genome.fa.s4.2.7.7.80.10.50.1000.4.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: Chr7
Parameters: 2 7 7 80 10 50 1000
Length:  55462051

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   

This is table  4  of  163  ( 19464 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)
1007342--1007397	26	2.2	26	80	6	60	35	25	3	35	1.73
1008202--1008239	20	1.9	20	94	0	67	34	2	0	63	1.09
1008203--1008250	20	2.4	20	86	6	62	37	2	0	60	1.09
1010621--1010804	98	1.9	98	97	0	350	35	26	11	26	1.90
1011320--1011526	112	1.8	113	84	5	285	49	5	11	33	1.62
1014642--1014715	38	2.0	38	87	7	109	29	17	21	31	1.96
1017125--1017149	13	1.9	13	100	0	50	24	0	12	64	1.27
1020322--1020380	31	2.0	30	86	6	84	42	11	8	37	1.72
1020315--1020383	31	2.4	27	79	13	75	40	13	8	37	1.75
1023610--1023655	22	2.1	22	100	0	92	32	8	13	45	1.73
1024507--1024531	13	1.9	13	100	0	50	24	0	12	64	1.27
1027134--1027171	14	2.7	14	80	11	51	44	0	0	55	0.99
1030756--1030816	26	2.3	26	75	13	61	54	0	1	44	1.10
1036759--1036810	18	2.7	21	74	17	58	57	1	0	40	1.10
1042084--1042118	12	2.9	12	100	0	70	17	0	0	82	0.66
1042084--1042118	18	1.9	18	100	0	70	17	0	0	82	0.66
1045385--1045439	11	4.8	12	77	20	55	54	12	16	16	1.71
1045391--1045439	23	2.1	23	100	0	98	51	14	16	18	1.77
1045736--1045783	25	2.0	25	83	4	62	37	12	25	25	1.91
1058520--1058545	3	8.7	3	100	0	52	65	0	0	34	0.93
1060841--1060870	2	15.0	2	100	0	60	0	50	0	50	1.00
1063808--1063860	13	4.1	13	85	0	79	37	26	5	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063797--1063852	26	2.2	26	80	6	60	35	25	3	35	1.73
1064628--1064665	20	1.9	20	94	0	67	34	2	0	63	1.09
1065749--1065785	18	2.1	18	94	0	65	45	8	10	35	1.69
1073361--1073385	13	1.9	13	100	0	50	28	0	8	64	1.22
1073541--1073575	8	4.4	8	96	0	61	42	0	11	45	1.40
1075561--1075654	23	4.3	23	72	10	97	23	25	6	44	1.77
1087124--1087205	43	1.9	43	85	5	112	31	29	18	20	1.96
1095338--1095395	28	2.1	28	96	0	107	46	13	17	22	1.83
1100200--1100249	25	2.0	25	96	0	91	52	6	4	38	1.45
1100277--1100355	28	2.8	28	77	9	90	43	0	3	53	1.19
1112312--1112347	18	2.0	18	100	0	72	55	5	5	33	1.46
1113446--1113707	132	2.0	133	99	0	517	25	12	25	35	1.92
1115158--1115207	26	2.0	25	88	4	73	38	8	16	38	1.78
1115869--1115903	2	17.0	2	94	5	61	48	2	0	48	1.16
1116618--1116676	21	2.8	21	89	0	91	38	16	25	18	1.92
1116595--1116676	42	2.0	39	86	6	110	43	15	23	17	1.87
1118831--1118870	12	3.1	13	89	7	55	82	0	15	2	0.77
1118832--1118870	17	2.2	19	86	9	55	82	0	15	2	0.79
1118833--1118871	13	3.0	13	88	7	53	79	0	17	2	0.84
1119995--1120045	18	2.7	18	85	8	66	50	0	25	23	1.49
1122017--1122050	6	5.5	6	86	6	50	0	14	0	85	0.60
1133169--1133203	18	1.9	18	94	0	61	31	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133630--1133687	22	2.5	23	83	5	64	50	1	3	44	1.29
1133676--1133818	68	2.1	67	93	2	252	41	4	9	44	1.57
1133760--1133787	9	3.1	9	100	0	56	32	0	10	57	1.33
1135881--1136010	64	2.0	64	96	0	242	27	15	20	36	1.92
1138395--1138474	33	2.4	33	85	4	108	16	41	15	27	1.88
1139133--1139217	27	3.1	27	77	3	82	22	34	22	21	1.97
1139285--1139394	51	2.2	51	94	0	193	46	14	11	27	1.79
1143776--1143853	32	2.5	30	81	6	84	38	11	7	42	1.70
1144449--1144493	16	2.7	17	82	6	56	0	55	0	44	0.99
1144876--1144943	1	68.0	1	94	0	109	0	0	4	95	0.26
1144859--1144934	36	2.1	37	92	2	127	0	2	9	88	0.62
1148523--1148555	11	3.3	10	88	12	50	57	0	0	42	0.98
1150119--1150159	3	14.3	3	80	10	50	26	2	0	70	0.99
1150248--1150296	25	2.0	25	91	0	80	28	16	4	51	1.63
1150339--1150385	17	2.9	17	84	12	64	25	2	4	68	1.19
1151869--1151914	20	2.3	20	77	3	58	52	0	0	47	1.00
1152368--1152586	73	3.0	73	97	0	402	25	8	27	39	1.84
1155761--1155805	22	2.1	21	84	12	56	53	2	0	44	1.13
1164304--1164356	21	2.4	21	73	17	54	41	3	7	47	1.50
1168173--1168212	21	1.9	21	84	0	53	35	7	5	52	1.51
1173741--1173769	14	2.0	15	93	6	51	41	10	0	48	1.37
1176109--1176155	20	2.3	20	85	7	60	57	4	2	36	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176108--1176163	20	2.7	21	78	13	53	57	7	1	33	1.37
1176355--1176399	22	2.0	22	83	8	56	33	6	4	55	1.46
1177422--1177453	16	2.0	16	100	0	64	37	6	12	43	1.68
1183234--1183259	2	13.0	2	100	0	52	0	0	50	50	1.00
1183259--1183301	2	21.5	2	100	0	86	48	0	51	0	1.00
1193711--1193742	17	1.9	17	93	6	57	46	0	0	53	1.00
1196149--1197652	751	2.0	753	99	0	2994	41	8	8	41	1.64
1199801--1199841	20	2.0	20	85	0	55	43	14	2	39	1.59
1199933--1199993	19	3.2	19	73	13	63	42	18	6	32	1.76
1199933--1200009	20	4.0	20	75	12	72	40	18	5	36	1.73
1199962--1200145	76	2.4	77	84	3	246	36	12	5	44	1.67
1200042--1200082	20	2.0	20	90	0	64	34	9	4	51	1.56
1201212--1201259	17	2.9	17	90	3	71	27	0	18	54	1.44
1209304--1209344	20	2.0	20	85	0	55	43	14	2	39	1.59
1209436--1209496	19	3.2	19	73	13	63	42	18	6	32	1.76
1209436--1209512	20	4.0	20	75	12	72	40	18	5	36	1.73
1209465--1209648	76	2.4	77	84	3	246	36	12	5	44	1.67
1209545--1209585	20	2.0	20	90	0	64	34	9	4	51	1.56
1210715--1210762	17	2.9	17	90	3	71	27	0	18	54	1.44
1211989--1212173	46	4.0	46	88	5	259	36	10	26	27	1.89
1216962--1217146	46	4.0	46	90	1	275	27	25	10	36	1.88
1219441--1219512	30	2.4	30	83	0	90	31	12	26	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221317--1221549	46	5.6	45	82	11	243	27	22	14	35	1.93
1221403--1221513	37	3.0	37	90	2	179	27	22	13	36	1.92
1221404--1221513	36	3.0	36	91	1	175	27	21	13	37	1.91
1228400--1228438	19	2.0	20	85	5	53	48	0	12	38	1.42
1229487--1229520	2	17.0	2	100	0	68	50	0	0	50	1.00
1232803--1232847	23	2.0	23	86	4	65	42	2	0	55	1.12
1232898--1232942	17	2.6	17	80	13	56	64	0	0	35	0.94
1234341--1234379	21	2.0	20	85	10	53	17	12	15	53	1.72
1244604--1244650	20	2.2	21	85	11	60	23	23	0	53	1.47
1247993--1248050	29	2.0	29	93	0	98	29	22	0	48	1.51
1250301--1250644	180	1.9	174	84	5	458	45	17	14	22	1.84
1255323--1255364	20	2.1	20	100	0	84	76	4	9	9	1.15
1257332--1257380	25	2.0	25	84	8	64	63	0	0	36	0.95
1257732--1257796	31	2.1	31	82	0	76	53	10	12	23	1.69
1260830--1260887	21	3.0	20	70	10	57	36	15	34	13	1.87
1260838--1260904	18	3.6	18	71	15	55	38	14	29	16	1.89
1260830--1260904	39	1.9	39	89	5	116	37	14	32	16	1.89
1263485--1263512	10	2.8	10	100	0	56	39	21	10	28	1.87
1263570--1263597	10	2.8	10	100	0	56	7	0	21	71	1.09
1266064--1266114	15	3.5	15	69	15	52	47	5	15	31	1.70
1270321--1270361	20	2.0	20	100	0	82	29	24	29	17	1.97
1283982--1284019	19	1.9	19	85	15	51	78	0	2	18	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287253--1287281	2	14.5	2	100	0	58	48	0	0	51	1.00
1287778--1287816	20	2.0	20	85	10	53	7	23	2	66	1.30
1293231--1293311	31	2.6	31	79	11	94	20	16	7	55	1.65
1293996--1294066	26	2.8	26	77	10	74	59	0	4	36	1.17
1293745--1294234	249	2.0	252	96	2	907	51	7	8	32	1.61
1294650--1294716	31	2.2	31	88	0	98	50	8	19	20	1.74
1302889--1302945	26	2.2	26	84	6	71	29	3	3	63	1.28
1303212--1303265	28	2.0	27	82	10	65	55	9	12	22	1.65
1303979--1304050	33	2.2	33	94	2	126	45	8	1	44	1.42
1322871--1323372	7	69.1	7	83	7	531	41	42	2	13	1.59

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