genome.fa.s3.2.7.7.80.10.50.1000.4.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   

This is table  4  of  91  ( 10898 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)
941939--941991	2	26.5	2	100	0	106	50	0	0	49	1.00
941998--942027	2	15.0	2	100	0	60	0	0	50	50	1.00
946333--946391	26	2.3	25	77	11	66	30	13	13	42	1.83
946371--946639	24	11.2	24	83	2	189	21	15	19	42	1.89
946396--946543	50	3.0	50	83	4	192	22	14	18	43	1.87
946402--946639	72	3.3	70	82	4	217	21	15	19	43	1.88
947190--947257	29	2.3	30	74	20	72	63	2	4	29	1.29
947459--947514	15	3.7	15	82	0	67	33	21	7	37	1.81
947679--947727	17	2.9	17	75	0	53	28	2	2	67	1.13
947855--949082	252	4.9	250	82	3	1464	33	11	6	47	1.66
947855--949082	499	2.4	500	85	2	1581	33	11	6	47	1.66
950240--950264	13	1.9	13	100	0	50	48	8	0	44	1.32
952261--954006	251	7.0	250	81	5	1876	47	7	11	33	1.67
952261--954006	501	3.5	500	82	5	1943	47	7	11	33	1.67
955047--955076	14	2.1	14	100	0	60	20	0	33	46	1.51
977779--978172	199	2.0	201	81	3	463	32	9	14	43	1.78
980185--980263	38	2.1	38	92	0	131	45	7	18	27	1.77
996525--996561	19	2.0	19	89	5	58	51	0	0	48	1.00
1031177--1031225	21	2.4	20	80	12	64	18	22	4	55	1.60
1032644--1032713	28	2.5	28	86	2	97	24	10	15	50	1.75
1033545--1033644	50	2.0	50	84	0	128	44	26	13	17	1.84
1037347--1037456	55	2.0	55	98	0	211	31	20	14	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038800--1039049	137	1.8	138	91	0	412	28	8	14	48	1.74
1041502--1041774	137	2.0	136	98	0	519	24	23	14	37	1.92
1041745--1041769	2	12.5	2	100	0	50	0	48	0	52	1.00
1051722--1051755	18	2.0	16	88	11	50	29	0	0	70	0.87
1056079--1056191	52	2.2	51	91	3	181	39	10	19	30	1.85
1057182--1057214	7	4.9	7	96	3	59	57	0	0	42	0.98
1057719--1057865	52	2.8	52	87	0	204	38	9	21	31	1.85
1058293--1058348	13	4.3	13	82	10	62	75	0	0	25	0.81
1058293--1058352	17	3.5	16	72	20	50	76	0	0	23	0.78
1058300--1058351	16	3.2	16	84	7	70	75	0	0	25	0.81
1059533--1059559	3	9.0	3	100	0	54	66	0	0	33	0.92
1060866--1060912	19	2.6	18	83	12	60	46	2	2	48	1.25
1069878--1069915	2	20.0	2	89	10	62	50	0	50	0	1.00
1071057--1071097	21	2.0	21	85	0	55	60	0	4	34	1.18
1095422--1095699	124	2.2	124	85	1	369	27	23	24	25	2.00
1095701--1095799	39	2.5	39	88	0	135	24	16	18	41	1.89
1103953--1103994	22	1.9	22	95	0	75	28	26	19	26	1.98
1110200--1110238	2	20.0	2	94	5	71	48	0	0	51	1.00
1110200--1110249	18	2.8	19	85	8	52	50	2	2	46	1.24
1112053--1112086	11	3.1	11	91	8	52	17	0	0	82	0.67
1114901--1114942	17	2.6	16	81	7	50	59	7	7	26	1.50
1115023--1115071	22	2.2	23	85	10	66	48	18	6	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115165--1115203	20	2.0	20	84	0	51	48	0	5	46	1.24
1115193--1115255	24	2.6	25	75	7	67	53	6	3	36	1.42
1118476--1118619	51	2.9	50	83	7	163	30	20	17	31	1.96
1118502--1118652	45	3.2	45	80	7	151	31	19	17	31	1.96
1128071--1128109	20	2.0	20	85	5	53	35	12	23	28	1.91
1128467--1128605	27	5.1	27	82	3	154	15	31	23	28	1.96
1128443--1128562	54	2.2	53	88	2	168	17	30	22	29	1.97
1128464--1128605	54	2.6	54	83	2	178	16	31	23	28	1.96
1134112--1134176	22	2.8	23	86	11	80	44	20	6	29	1.75
1134293--1134399	25	4.2	25	71	13	83	50	7	5	36	1.54
1134293--1134353	24	2.5	25	74	12	63	50	6	6	36	1.54
1150884--1150921	15	2.5	16	91	8	62	50	18	5	26	1.68
1157845--1157882	2	19.0	2	100	0	76	50	0	0	50	1.00
1165955--1166010	24	2.3	24	79	11	60	42	0	1	55	1.10
1165996--1166038	21	2.0	22	82	13	54	48	0	6	44	1.29
1166076--1166126	22	2.3	21	80	12	50	52	1	0	45	1.12
1169627--1169665	10	3.8	10	80	6	51	51	20	2	25	1.60
1170813--1170844	2	16.0	2	100	0	64	50	0	0	50	1.00
1172641--1173039	200	2.0	199	100	0	789	32	23	11	32	1.90
1173062--1173086	9	2.8	9	100	0	50	92	0	0	8	0.40
1176106--1176296	98	1.9	99	90	1	303	30	13	15	40	1.85
1183028--1183053	2	13.0	2	100	0	52	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)
1186983--1187032	22	2.4	21	86	6	66	46	2	0	52	1.12
1186993--1187138	22	7.2	21	71	18	87	47	2	0	49	1.21
1187006--1187133	41	3.0	41	82	6	141	46	3	0	50	1.23
1187096--1187129	17	2.0	17	88	11	52	58	0	0	41	0.98
1187278--1187360	29	2.8	29	76	18	82	39	1	1	57	1.14
1188469--1188758	21	13.8	21	90	0	400	12	22	25	39	1.89
1188707--1188758	10	4.9	11	72	9	54	9	23	28	38	1.86
1189989--1190042	26	2.1	26	96	0	99	44	24	12	18	1.85
1191714--1191739	13	2.0	13	100	0	52	38	15	7	38	1.76
1192266--1192337	35	2.1	35	82	10	85	40	15	11	33	1.82
1194007--1194113	35	3.1	35	87	0	151	37	14	11	36	1.83
1201981--1202006	13	2.0	13	100	0	52	53	7	7	30	1.57
1236162--1236210	26	1.9	26	87	4	73	16	8	0	75	1.03
1241093--1241150	22	2.6	22	83	5	73	46	13	5	34	1.66
1242565--1242686	60	2.1	58	90	6	192	42	18	4	35	1.69
1244751--1244788	2	19.5	2	94	5	69	0	0	50	50	1.00
1244917--1244955	2	19.5	2	100	0	78	0	0	48	51	1.00
1244747--1245070	167	2.0	165	98	1	630	28	6	17	46	1.73
1246661--1246694	10	3.3	10	88	8	50	14	0	2	82	0.79
1249342--1249385	16	2.9	15	80	12	54	70	2	4	22	1.17
1249489--1249541	27	2.1	26	82	10	65	50	1	0	47	1.12
1252421--1252541	61	2.0	61	83	0	152	32	5	19	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252669--1252724	22	2.5	22	88	0	76	30	5	10	53	1.58
1252742--1252800	23	2.6	23	78	2	66	27	11	22	38	1.89
1258701--1258745	22	2.0	23	82	4	56	8	17	8	64	1.47
1269406--1269433	2	14.0	2	100	0	56	50	0	0	50	1.00
1269435--1269481	2	24.0	2	91	4	78	51	46	0	2	1.13
1277578--1277616	19	2.1	19	100	0	78	23	30	0	46	1.53
1280185--1280253	35	2.0	35	91	0	111	37	13	2	46	1.58
1280597--1280649	20	2.5	22	79	14	67	30	0	11	58	1.33
1281274--1281315	17	2.4	18	80	8	50	50	0	2	47	1.14
1286802--1286855	23	2.4	23	85	14	69	59	3	0	37	1.15
1288399--1288433	2	17.5	2	100	0	70	0	48	0	51	1.00
1300488--1300519	2	16.0	2	93	0	55	0	46	3	50	1.17
1322163--1322300	72	1.9	72	93	0	240	43	10	15	31	1.79
1335078--1335112	12	3.2	11	88	11	54	0	34	0	65	0.93
1338276--1338307	15	2.1	15	94	0	55	34	15	6	43	1.72
1338696--1338969	85	3.2	84	79	7	293	31	11	14	41	1.82
1343688--1343721	13	2.5	13	85	4	50	32	0	2	64	1.08
1358761--1358795	18	1.9	18	88	0	52	74	2	0	22	0.95
1378650--1378691	21	2.0	22	85	4	59	52	2	0	45	1.13
1378748--1378792	2	23.0	2	90	4	74	46	0	0	53	1.00
1378792--1378832	2	21.5	2	85	9	59	2	0	43	53	1.13
1379000--1379048	24	2.0	24	100	0	98	44	0	20	34	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394377--1394492	59	2.0	59	96	0	214	47	7	9	35	1.65
1395622--1395694	31	2.4	30	79	6	83	57	0	0	42	0.98
1403087--1403126	20	2.0	20	85	9	55	47	10	10	32	1.70
1405138--1405176	17	2.2	18	90	4	62	35	0	12	51	1.40
1414712--1414740	2	14.5	2	100	0	58	51	0	0	48	1.00
1414782--1414812	2	15.5	2	100	0	62	51	0	0	48	1.00
1414676--1414810	70	1.9	69	100	0	261	33	11	14	39	1.83
1423941--1424019	2	39.0	2	94	2	140	48	1	0	49	1.09
1425789--1426090	99	3.0	100	89	3	439	36	13	11	38	1.81
1430864--1430897	14	2.3	15	90	5	52	38	0	0	61	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