genome.fa.s7.2.7.7.80.10.50.1000.103.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   197   198   199   200   201   202   203   204   

This is table  103  of  204  ( 24458 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)
31475081--31475122	19	2.3	19	87	4	59	33	4	0	61	1.17
31476229--31476280	25	2.2	23	86	6	68	7	30	0	61	1.24
31487526--31487564	18	2.2	18	85	0	51	10	38	0	51	1.36
31497497--31497526	15	1.9	16	93	6	53	43	0	0	56	0.99
31500102--31500151	12	4.0	13	75	15	52	36	0	40	24	1.55
31501278--31501436	27	5.9	27	85	4	205	44	20	15	19	1.86
31501278--31501436	80	2.0	81	88	3	241	44	20	15	19	1.86
31510038--31510080	22	2.0	23	86	9	63	72	2	2	23	1.08
31511686--31511720	2	17.5	2	100	0	70	51	0	0	48	1.00
31512261--31512293	16	2.0	17	94	5	59	42	3	0	54	1.15
31517727--31517765	3	13.3	3	89	5	62	69	2	0	28	1.02
31520434--31520501	25	2.7	25	90	0	109	25	23	19	32	1.97
31521142--31521171	15	1.9	16	93	6	53	56	0	23	20	1.42
31521147--31521188	20	2.2	20	87	12	61	59	2	21	16	1.48
31521638--31521667	16	1.9	16	93	6	53	30	0	20	50	1.49
31522537--31522720	88	2.1	88	94	0	323	23	28	25	22	1.99
31524268--31524299	15	2.1	15	94	0	55	15	6	9	68	1.36
31528018--31528055	19	2.0	19	89	0	58	34	13	23	28	1.92
31530294--31530337	23	1.9	22	82	17	54	36	25	0	38	1.56
31530436--31530571	50	2.7	52	83	5	188	30	29	16	23	1.96
31530427--31530562	51	2.7	50	85	3	175	30	29	16	23	1.96
31533858--31533960	48	2.1	48	96	0	188	31	27	13	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31536837--31536889	25	2.0	27	82	13	67	33	5	5	54	1.47
31536962--31537034	36	2.0	37	89	2	112	46	2	1	49	1.24
31538321--31538363	4	10.2	4	84	5	50	67	2	2	27	1.15
31539250--31539296	24	2.0	24	87	4	69	12	4	31	51	1.59
31539570--31540103	44	11.9	44	72	8	310	27	20	20	31	1.98
31539570--31540109	179	3.0	178	92	2	886	27	20	20	31	1.98
31540124--31540582	143	3.2	143	90	0	684	28	22	19	28	1.98
31546123--31546154	4	8.0	4	92	0	55	71	0	3	25	1.00
31547352--31547695	179	1.9	179	89	1	528	30	18	20	31	1.96
31547660--31548314	143	4.6	142	86	3	868	27	23	20	29	1.99
31547660--31548314	284	2.3	285	86	2	922	27	23	20	29	1.99
31549652--31549709	15	4.2	13	80	12	64	1	3	8	86	0.76
31549666--31549707	9	4.7	9	85	8	59	0	2	9	88	0.61
31549652--31549710	27	2.2	27	82	11	77	1	3	10	84	0.80
31553472--31553516	21	2.0	22	87	8	65	57	0	0	42	0.98
31555781--31555816	16	2.4	14	86	13	54	33	2	8	55	1.44
31557123--31557156	16	2.2	16	89	5	52	55	0	2	41	1.15
31558461--31558538	30	2.8	28	82	9	79	57	5	3	33	1.39
31558634--31558772	47	2.9	46	78	11	140	53	1	9	35	1.42
31558743--31558775	2	17.0	2	93	6	59	51	0	0	48	1.00
31559184--31559241	22	2.6	22	81	7	64	41	17	5	36	1.72
31559220--31559267	21	2.4	20	89	6	71	39	12	10	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31560067--31560275	44	4.8	43	80	6	224	28	25	17	28	1.97
31560380--31560523	45	3.2	44	62	11	105	17	24	29	29	1.97
31560289--31560592	88	3.5	88	91	0	475	20	24	27	26	1.99
31560572--31560861	44	6.6	44	74	5	226	30	25	15	27	1.96
31560589--31560861	132	2.1	133	92	0	458	30	26	15	28	1.96
31566483--31566516	10	3.3	10	87	4	50	76	0	0	23	0.79
31566482--31566518	17	2.2	16	90	4	56	78	0	0	21	0.75
31567221--31567262	13	2.9	14	86	13	59	54	0	0	45	0.99
31570821--31570864	18	2.4	18	81	11	54	47	11	15	25	1.79
31572505--31572574	15	4.6	15	72	17	56	50	1	0	48	1.09
31573038--31573064	14	1.9	14	100	0	54	33	22	7	37	1.82
31573039--31573073	14	2.5	14	90	0	52	28	25	8	37	1.85
31577913--31578080	86	2.0	85	84	3	221	23	1	14	60	1.44
31578332--31578387	27	2.1	26	80	9	60	16	14	10	58	1.62
31579461--31579520	30	2.0	31	83	9	79	41	0	38	20	1.52
31579725--31579761	9	4.1	9	92	0	65	29	10	13	45	1.77
31579820--31579856	9	4.1	9	92	0	65	35	21	10	32	1.88
31581372--31581524	32	4.7	32	81	6	146	16	42	13	27	1.85
31585111--31585153	22	2.0	22	86	4	61	72	0	0	27	0.85
31585590--31585627	20	1.9	20	94	0	67	57	7	0	34	1.28
31597930--31597998	35	1.9	36	97	2	131	52	18	2	26	1.60
31597966--31598035	27	2.5	28	81	6	81	52	21	2	22	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31599410--31599471	26	2.3	26	83	2	79	43	11	9	35	1.73
31599424--31599477	26	2.1	26	92	0	90	40	11	12	35	1.79
31599797--31599831	14	2.6	13	86	8	52	45	0	0	54	0.99
31599819--31599871	24	2.2	24	90	3	81	52	0	9	37	1.34
31600484--31600510	13	2.1	13	100	0	54	55	14	7	22	1.64
31602312--31602344	12	2.8	12	100	0	66	57	6	36	0	1.23
31602563--31602590	14	2.0	14	100	0	56	35	14	14	35	1.86
31608600--31608788	98	1.9	98	91	0	306	37	23	12	26	1.91
31619729--31619789	18	3.4	18	81	4	61	29	1	6	62	1.30
31619741--31619789	3	16.3	3	78	0	53	26	2	8	63	1.34
31620252--31620280	15	1.9	15	100	0	58	20	0	0	79	0.74
31623820--31623872	17	2.9	17	81	13	54	71	5	3	18	1.21
31624807--31624865	15	4.0	15	83	14	70	74	0	11	13	1.07
31625985--31626587	176	3.4	176	87	0	830	28	19	24	27	1.99
31626452--31626587	45	3.1	45	68	8	116	28	18	25	27	1.98
31625983--31626587	88	6.9	88	82	2	732	28	19	24	27	1.99
31626528--31626645	61	1.9	61	87	0	173	28	15	27	28	1.96
31626440--31626736	149	2.0	149	89	0	450	30	17	25	26	1.97
31626589--31628147	88	17.7	87	82	3	1732	29	19	24	27	1.98
31626356--31626824	237	2.0	237	84	2	611	29	18	24	26	1.98
31626589--31628147	176	8.9	176	86	1	2066	29	19	24	27	1.98
31628164--31628576	50	8.2	50	76	4	321	31	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31628231--31628568	150	2.3	150	87	1	480	32	22	17	26	1.97
31630003--31630037	9	3.9	9	88	0	52	34	2	8	54	1.46
31630504--31630541	3	12.7	3	100	0	76	34	0	0	65	0.93
31640162--31640207	15	3.1	15	84	6	58	15	10	8	65	1.47
31640573--31640602	13	2.3	13	100	0	60	50	30	10	10	1.69
31648850--31650062	613	2.0	612	94	0	2140	28	15	19	36	1.93
31651254--31651287	16	2.2	15	89	5	50	52	2	2	41	1.31
31660503--31660543	12	3.6	12	80	12	50	21	0	7	70	1.11
31660502--31660543	22	1.9	22	90	0	66	23	0	7	69	1.13
31677541--31677658	33	3.5	33	83	4	148	13	8	36	41	1.75
31679983--31680016	2	17.0	2	100	0	68	50	0	0	50	1.00
31680135--31680159	10	2.5	10	100	0	50	20	0	8	72	1.10
31692197--31692222	7	3.7	7	100	0	52	53	0	0	46	1.00
31693449--31693508	25	2.5	24	81	10	77	75	5	20	0	0.99
31694578--31694607	2	15.0	2	100	0	60	50	0	0	50	1.00
31700475--31700517	21	2.0	21	86	0	59	69	2	9	18	1.26
31701839--31702020	44	4.1	44	63	10	120	30	21	23	23	1.99
31701776--31702184	132	3.1	132	90	0	595	30	21	24	23	1.99
31702310--31702432	44	2.8	44	83	0	156	29	18	22	29	1.98
31702526--31702875	50	7.1	50	68	10	218	33	23	19	24	1.97
31702496--31702885	100	4.0	100	86	4	470	32	23	19	24	1.97
31702496--31702885	195	2.0	197	82	4	473	32	23	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31707168--31707249	24	3.4	24	77	14	87	37	21	26	13	1.91
31707168--31707263	25	3.9	24	77	15	81	37	22	26	13	1.91
31707168--31707263	49	2.0	49	85	4	131	37	22	26	13	1.91
31707183--31707273	25	3.7	25	76	7	78	37	23	26	13	1.91
31707457--31707509	25	2.2	25	90	10	83	30	16	28	24	1.97
31708742--31709342	258	2.3	259	93	0	1006	38	9	15	36	1.79
31732868--31733061	96	2.0	96	96	0	361	33	3	9	53	1.50
31744005--31744044	14	2.9	14	84	0	53	32	7	17	42	1.77
31744028--31744067	20	2.0	20	90	0	62	27	10	12	50	1.72
31744013--31744079	34	1.9	35	90	3	109	31	8	13	46	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   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   197   198   199   200   201   202   203   204