genome.fa.s13.2.7.7.80.10.50.1000.135.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  135  of  199  ( 23770 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)
40822122--40822181	22	2.7	22	92	5	95	45	26	0	28	1.54
40827838--40827982	70	2.1	70	98	0	281	29	12	20	37	1.89
40834619--40834699	22	3.7	22	86	0	108	29	24	14	30	1.95
40835096--40835148	3	17.7	3	96	0	97	32	35	0	32	1.58
40841762--40841798	13	3.0	13	88	7	51	54	0	0	45	1.00
40844463--40844500	16	2.2	18	90	9	62	73	0	0	26	0.83
40844776--40844826	25	2.0	25	85	7	68	72	1	19	5	1.15
40863433--40863506	26	2.8	26	83	0	85	31	17	9	41	1.81
40869960--40870022	24	2.5	26	76	19	62	58	4	1	34	1.29
40886178--40886218	21	1.9	22	90	5	66	63	0	4	31	1.15
40899634--40899664	4	8.0	4	92	7	55	25	0	0	74	0.82
40901912--40901944	17	1.9	18	88	11	52	45	0	12	42	1.41
40913936--40913961	2	13.0	2	100	0	52	50	0	0	50	1.00
40914135--40914169	2	17.5	2	100	0	70	48	0	0	51	1.00
40914339--40914482	42	3.5	42	90	2	202	30	20	22	27	1.98
40915676--40915732	26	2.2	26	83	0	69	33	17	5	43	1.71
40917986--40918049	26	2.5	26	89	0	101	42	3	20	34	1.68
40920105--40920156	20	2.7	19	77	17	54	61	0	3	34	1.14
40920500--40920550	19	2.7	19	77	17	61	39	0	1	58	1.09
40920502--40920557	20	2.8	19	80	17	53	37	0	1	60	1.07
40922276--40922353	4	18.0	4	78	12	50	75	1	21	1	0.94
40922285--40922342	5	11.6	5	80	12	66	77	1	20	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40922302--40922355	15	3.5	15	82	10	56	77	1	20	0	0.86
40922277--40922344	35	2.0	35	85	8	95	77	1	19	1	0.92
40925531--40925590	30	2.0	31	86	3	86	40	0	40	20	1.52
40925799--40925835	9	4.1	9	89	0	56	32	10	10	45	1.74
40931188--40931286	28	3.6	27	84	9	119	31	12	28	28	1.92
40936656--40936859	108	1.9	106	85	4	284	35	18	17	29	1.93
40937690--40937762	3	24.3	3	91	0	119	63	1	1	34	1.12
40939527--40940206	87	7.8	87	91	0	1074	25	23	22	29	1.99
40941437--40941470	13	2.5	13	90	4	50	11	17	0	70	1.16
40941886--40941919	6	5.7	6	89	0	50	11	5	14	67	1.39
40945944--40946147	108	1.9	106	89	4	320	35	20	16	27	1.94
40946985--40947051	3	22.3	3	87	0	98	62	1	2	32	1.19
40954765--40954828	20	3.3	20	80	6	60	42	4	0	53	1.22
40954798--40954829	2	16.0	2	100	0	64	50	0	0	50	1.00
40955468--40955664	98	2.0	98	97	0	376	27	9	24	37	1.87
40970304--40970372	29	2.3	29	82	5	84	27	13	13	46	1.79
40976739--40976912	30	5.7	30	84	1	222	32	6	15	44	1.73
40976739--40976912	60	2.9	60	88	1	249	32	6	15	44	1.73
40976739--40976912	92	1.9	89	82	6	215	32	6	15	44	1.73
40981481--40981717	124	1.9	124	86	1	341	27	16	17	38	1.91
40981830--40981962	33	3.9	33	75	8	124	45	12	0	40	1.48
40981836--40981969	67	2.0	65	81	8	153	44	12	0	42	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40993378--40993422	16	2.8	16	86	0	72	40	4	35	20	1.72
40993608--40993642	18	2.0	17	88	5	52	54	0	0	45	0.99
40993689--40993857	26	6.9	25	67	25	76	53	2	0	43	1.20
40993728--40993774	18	2.6	18	86	6	60	55	0	0	44	0.99
40993588--40993993	120	3.4	120	97	0	760	51	3	0	43	1.24
40998081--40998122	20	2.1	20	100	0	84	40	9	26	23	1.85
40999789--40999894	11	10.4	11	72	21	56	60	0	3	35	1.15
40999796--40999871	9	8.1	10	74	21	51	63	0	1	35	1.03
40999799--40999869	16	4.0	16	72	21	52	63	0	1	35	1.03
40999812--40999872	9	6.4	9	75	17	52	68	0	1	29	0.99
40999763--40999910	40	3.7	39	83	9	174	60	0	2	35	1.16
41000871--41001168	155	1.9	155	83	2	384	28	2	19	50	1.59
41001184--41001223	21	1.9	21	94	0	71	32	0	12	55	1.38
41005412--41005463	26	2.0	26	88	0	77	23	30	23	23	1.99
41012087--41012151	2	32.5	2	100	0	130	50	49	0	0	1.00
41013680--41013717	19	2.1	19	85	9	53	34	0	7	57	1.28
41014257--41014314	30	2.0	29	83	10	73	53	6	6	32	1.54
41016902--41016986	44	1.9	45	85	7	120	22	22	14	41	1.89
41016970--41017073	45	2.3	45	84	0	136	27	19	7	45	1.77
41024017--41024068	15	3.5	15	76	5	52	38	1	5	53	1.36
41024636--41024712	29	2.7	29	83	2	102	36	10	18	35	1.85
41025855--41025928	36	2.1	36	92	0	121	25	18	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41026855--41026896	20	2.2	19	83	12	50	64	2	4	28	1.26
41036018--41036097	42	1.9	43	80	12	96	51	16	3	28	1.61
41040387--41040420	17	2.1	16	88	5	50	70	0	0	29	0.87
41040704--41040728	13	1.9	13	100	0	50	56	0	4	40	1.18
41040754--41040792	20	1.9	21	89	5	62	33	5	2	58	1.33
41046285--41046318	9	3.8	9	100	0	68	35	11	0	52	1.38
41047694--41047732	17	2.2	18	86	4	53	38	5	2	53	1.37
41058070--41058159	42	2.1	42	93	0	153	26	28	24	20	1.99
41060008--41060267	138	1.9	137	87	2	387	33	25	20	20	1.97
41065306--41065355	22	2.4	20	76	6	55	62	6	4	28	1.37
41068386--41068437	17	3.2	15	75	19	50	42	0	0	57	0.98
41068381--41068437	15	3.5	15	73	17	51	45	1	0	52	1.11
41070866--41070919	22	2.5	22	90	0	81	29	25	18	25	1.98
41072220--41072288	27	2.6	27	100	0	138	43	5	15	34	1.71
41072517--41072557	6	6.8	6	91	0	55	70	4	12	12	1.31
41073035--41073079	23	2.0	23	86	0	63	60	15	6	17	1.56
41087069--41087115	2	23.5	2	100	0	94	48	0	0	51	1.00
41091272--41091307	15	2.5	14	86	8	54	44	8	0	47	1.33
41093029--41093088	22	2.8	21	84	5	66	18	10	46	25	1.79
41093234--41093317	36	2.4	33	79	16	98	71	0	3	25	1.02
41100485--41100527	16	2.5	18	81	11	54	58	11	16	13	1.64
41101313--41101337	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41120218--41120409	50	3.7	51	77	4	163	27	20	28	22	1.99
41120660--41120698	20	2.0	20	90	10	62	56	5	23	15	1.59
41125717--41125755	20	2.0	20	90	10	62	15	23	5	56	1.59
41126006--41126151	50	2.9	50	83	6	179	21	28	21	28	1.99
41126006--41126192	50	3.6	50	81	7	142	23	29	19	27	1.98
41128100--41128231	45	3.0	45	88	2	196	33	25	16	24	1.96
41141590--41141633	22	2.0	22	83	16	56	31	9	13	45	1.75
41150685--41150773	44	2.0	44	97	0	169	46	11	15	26	1.80
41154106--41154151	23	1.9	23	86	8	65	30	19	0	50	1.48
41155367--41155399	5	6.6	5	86	13	50	81	0	0	18	0.68
41155362--41155399	15	2.5	15	83	16	51	76	0	0	23	0.79
41155623--41155661	3	13.0	3	84	10	53	66	2	0	30	1.05
41157448--41157486	17	2.3	17	86	8	53	23	2	5	69	1.21
41157965--41158008	2	22.0	2	95	0	79	47	0	0	52	1.00
41159236--41159377	74	1.9	73	81	7	171	40	5	10	43	1.63
41159758--41159783	3	8.7	3	100	0	52	30	0	0	69	0.89
41162024--41162066	21	2.0	21	95	0	77	37	4	25	32	1.77
41174502--41174545	22	2.0	21	83	12	54	40	0	0	59	0.98
41174934--41175079	45	3.3	45	94	2	260	41	6	10	41	1.66
41187928--41188006	16	5.1	16	92	3	117	44	5	30	20	1.73
41187986--41188094	45	2.5	44	80	15	131	33	6	28	32	1.82
41187988--41188094	44	2.6	40	77	18	128	33	6	28	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41188198--41188230	11	3.0	11	91	8	50	57	0	0	42	0.98
41188215--41188303	28	3.3	26	70	13	72	50	2	1	46	1.21
41188175--41188286	22	5.1	21	68	23	70	54	0	1	42	1.17
41188193--41188309	55	2.1	55	84	7	148	53	2	0	42	1.20
41200438--41200471	15	2.2	16	89	5	52	41	2	11	44	1.56
41200944--41201033	27	3.6	25	77	6	74	21	25	20	33	1.97
41204966--41205155	50	3.7	50	80	4	191	26	21	28	23	1.99
41204969--41205155	100	1.8	104	82	6	247	26	21	28	23	1.99
41206777--41206823	20	2.3	20	100	0	94	44	4	29	21	1.71
41212141--41212362	39	5.6	39	75	7	108	21	30	16	31	1.95

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