genome.fa.s13.2.7.7.80.10.50.1000.78.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  78  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)
23534323--23534420	39	2.5	38	90	4	151	43	13	7	35	1.71
23535530--23535632	20	5.2	20	66	13	68	17	31	17	33	1.93
23535527--23535707	40	4.5	40	79	2	193	18	32	16	32	1.94
23535527--23535707	80	2.3	80	84	3	222	18	32	16	32	1.94
23538983--23539026	17	2.7	16	89	10	63	54	2	11	31	1.48
23541387--23541654	40	6.7	40	84	1	315	19	30	15	33	1.93
23541540--23541645	20	5.3	20	63	12	65	21	34	13	30	1.92
23546313--23546475	54	3.0	54	80	9	179	33	13	27	25	1.93
23548991--23549021	16	1.9	16	100	0	62	35	0	0	64	0.94
23549400--23549435	19	1.9	18	94	5	63	50	0	0	50	1.00
23554803--23554851	20	2.5	20	79	0	62	55	0	10	34	1.34
23554834--23554893	22	2.8	20	77	20	68	51	5	5	38	1.45
23554919--23554965	20	2.3	20	85	0	67	55	0	8	36	1.31
23554862--23555012	52	2.9	52	74	15	123	52	3	7	35	1.48
23554956--23554998	16	2.5	17	81	7	52	53	4	6	34	1.49
23556646--23556915	89	3.1	86	70	12	219	27	23	20	28	1.99
23556790--23557477	45	15.9	45	70	18	274	27	22	19	29	1.98
23556647--23557089	216	2.0	218	91	2	723	27	23	20	29	1.98
23556791--23557433	172	3.7	173	91	4	948	27	22	19	29	1.98
23556680--23557259	216	2.7	215	85	5	692	27	22	20	28	1.99
23556676--23557299	43	14.6	41	70	15	186	27	22	20	28	1.99
23556848--23557475	89	7.3	87	71	11	440	28	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23556646--23557477	388	2.1	388	84	6	1064	27	22	20	29	1.98
23566512--23566551	16	2.5	16	95	0	71	17	37	5	40	1.72
23569508--23569545	20	1.9	20	88	0	58	55	0	13	31	1.38
23569533--23569582	16	3.1	16	77	13	57	52	4	6	38	1.45
23569500--23569720	108	2.0	108	93	0	379	52	3	7	36	1.46
23569610--23569658	20	2.5	20	86	0	71	55	0	8	36	1.30
23569646--23569737	16	5.9	15	74	20	64	55	3	4	36	1.36
23569666--23569759	46	2.0	46	95	0	170	58	3	3	35	1.30
23571490--23571528	18	2.1	18	90	9	60	38	10	0	51	1.36
23573252--23573304	24	2.2	24	80	9	65	41	3	1	52	1.30
23575137--23575163	2	13.5	2	100	0	54	48	0	0	51	1.00
23582872--23583218	25	13.9	24	68	10	131	36	23	12	27	1.90
23582846--23583219	76	5.0	75	79	1	329	36	23	12	27	1.90
23605230--23605263	17	2.0	18	88	11	54	41	0	11	47	1.40
23612078--23612308	125	1.8	125	94	0	408	29	32	14	23	1.94
23612651--23612703	28	2.0	27	85	7	72	43	18	0	37	1.51
23612813--23612922	51	2.1	52	83	5	143	31	16	7	44	1.75
23616786--23616824	19	2.1	19	85	9	53	53	5	15	25	1.62
23620645--23620679	12	2.9	12	82	0	52	54	11	0	34	1.37
23620929--23620963	17	1.9	19	88	11	56	54	0	2	42	1.15
23623893--23623923	2	15.5	2	100	0	62	51	0	0	48	1.00
23624017--23624055	14	2.7	14	88	11	53	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23624017--23624062	14	3.1	15	81	12	51	45	2	0	52	1.13
23624123--23624314	96	2.0	96	87	4	280	40	17	1	40	1.59
23624340--23624381	15	2.7	16	81	3	50	54	26	0	19	1.44
23624340--23624381	8	5.4	8	82	5	50	54	26	0	19	1.44
23624429--23624506	40	1.9	39	87	10	113	23	30	28	17	1.97
23647814--23647932	20	5.9	20	68	7	80	36	19	32	11	1.88
23653858--23653905	7	6.7	7	78	4	51	25	0	29	45	1.53
23653859--23653905	14	3.3	14	88	5	76	23	0	29	46	1.52
23656054--23656107	2	27.5	2	88	3	83	50	0	1	48	1.11
23656751--23656896	41	3.6	41	95	0	256	28	23	23	24	2.00
23656752--23656949	82	2.4	82	83	3	220	28	22	25	23	1.99
23658843--23658891	19	2.8	17	79	14	55	42	0	30	26	1.55
23658987--23659024	20	2.0	20	89	5	60	47	0	23	28	1.52
23659221--23659257	9	4.1	9	85	0	56	29	8	13	48	1.71
23659310--23659340	9	3.4	9	90	0	53	38	22	12	25	1.90
23665181--23665401	51	4.4	51	80	3	205	30	13	24	31	1.93
23665184--23665401	101	2.1	102	80	4	235	31	13	24	31	1.93
23666214--23666241	13	2.2	13	100	0	56	32	14	14	39	1.86
23666396--23666427	2	16.0	2	100	0	64	50	0	0	50	1.00
23686496--23686576	42	1.9	41	85	5	108	32	24	18	24	1.97
23688141--23688297	55	2.8	56	82	3	199	46	13	5	35	1.65
23698408--23698471	29	2.2	29	97	0	119	7	20	28	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23698451--23698846	41	9.7	40	83	3	450	20	20	29	29	1.98
23699232--23699278	14	3.3	15	88	8	71	25	0	34	40	1.56
23699297--23699334	7	5.4	7	93	0	67	18	0	50	31	1.47
23699597--23699635	19	2.0	20	85	5	53	17	2	43	35	1.63
23702080--23702104	13	1.9	13	100	0	50	16	8	24	52	1.70
23702829--23702932	18	5.7	17	69	17	57	50	18	0	30	1.47
23702857--23703099	131	1.8	131	87	7	366	48	18	0	32	1.54
23703044--23703699	56	12.1	56	77	13	642	42	18	2	36	1.64
23703044--23703618	107	5.4	109	81	10	543	42	18	2	35	1.65
23703149--23703603	9	50.2	9	67	19	218	42	19	2	35	1.66
23703050--23703622	163	3.6	163	93	3	920	42	18	2	35	1.64
23703421--23703618	100	2.0	98	91	2	315	43	19	2	34	1.63
23709215--23709257	21	2.0	21	86	0	59	32	18	44	4	1.71
23709141--23709319	87	2.1	87	88	0	259	41	20	27	10	1.85
23709670--23709865	43	4.6	43	93	0	320	26	18	31	24	1.98
23710449--23710491	18	2.4	18	84	0	59	23	0	6	69	1.12
23711531--23711568	18	2.1	18	90	0	58	47	7	7	36	1.62
23716550--23716603	13	4.2	13	81	11	58	16	3	1	77	1.00
23716735--23716781	18	2.6	18	78	18	53	12	8	4	74	1.19
23717961--23718003	20	2.2	20	95	0	77	25	13	30	30	1.94
23718312--23718363	11	4.7	11	81	9	61	13	1	5	78	1.01
23723937--23724005	23	2.9	23	80	8	68	57	0	2	39	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23723965--23724012	17	2.7	18	81	9	55	54	0	0	45	0.99
23725164--23725197	13	2.6	13	90	0	50	58	0	2	38	1.13
23728114--23728145	13	2.5	13	89	0	55	65	0	6	28	1.16
23728135--23728172	18	2.1	19	90	9	62	42	0	5	52	1.24
23728270--23728317	24	2.0	24	88	8	71	37	0	6	56	1.25
23730733--23730805	25	2.8	26	83	4	94	32	16	23	27	1.96
23730733--23730791	26	2.3	26	91	2	93	28	20	23	27	1.99
23732210--23732252	22	2.0	22	100	0	86	44	51	0	4	1.22
23732911--23732950	21	1.9	21	100	0	80	47	27	5	20	1.70
23734998--23735038	18	2.3	18	87	8	57	70	2	4	21	1.18
23738443--23738496	21	2.6	21	82	11	67	68	3	16	11	1.33
23743531--23743578	25	1.9	25	83	8	62	33	14	18	33	1.91
23747274--23747337	29	2.2	28	76	10	67	7	28	4	59	1.46
23749357--23749381	6	4.2	6	100	0	50	84	0	0	16	0.63
23751050--23751087	17	2.2	17	86	9	51	78	0	0	21	0.74
23751697--23751731	15	2.3	15	90	0	52	51	14	25	8	1.70
23751738--23751772	18	1.9	18	88	0	52	54	17	25	2	1.57
23757547--23757584	18	2.2	17	86	13	51	34	0	18	47	1.49
23757812--23757932	23	5.3	23	86	0	179	22	20	23	33	1.97
23764185--23764238	20	2.7	20	80	5	65	35	14	27	22	1.93
23764221--23764258	19	2.0	20	89	5	60	36	7	34	21	1.82
23767841--23767875	18	1.9	18	88	0	52	28	2	0	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23769967--23770089	63	2.0	62	82	9	151	52	17	6	24	1.68
23778068--23778095	14	2.0	14	100	0	56	42	0	0	57	0.99
23778534--23778575	13	3.2	13	90	6	66	19	0	0	80	0.70
23778534--23778574	7	5.9	7	91	8	66	17	0	0	82	0.66
23778582--23778640	29	2.0	29	87	6	84	28	0	3	67	1.06
23785452--23785534	25	3.3	25	63	15	62	20	4	15	59	1.55
23789875--23789899	13	1.9	13	100	0	50	40	0	8	52	1.31
23794958--23794995	18	2.1	19	90	5	60	5	15	0	78	0.91
23798253--23798283	7	4.4	7	100	0	62	12	0	74	12	1.08
23800990--23801071	40	2.1	40	86	8	116	40	2	1	56	1.20

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