genome.fa.s7.2.7.7.80.10.50.1000.171.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  171  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)
51171888--51171935	26	2.0	25	84	15	66	43	4	12	39	1.62
51173527--51173635	40	2.7	40	98	0	209	43	13	6	36	1.70
51173617--51173648	13	2.5	13	100	0	64	40	15	6	37	1.73
51179309--51179361	5	10.0	5	82	15	54	79	0	5	15	0.91
51179309--51179360	11	4.8	11	75	11	54	80	0	5	13	0.88
51184219--51184249	15	2.1	15	100	0	62	32	16	6	45	1.72
51189467--51189587	61	2.0	61	86	3	172	34	12	19	33	1.89
51190617--51190665	2	24.5	2	100	0	98	48	0	0	51	1.00
51193722--51193798	37	2.1	37	95	0	136	51	11	14	22	1.74
51196543--51196617	31	2.4	31	84	0	96	30	21	13	34	1.92
51196557--51196626	31	2.2	32	87	5	99	25	24	12	37	1.91
51203633--51203669	18	2.1	18	90	10	58	37	5	0	56	1.22
51205552--51205612	31	1.9	31	96	3	113	31	8	6	54	1.56
51215673--51215849	76	2.3	78	83	9	211	62	2	22	13	1.42
51217904--51217937	16	2.1	16	88	0	50	35	5	5	52	1.50
51219700--51219759	21	2.9	21	80	11	79	65	1	0	33	1.03
51223382--51223447	30	2.2	30	91	0	105	34	10	19	34	1.86
51225347--51225463	41	3.0	41	76	8	134	35	22	16	26	1.95
51227114--51227157	2	21.5	2	95	4	79	47	2	0	50	1.13
51227542--51227577	18	1.9	19	88	5	56	30	27	0	41	1.56
51227853--51227909	4	15.2	4	76	20	61	0	26	0	73	0.83
51227854--51227896	6	7.2	6	79	10	52	0	23	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51227856--51227906	11	4.1	12	82	12	59	0	25	0	74	0.82
51227854--51227902	17	2.8	17	84	9	64	0	24	0	75	0.80
51227854--51227910	29	1.9	30	89	10	91	0	26	0	73	0.83
51227854--51227934	30	2.7	29	84	7	92	2	22	3	71	1.14
51228660--51228701	20	2.0	20	86	9	57	66	4	0	28	1.12
51228686--51228710	9	2.8	9	100	0	50	88	0	0	12	0.53
51233600--51233713	41	2.9	40	69	13	101	37	22	14	25	1.92
51233879--51233921	2	22.0	2	81	13	54	51	2	0	46	1.13
51234615--51234702	6	14.3	6	70	13	63	2	20	5	71	1.17
51234615--51234675	17	3.4	17	84	11	61	1	22	4	70	1.15
51238502--51238545	16	2.7	17	79	10	56	38	0	0	61	0.96
51238529--51238592	11	6.4	11	74	20	52	35	1	0	62	1.05
51238511--51238603	38	2.5	37	91	3	159	35	1	0	63	1.02
51238537--51238628	20	4.6	19	72	16	71	36	1	1	60	1.11
51238575--51238631	22	2.7	19	78	19	60	40	0	1	57	1.09
51250732--51250969	61	3.9	61	98	0	449	34	1	8	55	1.40
51252492--51252525	17	1.9	18	88	5	52	35	26	0	38	1.57
51253521--51253558	2	19.0	2	88	0	58	50	0	2	47	1.15
51254202--51254253	26	2.0	27	85	11	72	0	32	1	65	1.04
51254459--51254508	12	3.9	13	77	12	59	60	2	0	38	1.09
51258218--51258254	19	1.9	19	88	0	56	48	5	2	43	1.40
51259048--51259137	42	2.3	40	85	14	127	43	2	0	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51259131--51259212	29	3.0	26	83	13	94	34	1	2	62	1.16
51259131--51259212	28	3.0	27	86	10	105	34	1	2	62	1.16
51259280--51259324	21	2.3	20	82	14	58	22	2	6	68	1.24
51259290--51259336	19	2.3	21	85	7	62	23	2	8	65	1.31
51259313--51259360	20	2.3	21	86	10	64	27	0	6	66	1.15
51259313--51259362	21	2.4	22	80	12	61	28	0	6	66	1.15
51261057--51261090	16	2.2	16	89	5	52	64	26	0	8	1.22
51266226--51266296	19	3.6	19	71	19	56	63	2	0	33	1.09
51266229--51266300	30	2.4	30	80	13	87	65	2	0	31	1.07
51266462--51266505	21	2.1	22	83	8	56	29	11	0	59	1.32
51266496--51266573	30	2.7	30	78	9	81	32	3	3	60	1.33
51266541--51266596	19	2.8	20	78	13	71	32	5	3	58	1.37
51266542--51266597	20	2.8	20	89	2	87	32	5	3	58	1.37
51268981--51269342	191	1.9	191	86	2	521	36	8	13	41	1.74
51269937--51269969	3	11.0	3	100	0	66	33	0	66	0	0.92
51286596--51287063	232	2.0	232	89	0	713	38	18	18	24	1.93
51289510--51289561	22	2.5	20	74	20	54	17	5	9	67	1.38
51293104--51293149	19	2.4	19	85	7	58	26	19	8	45	1.79
51301566--51301936	143	2.6	143	89	0	546	28	20	23	28	1.99
51301865--51302069	44	4.6	44	73	6	144	31	23	19	25	1.98
51303582--51303633	22	2.5	20	74	20	54	17	5	9	67	1.38
51304640--51305079	44	9.7	44	74	12	338	31	20	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51304821--51305095	94	2.9	94	84	4	342	32	19	20	28	1.97
51304877--51305051	50	3.6	49	69	14	130	30	18	22	28	1.97
51304847--51305125	94	3.0	94	82	2	247	34	18	19	27	1.96
51308776--51308837	30	2.1	30	85	5	83	32	16	3	48	1.62
51309817--51309853	13	2.9	13	96	4	67	37	21	0	40	1.54
51311333--51311381	9	5.4	9	79	15	57	2	30	0	67	1.02
51311348--51311388	14	2.8	16	82	17	52	2	34	0	63	1.08
51318482--51318519	19	2.0	19	89	0	58	31	26	5	36	1.79
51324463--51324577	60	1.9	60	98	0	221	32	0	13	53	1.40
51334536--51334576	20	2.0	20	100	0	82	24	19	29	26	1.98
51336731--51336968	42	5.6	42	83	5	228	25	18	27	28	1.98
51336772--51336968	42	4.7	42	88	0	241	23	17	28	30	1.97
51336775--51336984	84	2.5	85	85	0	269	23	17	28	31	1.97
51336817--51336985	85	2.0	84	85	1	230	23	17	28	30	1.97
51339194--51339245	21	2.5	21	77	0	59	57	1	1	38	1.21
51339537--51339575	11	3.6	11	89	6	62	56	0	0	43	0.99
51342452--51342486	18	1.9	18	94	0	61	0	20	48	31	1.50
51343865--51343906	21	2.0	21	85	0	57	42	0	16	40	1.48
51344369--51344426	26	2.2	26	87	6	82	15	18	24	41	1.89
51346254--51346284	13	2.4	13	94	0	53	67	0	12	19	1.22
51355243--51355277	14	2.8	12	84	16	52	80	5	2	11	1.00
51361250--51361280	3	10.3	3	100	0	62	32	32	0	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51362281--51362311	15	2.1	15	100	0	62	22	6	0	70	1.09
51364394--51364439	23	2.0	22	91	4	56	56	0	0	43	0.99
51364377--51364439	25	2.6	25	87	5	85	49	3	1	46	1.27
51367101--51367158	28	2.1	27	80	3	62	48	5	10	36	1.60
51368240--51368274	3	11.7	3	100	0	70	31	0	0	68	0.90
51378646--51378771	66	1.9	66	96	0	234	27	36	17	18	1.93
51381348--51381421	30	2.4	30	79	4	94	25	28	22	22	1.99
51388189--51388221	2	16.5	2	100	0	66	48	0	0	51	1.00
51389224--51389253	15	2.0	15	93	0	51	43	0	6	50	1.28
51391630--51391829	105	1.9	105	86	2	285	29	12	19	39	1.88
51401649--51401688	2	20.0	2	89	0	62	47	2	2	47	1.29
51403971--51404002	2	16.0	2	100	0	64	50	0	0	50	1.00
51404245--51404285	6	6.8	6	100	0	82	82	0	0	17	0.66
51409974--51410276	123	2.4	124	83	4	378	32	16	19	32	1.94
51410163--51410427	84	3.1	84	88	4	399	31	16	18	33	1.93
51412636--51412887	43	5.9	44	76	6	234	24	15	26	33	1.95
51414646--51414709	25	2.5	27	80	7	80	50	1	1	46	1.20
51421543--51421575	15	2.1	16	88	5	50	30	0	3	66	1.06
51422241--51422280	20	2.0	20	95	0	71	15	47	25	12	1.80
51422242--51422286	20	2.4	18	85	10	56	15	51	22	11	1.75
51422280--51423781	594	2.5	583	91	5	2376	35	23	13	27	1.92
51424334--51424401	3	22.7	3	84	0	91	33	0	4	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51425024--51425160	43	3.2	42	70	15	118	27	35	18	19	1.95
51425003--51425229	86	2.6	86	88	1	312	25	32	18	23	1.97
51425045--51425229	43	4.3	43	77	8	171	28	32	17	21	1.96
51425556--51425668	21	5.4	21	82	0	118	4	40	17	37	1.70
51425639--51425785	66	2.2	66	85	4	190	13	27	17	41	1.87
51425678--51425808	66	2.0	66	86	3	183	14	24	18	42	1.87
51426987--51427567	114	5.1	114	91	0	921	27	22	19	30	1.98
51428225--51428324	35	3.0	34	85	11	127	59	1	2	38	1.16
51428256--51428317	9	7.0	9	74	18	51	56	1	1	40	1.19
51428259--51428377	43	2.9	41	79	16	120	62	0	2	34	1.15

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