genome.fa.s13.2.7.7.80.10.50.1000.198.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  198  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)
57752196--57752227	16	1.9	17	93	6	57	75	0	12	12	1.06
57761222--57761264	20	2.2	20	91	0	68	67	0	0	32	0.91
57766667--57766736	28	2.4	28	83	4	77	28	40	0	31	1.57
57769837--57769872	18	1.9	18	88	5	54	58	2	0	38	1.13
57776276--57776645	137	2.7	134	80	3	409	25	14	23	37	1.92
57784259--57784302	20	2.2	20	83	4	52	38	6	0	54	1.27
57787826--57787857	3	10.7	3	100	0	64	31	0	0	68	0.90
57802227--57802268	15	2.8	16	82	10	52	59	7	0	33	1.25
57805661--57805715	23	2.6	21	73	15	60	58	1	0	40	1.09
57810010--57810072	27	2.4	27	94	2	110	42	11	0	46	1.39
57810667--57810743	27	2.9	27	96	0	136	18	31	23	27	1.97
57812244--57812415	91	1.9	90	90	3	274	47	11	9	31	1.72
57820070--57820101	2	16.5	2	93	6	57	53	0	0	46	1.00
57821566--57821696	40	3.3	39	77	18	110	22	20	20	35	1.96
57821814--57821855	21	2.0	22	85	4	59	19	7	16	57	1.62
57824553--57824579	11	2.5	11	100	0	54	40	7	0	51	1.30
57824575--57824650	9	8.0	9	74	14	55	38	1	0	60	1.05
57824594--57824660	11	5.3	13	71	16	52	35	2	0	61	1.12
57824537--57824686	39	3.7	39	85	12	196	36	2	0	60	1.11
57833574--57833615	19	2.2	19	86	0	57	21	9	11	57	1.63
57840738--57840780	20	2.1	21	82	4	52	58	2	0	39	1.11
57841805--57841833	14	2.0	15	93	6	51	41	0	6	51	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57845840--57846319	236	2.0	235	88	2	703	44	22	11	21	1.84
57846806--57847010	102	2.0	103	98	0	394	18	8	19	53	1.70
57848856--57848895	20	2.0	20	85	5	53	22	2	32	42	1.67
57858108--57858144	18	2.1	17	90	5	56	29	10	18	40	1.85
57859367--57859410	3	14.7	3	100	0	88	34	0	0	65	0.93
57863986--57864074	41	2.1	41	97	2	169	56	4	8	30	1.50
57866215--57866261	23	2.0	23	83	0	58	25	4	2	68	1.19
57888338--57888400	22	2.9	22	76	9	65	36	15	25	22	1.94
57888395--57888463	25	2.8	25	93	0	111	37	20	21	20	1.94
57889304--57889352	23	2.1	23	92	0	80	42	8	4	44	1.53
57889729--57889782	15	3.3	15	76	18	63	42	0	1	55	1.10
57889821--57889851	16	2.0	16	93	6	55	38	0	0	61	0.96
57896742--57896784	23	1.9	22	81	13	52	39	0	0	60	0.97
57898058--57898086	3	9.7	3	100	0	58	68	0	0	31	0.89
57898112--57898146	10	3.6	10	84	7	54	31	0	0	68	0.90
57905824--57905862	20	1.9	21	89	5	62	38	0	0	61	0.96
57928339--57928378	21	1.9	21	100	0	80	40	0	0	60	0.97
57928339--57928376	12	3.4	12	79	20	55	42	0	0	57	0.98
57930926--57931179	141	1.9	135	82	8	325	47	9	11	31	1.72
57936904--57936947	19	2.5	18	85	10	56	25	6	6	61	1.46
57937565--57937603	20	2.0	20	90	5	62	53	0	2	43	1.14
57941270--57941314	22	2.1	22	91	4	74	22	15	13	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57941778--57941820	2	21.5	2	85	0	59	44	2	4	48	1.36
57948188--57948230	19	2.3	19	88	8	61	18	9	4	67	1.36
57952885--57952923	16	2.6	15	84	8	53	23	0	5	71	1.05
57953811--57954029	115	1.9	111	87	5	314	29	9	15	45	1.78
57954974--57955622	207	3.1	208	80	11	660	28	19	17	34	1.94
57956743--57956767	3	8.3	3	100	0	50	68	0	0	32	0.90
57962995--57963036	21	2.0	22	85	4	59	64	2	2	30	1.19
57966697--57966747	25	2.0	25	100	0	102	58	5	11	23	1.55
57968725--57968784	31	1.9	31	86	6	86	50	6	21	21	1.72
57969932--57969957	2	13.0	2	100	0	52	50	0	50	0	1.00
57971643--57971675	3	11.3	3	93	6	59	69	30	0	0	0.88
57975202--57975244	21	2.0	22	86	9	61	30	0	4	65	1.13
57980523--57980569	24	2.0	24	83	8	60	57	0	4	38	1.18
57981241--57981291	14	3.0	18	70	24	56	47	5	5	41	1.52
57983816--57983872	30	1.9	30	82	13	73	59	15	5	19	1.55
57984383--57984425	21	2.0	21	86	8	61	55	0	2	41	1.12
57986444--57986486	21	2.0	21	86	8	61	53	0	2	44	1.13
57988645--57988685	2	20.5	2	100	0	82	48	0	0	51	1.00
57995565--57995616	24	2.2	24	85	0	68	5	13	51	28	1.64
57995582--57995641	30	2.0	30	93	0	102	10	13	51	25	1.71
57995625--57995659	18	1.9	18	94	0	61	14	20	34	31	1.92
57995594--57995750	60	3.0	50	81	15	183	11	14	47	26	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57995643--57996234	30	19.0	30	85	8	681	11	11	51	25	1.71
57995657--57996234	255	2.3	252	91	5	949	11	11	52	24	1.71
57997172--57997219	20	2.5	18	83	9	60	45	0	16	37	1.48
57997179--57997216	20	1.9	20	94	0	67	44	0	18	36	1.50
58001090--58001400	169	1.8	169	89	1	489	23	16	18	42	1.89
58001229--58001801	188	2.9	193	86	6	775	22	18	16	42	1.89
58006850--58006885	4	9.0	4	93	0	63	47	25	2	25	1.65
58008169--58008199	14	2.3	13	94	5	53	54	16	0	29	1.42
58015704--58015745	14	3.0	14	76	13	50	40	0	0	59	0.97
58020404--58020531	64	2.0	64	85	0	175	35	24	19	20	1.95
58024646--58025733	36	30.2	36	83	2	1272	27	46	5	21	1.73
58025728--58025903	45	3.9	45	95	0	307	27	48	11	12	1.76
58027017--58027061	23	2.0	23	82	8	56	22	8	6	62	1.48
58027427--58027451	3	8.3	3	100	0	50	68	0	32	0	0.90
58036427--58036475	24	2.0	24	100	0	98	59	12	8	20	1.58
58037307--58037517	105	2.0	105	99	0	413	25	28	19	26	1.99
58041434--58042122	231	3.0	230	82	6	825	17	26	11	44	1.83
58067759--58067798	6	6.7	6	100	0	80	52	0	0	47	1.00
58067792--58067838	22	2.1	22	81	14	53	25	6	4	63	1.36
58068152--58068282	60	2.2	60	88	0	199	34	16	9	38	1.82
58072401--58072438	2	19.0	2	94	0	67	2	50	0	47	1.15
58074595--58074834	125	1.9	125	89	1	374	33	16	16	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58116161--58116185	5	5.0	5	100	0	50	80	0	0	20	0.72
58120509--58120644	71	1.9	71	83	3	175	25	21	15	38	1.92
58121124--58121223	30	3.2	31	80	14	107	39	6	6	49	1.52
58130454--58130699	125	2.0	125	99	0	483	40	10	6	42	1.64
58135127--58135169	3	14.3	3	100	0	86	32	0	0	67	0.91
58149949--58149977	7	4.1	7	100	0	58	58	0	13	27	1.36
58150238--58150266	13	2.1	14	93	6	51	68	3	0	27	1.05
58156321--58156401	40	2.0	40	97	0	153	20	4	23	50	1.67
58156970--58157034	32	2.0	32	82	11	80	47	3	0	49	1.17
58167133--58167192	30	2.0	30	96	0	111	28	20	18	33	1.96
58170371--58170416	20	2.2	21	84	7	58	71	0	0	28	0.86
58170369--58170418	21	2.4	20	80	9	55	72	0	0	28	0.86
58176230--58176313	22	3.8	22	87	0	114	30	14	25	29	1.95
58191975--58192013	5	7.6	5	82	5	51	41	0	17	41	1.50
58192560--58192643	24	3.5	24	74	9	73	15	23	21	39	1.92
58192865--58192896	15	2.1	15	100	0	64	46	6	12	34	1.67
58193345--58193388	2	22.0	2	100	0	88	50	0	0	50	1.00
58195485--58195561	38	2.0	38	97	0	145	33	5	32	28	1.79
58206213--58206243	15	2.1	15	93	0	53	35	9	0	54	1.33
58226425--58226463	20	2.0	20	89	0	60	43	2	5	48	1.38
58226801--58226854	19	2.9	18	81	8	63	53	3	1	40	1.29
58228850--58229981	584	1.9	583	94	0	1969	41	9	12	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58230564--58230631	33	2.0	34	85	2	93	52	1	0	45	1.09
58232267--58232330	34	1.9	33	83	3	83	51	1	0	46	1.10
58233952--58234019	33	2.0	34	85	2	93	52	1	0	45	1.09
58234791--58234848	30	1.9	30	82	6	73	44	3	3	48	1.36
58241237--58241293	27	2.1	27	96	0	105	35	14	22	28	1.93
58244788--58244812	2	12.5	2	100	0	50	52	0	0	48	1.00
58248974--58249025	26	2.0	26	92	0	86	32	13	17	36	1.89
58249383--58249456	25	3.0	25	75	16	82	28	21	28	21	1.99
58249394--58249469	25	3.1	23	73	14	64	28	19	28	22	1.98
58249503--58249560	27	2.2	25	81	6	71	39	20	17	22	1.92

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