genome.fa.s5.2.7.7.80.10.50.1000.3.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  3  of  103  ( 12320 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)
845252--845314	30	2.1	30	96	0	117	14	31	20	33	1.92
858548--858575	2	14.0	2	100	0	56	50	0	0	50	1.00
858643--858670	2	14.0	2	100	0	56	50	0	0	50	1.00
858546--858735	95	2.0	94	98	1	371	33	14	13	37	1.86
858939--859029	20	4.8	20	68	15	66	57	1	1	40	1.13
859042--859104	25	2.5	24	80	7	72	58	4	0	36	1.19
863319--863424	55	1.9	54	98	1	203	30	24	15	29	1.95
866113--866166	28	2.0	27	82	10	65	66	3	0	29	1.09
866294--866334	14	3.1	14	82	6	50	46	0	2	51	1.14
876023--876602	306	1.9	307	79	8	664	38	8	15	37	1.78
881293--881368	5	15.6	5	84	13	52	23	0	1	75	0.89
881299--881365	15	4.6	14	81	7	62	26	0	1	71	0.94
899911--900374	219	2.1	220	84	3	594	39	14	11	35	1.81
903372--903415	2	22.0	2	100	0	88	50	0	0	50	1.00
903604--903632	3	10.0	3	92	7	51	65	0	0	34	0.93
910861--910906	23	2.1	21	84	8	56	63	0	4	32	1.14
910843--910968	56	2.2	56	82	6	148	57	0	3	39	1.15
911452--911479	2	14.0	2	100	0	56	50	0	0	50	1.00
918393--918438	23	2.0	23	91	0	74	41	13	8	36	1.75
930953--930987	7	5.0	7	92	0	61	28	31	14	25	1.95
939696--939816	62	2.0	62	93	0	206	14	14	16	54	1.71
940504--940552	22	2.3	21	85	3	62	57	2	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940546--940603	27	2.3	26	82	8	66	48	5	1	44	1.35
940503--940838	112	3.0	109	73	14	289	55	2	1	39	1.24
942674--942754	38	2.1	38	97	0	153	25	12	34	27	1.92
949348--949374	13	2.1	13	100	0	54	22	0	7	70	1.12
949353--949394	19	2.2	20	83	8	52	35	0	4	59	1.19
958395--958437	23	1.9	23	90	4	70	53	0	9	37	1.33
965427--965458	12	2.7	12	90	0	55	43	0	31	25	1.55
970595--970624	14	2.1	14	100	0	60	80	6	13	0	0.91
980871--981001	64	2.1	63	82	4	156	38	16	6	38	1.76
1009609--1009673	21	3.1	21	82	8	62	30	24	15	29	1.96
1009637--1009684	21	2.3	21	85	0	60	33	35	10	20	1.87
1011157--1011199	2	21.5	2	95	0	77	2	48	0	48	1.14
1011717--1011742	3	8.7	3	100	0	52	30	0	0	69	0.89
1024832--1024881	22	2.3	22	100	0	100	48	16	20	16	1.82
1027062--1027095	14	2.3	14	90	10	50	73	0	0	26	0.83
1028196--1028263	15	4.4	15	70	22	52	32	2	0	64	1.08
1028294--1028364	33	2.2	33	85	12	101	29	1	0	69	0.98
1028313--1028383	33	2.1	34	85	12	94	30	0	0	69	0.89
1028457--1028508	22	2.2	24	83	6	63	30	7	9	51	1.62
1037151--1037179	7	4.1	7	100	0	58	13	27	41	17	1.87
1042306--1042339	17	2.0	17	88	0	50	64	8	8	17	1.47
1055974--1056036	2	32.5	2	76	17	62	49	0	1	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055951--1056022	28	2.6	29	82	10	89	48	0	1	48	1.10
1056224--1056323	29	3.6	28	76	17	84	67	7	5	21	1.34
1056334--1056380	24	1.9	25	91	4	78	21	10	0	68	1.20
1057969--1058011	18	2.4	18	100	0	86	53	4	16	25	1.62
1076382--1076485	50	2.1	50	88	0	154	26	18	22	32	1.97
1082840--1082873	17	2.0	17	94	0	59	79	0	0	20	0.73
1085551--1086708	252	4.6	252	87	2	1510	48	5	11	34	1.62
1085551--1086708	502	2.3	500	85	4	1616	48	5	11	34	1.62
1088919--1088975	30	1.9	30	89	7	89	40	3	1	54	1.28
1088914--1088982	30	2.3	29	80	11	86	39	7	1	52	1.38
1109318--1109357	21	1.9	21	89	0	62	57	0	0	42	0.98
1109472--1109518	18	2.6	18	78	15	53	55	0	6	38	1.26
1115682--1115775	38	2.5	36	80	11	91	39	7	12	40	1.72
1115794--1115829	15	2.4	15	90	0	54	16	5	2	75	1.12
1118736--1118776	19	2.1	19	86	9	55	51	0	0	48	1.00
1143585--1143862	111	2.5	110	78	9	296	43	11	10	34	1.75
1157965--1158152	95	2.0	97	88	2	281	42	10	18	29	1.82
1172092--1172132	22	1.9	22	85	5	57	39	14	24	21	1.91
1178069--1178112	2	20.0	2	82	17	52	45	4	4	45	1.44
1178733--1178770	18	2.2	18	90	9	62	65	2	0	31	1.06
1210933--1210978	18	2.5	19	82	6	60	43	0	2	54	1.12
1211016--1211115	40	2.5	40	93	3	175	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222229--1222273	22	2.0	22	83	8	56	35	17	24	22	1.95
1223529--1223708	20	8.8	20	64	18	57	67	1	2	28	1.12
1223630--1223694	18	3.9	17	76	11	64	70	0	1	27	0.96
1223633--1223705	18	3.9	18	72	15	51	73	0	1	24	0.90
1237234--1237302	35	2.0	35	97	0	129	42	20	2	34	1.67
1259508--1259641	70	1.9	70	84	0	178	47	8	8	35	1.65
1261632--1261676	22	2.0	22	82	0	54	55	6	20	17	1.64
1264571--1264626	21	2.6	22	78	21	66	58	0	0	41	0.98
1269019--1269071	26	2.0	26	81	3	61	49	1	0	49	1.12
1276081--1276123	11	3.6	12	80	20	54	51	0	0	48	1.00
1276085--1276122	14	2.9	14	85	14	55	52	0	0	47	1.00
1281689--1281718	14	2.1	14	93	0	51	50	0	0	50	1.00
1289054--1289079	2	13.0	2	100	0	52	50	0	50	0	1.00
1332046--1332072	13	2.1	13	100	0	54	37	7	18	37	1.79
1333986--1334081	48	2.0	48	100	0	192	35	20	22	20	1.96
1339074--1339136	29	2.2	30	88	5	94	44	14	20	20	1.86
1341455--1341494	15	2.7	15	100	0	80	15	0	40	45	1.46
1349519--1349544	3	8.7	3	100	0	52	30	0	0	69	0.89
1350049--1350094	16	2.8	17	74	12	51	30	2	0	67	1.03
1350334--1350372	2	19.5	2	100	0	78	51	0	0	48	1.00
1355154--1355208	27	2.0	27	85	0	74	32	20	14	32	1.92
1366977--1367006	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1380565--1380598	11	3.0	11	91	4	50	67	0	2	29	1.05
1398008--1398051	17	2.6	17	85	0	61	75	2	0	22	0.92
1398010--1398062	27	2.0	27	85	7	72	73	1	0	24	0.93
1398151--1398247	40	2.4	41	92	3	160	19	18	0	60	1.35
1399123--1399193	28	2.5	28	77	20	69	59	2	4	33	1.31
1401552--1401690	67	2.1	67	93	0	233	33	15	33	17	1.92
1403453--1403541	33	2.7	33	94	0	115	7	1	65	25	1.27
1403435--1403496	21	3.1	21	75	11	67	9	0	61	29	1.28
1403446--1403532	3	29.0	3	78	0	84	6	0	64	28	1.19
1404934--1404965	15	2.1	15	94	0	55	31	12	15	40	1.85
1404743--1404971	103	2.2	103	86	0	316	26	11	23	37	1.89
1404743--1405006	102	2.6	103	84	0	323	25	12	23	37	1.90
1419204--1419521	162	2.0	162	94	1	566	20	29	22	27	1.98
1421319--1421560	60	4.1	60	86	4	276	21	35	14	27	1.93
1443925--1443983	30	2.0	30	82	0	73	30	11	20	37	1.89
1446418--1446450	17	1.9	17	93	0	57	78	9	0	12	0.95
1453002--1453027	2	13.0	2	100	0	52	0	50	0	50	1.00
1471192--1471241	12	4.2	12	85	10	59	0	14	0	86	0.58
1471192--1471241	18	2.8	17	82	11	64	0	14	0	86	0.58
1471184--1471244	10	5.7	11	83	16	76	0	18	0	81	0.68
1471259--1471325	17	3.7	18	88	9	93	0	28	0	71	0.86
1471259--1471325	4	18.5	4	71	20	58	0	28	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1471259--1471324	28	2.3	29	84	5	91	0	28	0	71	0.87
1471188--1471346	79	2.0	77	83	7	196	1	32	2	64	1.15
1471379--1471417	13	2.7	14	88	11	53	2	33	0	64	1.08
1471717--1471766	14	3.6	13	81	10	55	22	2	0	76	0.89
1475778--1475862	21	4.0	21	87	0	134	29	27	10	32	1.90
1497318--1497344	3	9.0	3	100	0	54	33	0	0	66	0.92
1500134--1500270	27	5.0	27	81	1	112	41	7	7	43	1.60
1500134--1500270	55	2.5	54	80	1	139	41	7	7	43	1.60
1501437--1501502	30	2.2	30	81	10	73	39	0	3	57	1.14
1516899--1516924	13	2.0	13	100	0	52	46	15	7	30	1.74

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