genome.fa.s25.2.7.7.80.10.50.1000.4.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   

This is table  4  of  196  ( 23409 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)
1014092--1014130	18	2.2	18	90	0	60	79	10	0	10	0.94
1014515--1014557	21	2.0	21	95	0	77	27	0	37	34	1.57
1014538--1014570	16	2.1	16	94	0	57	33	0	36	30	1.58
1014549--1014643	45	2.1	44	88	1	136	34	5	27	32	1.79
1014805--1014839	18	2.0	17	88	5	52	54	0	0	45	0.99
1014763--1014835	27	2.7	27	76	8	76	52	2	0	45	1.15
1014724--1014995	144	1.9	147	94	3	487	46	3	2	46	1.35
1014949--1014983	18	2.0	17	88	5	52	54	0	0	45	0.99
1014969--1015147	55	3.1	54	64	22	128	49	7	2	41	1.43
1014964--1015151	61	3.1	61	68	14	190	49	6	2	41	1.41
1014932--1015154	120	1.9	120	97	0	419	49	6	2	42	1.40
1015069--1015103	18	2.0	17	88	5	52	60	0	0	40	0.97
1015144--1015190	17	2.9	16	78	18	53	46	2	6	44	1.40
1015163--1015196	17	2.0	17	94	0	59	50	0	5	44	1.26
1015229--1015423	93	2.1	92	88	4	286	47	4	4	44	1.41
1023057--1023124	25	2.8	24	70	12	59	54	1	7	36	1.37
1023267--1023302	12	3.0	12	91	0	63	55	0	11	33	1.35
1024742--1024775	15	2.3	15	90	10	52	50	2	0	47	1.16
1028264--1028288	3	8.3	3	100	0	50	0	36	0	64	0.94
1029778--1029835	21	2.9	21	80	19	63	32	3	3	60	1.30
1042215--1042254	20	2.0	20	100	0	80	35	10	25	30	1.88
1045841--1045870	12	2.5	12	100	0	60	33	16	33	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052033--1052096	32	2.0	32	100	0	128	34	18	15	31	1.93
1053113--1053185	10	7.9	10	66	17	50	56	1	0	42	1.08
1053000--1053272	117	2.3	119	96	1	505	52	4	0	42	1.25
1053158--1053345	99	1.9	98	98	1	367	51	5	1	42	1.31
1053243--1053339	36	2.7	36	74	16	94	50	5	1	43	1.31
1053300--1053343	21	2.1	21	83	8	54	56	6	0	36	1.26
1060593--1060636	17	2.8	15	77	12	52	59	2	0	38	1.10
1065723--1065769	3	15.7	3	100	0	94	34	0	0	65	0.93
1078645--1078699	12	4.2	13	82	13	76	34	1	0	63	1.05
1078647--1078699	14	3.9	14	81	18	76	33	1	0	64	1.05
1078618--1078699	29	3.0	27	84	7	87	29	3	1	65	1.17
1078645--1078699	28	2.1	26	90	10	85	34	1	0	63	1.05
1078843--1079040	105	1.9	104	81	7	240	48	8	6	36	1.59
1081236--1081273	20	1.9	20	88	0	58	28	5	7	57	1.49
1081276--1081321	22	2.0	23	83	4	58	39	6	2	52	1.40
1081287--1081331	22	2.0	22	83	8	56	35	11	0	53	1.37
1081423--1081477	24	2.2	24	80	3	65	43	5	1	49	1.36
1083194--1083228	4	8.8	4	87	0	52	51	22	2	22	1.61
1089809--1089835	13	2.1	13	100	0	54	22	25	22	29	1.99
1094202--1094248	22	2.2	21	92	3	76	51	4	27	17	1.64
1100607--1100690	43	2.0	43	100	0	168	50	14	7	28	1.69
1100803--1100898	21	4.3	23	76	13	78	54	3	2	40	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102678--1102702	13	1.9	13	100	0	50	32	8	28	32	1.86
1103746--1103800	16	3.4	16	87	5	76	45	9	20	25	1.80
1103960--1104093	58	2.3	56	82	12	173	53	2	0	43	1.18
1104037--1104104	10	6.4	11	72	16	54	54	1	1	42	1.18
1107108--1107240	70	1.9	69	89	1	203	35	16	17	30	1.92
1107666--1107701	11	3.3	11	88	0	54	61	0	0	38	0.96
1107669--1107694	13	2.0	13	100	0	52	69	0	0	30	0.89
1122653--1122687	18	1.9	18	88	0	52	0	17	0	82	0.66
1126895--1126934	21	1.9	21	89	0	62	60	7	7	25	1.50
1127293--1127349	29	2.0	29	82	3	71	57	7	10	24	1.56
1128136--1128194	18	3.2	18	79	11	59	71	5	0	23	1.06
1132294--1132324	12	2.5	12	94	5	53	29	29	19	22	1.98
1140858--1140919	30	2.0	31	93	3	108	27	6	22	43	1.77
1148666--1148723	30	1.9	30	86	6	82	51	6	1	39	1.39
1159154--1159204	9	5.4	9	75	15	50	70	0	1	27	0.98
1159201--1159226	11	2.4	11	100	0	52	53	0	7	38	1.30
1159158--1159215	30	2.0	28	93	6	98	63	0	3	32	1.11
1172207--1172253	6	7.8	6	90	0	67	57	0	25	17	1.40
1172395--1172468	26	2.9	25	84	6	103	33	5	22	37	1.77
1186266--1186443	97	1.8	97	83	7	236	33	5	16	44	1.71
1189681--1189710	16	1.9	15	93	6	51	30	33	23	13	1.93
1190721--1190761	19	2.2	20	86	8	59	24	4	9	60	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194767--1194974	91	2.3	91	92	0	335	45	3	4	46	1.39
1194889--1194949	28	2.2	28	85	5	81	45	0	3	50	1.17
1194807--1194949	44	3.2	43	69	20	121	46	2	3	48	1.31
1195001--1195189	59	3.2	57	68	19	152	41	3	4	50	1.37
1195028--1195228	66	3.2	64	68	19	183	41	2	6	49	1.44
1194990--1195287	120	2.5	120	93	1	508	42	2	5	50	1.37
1195115--1195166	15	3.6	15	80	12	56	44	0	1	53	1.11
1195231--1195265	18	2.0	17	88	5	52	45	0	0	54	0.99
1195430--1195520	45	2.0	45	85	2	121	37	28	6	27	1.82
1195501--1195569	16	4.2	16	96	3	129	37	37	0	24	1.56
1195501--1195569	33	2.1	32	97	2	129	37	37	0	24	1.56
1197595--1197631	6	6.2	6	100	0	74	48	35	0	16	1.46
1201749--1201784	18	1.9	19	88	5	56	58	2	0	38	1.13
1203306--1203344	18	2.2	17	86	13	53	33	0	20	46	1.51
1203570--1203645	23	3.3	23	96	0	143	21	21	26	31	1.98
1204871--1204922	24	2.2	25	83	13	65	19	7	5	67	1.36
1207451--1207506	15	3.9	15	77	13	64	71	8	0	19	1.12
1207461--1207485	12	2.1	12	100	0	50	68	8	0	24	1.16
1207451--1207537	27	3.2	27	79	11	88	72	8	2	17	1.19
1211117--1211150	16	2.1	17	88	5	52	47	0	11	41	1.40
1212892--1212949	10	5.9	10	76	15	59	68	0	3	27	1.05
1212897--1212949	17	3.1	17	84	13	56	69	0	3	26	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217579--1217649	31	2.3	31	82	4	90	38	5	22	33	1.78
1224773--1224838	35	1.9	34	84	6	89	30	7	16	45	1.75
1226491--1226529	3	13.0	3	100	0	78	33	0	0	66	0.92
1242685--1242731	8	5.4	9	78	17	55	65	0	2	31	1.04
1242685--1242752	16	4.2	16	78	10	68	70	0	2	26	1.01
1242982--1243164	56	3.2	58	74	7	176	44	14	18	23	1.86
1244683--1244715	18	1.9	17	88	11	50	54	0	0	45	0.99
1244983--1245013	16	1.9	16	93	0	53	45	0	0	54	0.99
1245519--1245566	24	2.0	24	87	4	69	12	12	2	72	1.20
1245537--1245573	17	2.1	18	95	5	67	16	8	0	75	1.02
1256074--1256129	19	2.8	20	71	15	53	30	5	3	60	1.36
1256185--1256320	10	14.7	9	67	15	57	36	2	0	61	1.14
1264735--1264780	24	2.0	23	86	4	65	39	0	0	60	0.97
1264897--1265141	96	2.5	95	87	7	339	40	18	1	40	1.59
1264897--1265141	103	2.5	99	88	6	347	40	18	1	40	1.59
1265256--1265364	40	2.7	40	77	2	130	24	22	22	29	1.99
1273647--1273691	19	2.3	20	78	17	51	35	2	2	60	1.22
1280215--1280265	26	1.9	26	84	11	68	54	3	1	39	1.30
1281795--1281839	19	2.4	19	85	7	56	62	6	0	31	1.21
1282589--1282637	20	2.4	21	79	3	64	32	0	4	63	1.13
1282720--1282754	18	1.9	18	88	0	52	31	5	11	51	1.61
1284265--1284320	24	2.2	26	84	9	80	50	0	3	46	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284265--1284322	25	2.3	24	80	16	73	50	0	3	46	1.18
1284306--1284336	13	2.4	13	94	0	53	61	0	3	35	1.12
1284265--1284329	24	2.6	25	77	20	73	49	0	3	47	1.17
1287891--1287933	18	2.3	19	84	8	61	67	4	0	27	1.10
1288589--1288646	30	2.0	28	83	6	71	29	12	8	50	1.69
1289359--1289622	72	3.6	73	79	7	304	39	11	12	36	1.80
1293978--1294020	18	2.5	17	78	10	52	74	2	2	20	1.04
1294284--1294316	16	2.0	17	88	5	50	27	3	0	69	1.03
1294621--1294693	30	2.4	30	76	19	71	36	1	0	61	1.05
1306997--1307084	44	2.0	44	90	0	140	27	9	6	56	1.55

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196