1350717	32	1.9	31	82	3	75	46	0	0	53	1.00
1351292--1351507	108	2.0	108	97	0	405	36	20	15	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357785--1357809	11	2.3	11	100	0	50	56	0	0	44	0.99
1357920--1357981	22	2.7	22	82	9	63	33	11	4	50	1.60
1361245--1361306	31	2.0	31	100	0	124	16	16	9	58	1.63
1378560--1378599	18	2.2	18	86	4	53	70	2	2	25	1.13
1385115--1385151	16	2.2	18	85	9	51	62	0	2	35	1.10
1388446--1388470	11	2.3	11	100	0	50	40	16	0	44	1.47
1392186--1392248	31	2.0	31	93	0	108	33	14	11	41	1.81
1397346--1397387	2	21.5	2	82	4	50	45	4	2	47	1.36
1397699--1397735	3	12.3	3	100	0	74	67	0	0	32	0.91
1397957--1398001	15	3.0	15	83	0	54	57	0	0	42	0.98
1398376--1398413	5	7.6	5	93	0	67	60	2	0	36	1.11
1404155--1404186	3	10.7	3	100	0	64	34	0	0	65	0.93
1404731--1404780	16	3.3	15	76	18	59	64	0	0	36	0.94
1404730--1404789	29	2.0	30	93	3	104	65	0	0	35	0.93
1405502--1405540	14	2.9	13	77	7	51	23	17	0	58	1.38
1410014--1410056	11	3.7	11	81	9	50	58	0	2	39	1.11
1410328--1410383	3	19.0	3	96	3	105	66	0	33	0	0.92
1410436--1410470	17	2.1	17	88	0	52	48	17	20	14	1.81
1411939--1411968	2	15.0	2	100	0	60	0	50	0	50	1.00
1419413--1419458	24	2.0	23	84	16	60	13	15	15	56	1.68
1422395--1422425	2	15.5	2	100	0	62	51	48	0	0	1.00
1432700--1432726	6	4.5	6	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439595--1439629	3	11.7	3	100	0	70	34	0	31	34	1.58
1441297--1441351	13	4.2	13	76	19	60	47	10	0	41	1.39
1454542--1454573	6	5.3	6	100	0	64	65	0	0	34	0.93
1455654--1455803	77	2.0	76	90	4	239	35	6	14	44	1.71
1456563--1456631	20	3.5	19	77	15	70	57	5	0	36	1.22
1456567--1456647	20	4.0	20	76	12	67	55	4	0	39	1.21
1459172--1459225	19	2.9	19	89	8	76	53	9	0	37	1.33
1461150--1461180	3	10.3	3	92	0	53	32	3	0	64	1.09
1477324--1477579	124	2.1	124	86	3	354	30	16	21	31	1.95
1479182--1479261	23	3.3	23	80	16	97	31	1	21	46	1.59
1479093--1479261	28	6.2	28	79	10	188	31	1	22	44	1.63
1479453--1479760	28	11.0	27	75	15	254	32	1	20	45	1.61
1479477--1479595	52	2.3	50	84	5	148	31	3	21	43	1.69
1479579--1479689	33	3.4	33	97	0	204	30	0	22	46	1.52
1479647--1479712	23	2.8	23	88	2	96	28	0	24	46	1.52
1479483--1479760	146	1.9	140	85	7	371	30	1	21	45	1.62
1483466--1483492	10	2.7	10	100	0	54	92	0	0	7	0.38
1484521--1484565	24	1.9	23	86	13	65	71	2	17	8	1.23
1484608--1484680	12	6.1	12	73	17	53	61	1	24	12	1.39
1489537--1489570	15	2.3	15	90	5	52	67	5	0	26	1.13
1489661--1489727	31	2.2	31	89	5	100	67	0	1	31	1.00
1489669--1489709	21	2.0	21	85	0	55	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489761--1489808	22	2.2	22	85	7	62	35	4	29	31	1.76
1489770--1489811	22	1.9	22	95	0	75	35	2	33	28	1.70
1489783--1489841	30	2.0	30	96	0	109	35	0	35	28	1.58
1489760--1489862	52	2.0	52	94	0	179	35	1	32	30	1.69
1489813--1489862	22	2.3	22	96	0	91	38	0	34	28	1.57
1491721--1491786	31	2.2	30	83	8	80	27	4	16	51	1.64
1497169--1497405	118	2.0	119	99	0	467	49	11	7	31	1.67
1504799--1504859	16	3.4	19	72	22	51	49	0	26	24	1.51
1508963--1508996	17	2.1	16	94	5	59	23	35	0	41	1.55
1510979--1511007	11	2.7	11	94	5	51	89	0	10	0	0.48
1528419--1528577	79	2.0	80	98	1	311	37	6	12	44	1.68
1528759--1528796	19	2.1	18	85	9	51	55	0	0	44	0.99
1529632--1530382	376	2.0	377	99	0	1495	38	10	9	41	1.73
1531136--1531207	30	2.4	30	90	0	117	38	8	15	37	1.77
1536072--1536136	31	2.1	30	85	2	85	35	13	12	38	1.83
1544276--1544432	60	2.6	60	80	7	172	15	15	18	50	1.78
1547434--1547752	161	2.0	161	97	0	602	30	12	18	38	1.88
1550813--1550897	9	9.2	9	84	5	116	35	32	11	20	1.89
1550811--1550900	29	3.2	29	85	6	130	37	31	11	20	1.87
1551547--1551618	37	2.0	37	83	8	94	48	13	4	33	1.62
1551647--1551705	24	2.5	24	94	0	100	30	27	0	42	1.56
1554743--1554776	16	2.1	16	100	0	68	50	11	0	38	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554743--1554786	16	2.6	16	89	7	52	47	11	0	40	1.39
1555643--1555681	15	2.5	16	83	8	53	25	5	33	35	1.78
1557897--1557983	25	3.5	25	88	0	129	21	21	16	40	1.91
1560311--1560470	85	1.9	85	82	0	203	27	15	19	38	1.91
1561645--1561696	21	2.5	21	96	0	95	32	17	21	28	1.96
1565498--1565686	70	2.8	67	85	6	258	42	6	7	43	1.58
1574845--1574875	14	2.2	14	94	0	53	48	0	6	45	1.28
1579707--1579758	24	2.3	22	75	18	54	71	0	9	19	1.13
1580753--1580931	75	2.4	75	81	5	220	23	25	24	26	2.00
1582075--1582110	18	2.0	18	94	0	63	33	13	22	30	1.93

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