genome.fa.s2.2.7.7.80.10.50.1000.4.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   

This is table  4  of  145  ( 17348 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)
1258861--1258910	20	2.5	20	80	3	64	28	2	2	68	1.12
1266394--1266426	8	4.1	8	100	0	66	24	0	0	75	0.80
1271869--1271912	22	2.0	21	82	4	52	31	2	18	47	1.61
1271963--1271998	17	2.1	18	89	5	56	52	0	0	47	1.00
1272079--1272124	22	2.1	22	95	0	83	41	6	0	52	1.27
1274989--1275050	28	2.2	28	100	0	124	30	16	6	46	1.72
1276012--1276041	15	2.0	15	93	0	51	50	0	0	50	1.00
1285504--1285542	3	13.0	3	100	0	78	33	0	0	66	0.92
1288892--1289048	84	1.9	84	89	4	246	31	7	15	45	1.74
1295262--1295306	16	2.8	16	82	0	54	60	17	0	22	1.37
1295956--1295985	8	3.8	8	95	0	51	46	0	0	53	1.00
1313471--1313539	31	2.2	31	82	10	79	34	15	11	37	1.84
1316371--1316629	83	3.1	83	67	19	244	46	2	8	42	1.47
1316300--1316642	171	2.0	172	99	0	679	46	4	7	41	1.51
1328845--1328930	9	9.4	9	85	7	93	41	24	10	23	1.85
1333810--1333834	2	12.5	2	100	0	50	48	0	0	52	1.00
1335060--1335090	2	15.5	2	100	0	62	48	0	0	51	1.00
1337970--1338043	25	3.1	25	67	11	73	47	18	9	24	1.78
1337944--1338043	47	2.1	47	96	0	182	46	21	10	23	1.81
1337948--1338022	22	3.3	22	69	10	69	45	25	10	18	1.82
1340710--1340798	39	2.2	41	88	5	130	53	7	0	38	1.30
1341956--1342054	52	1.9	52	80	0	117	36	31	11	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345437--1345462	3	8.7	3	100	0	52	69	0	30	0	0.89
1346655--1346722	29	2.3	30	77	10	77	38	8	10	42	1.70
1351630--1351685	29	2.0	28	86	10	80	50	3	0	46	1.19
1357477--1357514	17	2.4	17	82	8	53	42	7	2	47	1.46
1363264--1363305	19	2.1	21	82	8	52	47	2	2	47	1.28
1363803--1363835	6	5.3	6	92	7	57	81	0	0	18	0.68
1363700--1363891	108	1.8	102	84	6	258	39	15	21	23	1.92
1375258--1375316	31	1.9	31	86	3	84	40	5	13	40	1.67
1375837--1375861	6	4.2	6	100	0	50	52	16	0	32	1.44
1376016--1376202	66	2.8	66	95	1	331	37	16	24	21	1.93
1378788--1378845	29	2.0	28	83	12	73	46	10	5	37	1.60
1378828--1378878	23	2.3	22	75	3	57	56	1	1	39	1.22
1380139--1380192	27	2.0	27	88	0	81	40	5	11	42	1.64
1382296--1382323	4	7.0	4	100	0	56	50	0	25	25	1.50
1388275--1388337	27	2.3	27	81	10	83	42	7	6	42	1.59
1394032--1394116	42	2.0	42	88	2	125	20	14	15	50	1.77
1396638--1396681	13	3.3	13	82	17	63	34	2	20	43	1.64
1396637--1396682	14	3.4	14	77	17	60	32	2	19	45	1.62
1401423--1401754	177	1.9	177	87	1	486	34	19	18	27	1.96
1402873--1402928	19	2.8	20	82	10	71	30	25	7	37	1.82
1402894--1402935	20	2.1	20	90	0	66	30	28	4	35	1.78
1403622--1403731	57	1.9	56	90	1	175	29	15	4	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403642--1403731	26	3.1	29	72	20	98	28	17	4	48	1.66
1407841--1407907	33	2.0	33	100	0	134	50	25	2	20	1.62
1409251--1409279	14	2.1	14	100	0	58	62	0	27	10	1.28
1410955--1410988	16	2.0	18	88	11	54	67	0	0	32	0.91
1416400--1416445	22	2.1	22	87	0	65	19	15	13	52	1.75
1441558--1441587	12	2.5	12	94	0	51	33	0	3	63	1.11
1447281--1447324	19	2.2	21	92	8	74	22	15	9	52	1.71
1448814--1448847	15	2.3	15	85	14	52	35	0	0	64	0.94
1448816--1448847	14	2.2	15	94	5	57	34	0	0	65	0.93
1455929--1456023	23	4.1	23	86	0	127	23	28	4	44	1.72
1461216--1461309	23	4.1	23	85	0	125	22	27	4	45	1.71
1471732--1471787	26	2.2	26	90	6	87	16	17	21	44	1.86
1471740--1471860	25	4.9	25	67	12	63	19	23	22	35	1.96
1474205--1474249	23	2.0	23	90	0	72	73	0	8	17	1.08
1484397--1484421	2	12.5	2	100	0	50	52	0	0	48	1.00
1484962--1484993	2	16.0	2	100	0	64	50	0	0	50	1.00
1487005--1487038	2	17.5	2	93	6	61	0	50	0	50	1.00
1487456--1487483	2	14.0	2	100	0	56	50	0	0	50	1.00
1488152--1488179	2	14.0	2	100	0	56	50	0	0	50	1.00
1490409--1490494	45	1.9	45	90	0	136	50	1	6	41	1.37
1490433--1490497	24	3.0	20	74	24	60	47	0	6	46	1.27
1490436--1490504	20	3.2	20	72	27	61	50	0	5	43	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494783--1494834	24	2.2	24	89	0	77	36	3	9	50	1.54
1496440--1496489	26	1.9	26	87	0	73	52	18	14	16	1.76
1501868--1501921	26	2.3	24	84	15	69	59	3	0	37	1.15
1503397--1503429	15	2.3	15	89	5	50	75	0	6	18	1.00
1508977--1509099	61	2.0	61	96	0	228	26	10	3	60	1.45
1508989--1509113	61	2.0	61	87	3	180	30	11	3	55	1.51
1510286--1510332	19	2.3	21	82	7	62	40	40	6	12	1.69
1510333--1510395	20	3.0	21	79	4	74	25	9	26	38	1.87
1510333--1510395	21	3.0	21	81	4	74	25	9	26	38	1.87
1510337--1510409	21	3.5	20	76	12	67	23	8	28	39	1.83
1511426--1511463	16	2.3	17	82	17	53	55	23	2	18	1.55
1512149--1512200	4	14.0	4	77	18	51	23	1	0	75	0.91
1512149--1512199	13	4.2	12	78	19	52	21	1	0	76	0.88
1512158--1512195	10	3.5	11	86	13	53	21	2	0	76	0.91
1513927--1514155	114	2.0	114	99	0	449	40	9	10	39	1.71
1526929--1526978	19	2.6	19	77	3	55	74	2	2	22	1.03
1528226--1528278	26	2.0	26	81	0	61	49	1	5	43	1.37
1528872--1528901	10	3.0	10	100	0	60	50	10	0	40	1.36
1531227--1531271	16	2.8	16	78	21	58	31	8	17	42	1.80
1546670--1546699	4	7.5	4	100	0	60	50	23	0	26	1.50
1547746--1547771	3	8.7	3	100	0	52	69	0	0	30	0.89
1548560--1548596	17	2.2	18	85	14	60	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560126--1560158	15	2.2	15	100	0	66	24	15	24	36	1.93
1574471--1574514	19	2.2	20	84	11	56	40	2	0	56	1.11
1575663--1576268	198	3.1	197	87	4	864	29	16	17	36	1.92
1580519--1580577	29	2.0	29	83	0	73	35	5	20	38	1.75
1581175--1581212	16	2.4	17	86	8	53	60	13	0	26	1.33
1584237--1584294	22	2.6	22	84	7	73	43	17	3	36	1.66
1584284--1584345	21	3.1	21	84	11	94	35	14	11	38	1.82
1586010--1586051	16	2.7	15	85	7	66	73	4	0	21	1.01
1586259--1586297	19	2.2	19	86	9	55	61	0	0	38	0.96
1587628--1587666	19	2.2	17	86	9	51	56	5	10	28	1.54
1589563--1590126	180	3.1	177	82	8	599	29	11	17	40	1.85
1593293--1593329	13	2.7	14	87	8	58	32	5	18	43	1.73
1600394--1600483	25	3.6	25	69	11	76	37	14	26	21	1.92
1600424--1600508	25	3.4	25	70	12	84	38	16	24	20	1.92
1600395--1600512	50	2.4	50	98	0	227	38	15	25	21	1.92
1603519--1603552	13	2.5	14	85	4	52	44	8	17	29	1.79
1603543--1603587	20	2.3	20	85	11	58	33	11	11	44	1.75
1614739--1614789	12	4.0	13	73	14	52	62	0	1	35	1.06
1614731--1614778	22	2.2	23	85	10	66	62	0	2	35	1.07
1616762--1616786	5	5.0	5	100	0	50	20	60	20	0	1.37
1616795--1616828	13	2.5	13	85	4	50	26	0	0	73	0.83
1617441--1617550	37	3.0	37	82	0	130	47	15	17	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628948--1628982	12	2.8	12	91	4	52	68	2	20	8	1.29
1629225--1629300	33	2.3	33	90	0	116	32	14	2	50	1.57
1629290--1629339	21	2.4	22	73	10	59	46	0	12	42	1.41
1629297--1629341	19	2.3	19	81	11	56	46	0	13	40	1.43
1646752--1646806	23	2.4	23	96	0	101	23	36	29	10	1.89
1648182--1648211	16	1.9	15	93	6	51	26	6	3	63	1.35
1649366--1649405	20	2.0	21	85	9	57	52	7	10	30	1.62
1652018--1652079	27	2.3	27	91	0	97	25	25	30	17	1.97
1652235--1652281	3	16.3	3	86	8	71	63	0	36	0	0.94
1652223--1652275	17	3.3	17	75	19	60	62	0	37	0	0.96

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