genome.fa.s13.2.7.7.80.10.50.1000.34.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  34  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)
9625839--9625927	46	1.9	46	90	0	142	23	19	25	31	1.98
9627931--9628158	45	5.1	45	69	10	189	23	24	24	28	2.00
9627928--9628160	89	2.6	89	89	2	362	24	24	24	27	2.00
9628212--9628640	44	9.7	44	72	11	245	29	21	17	31	1.96
9628520--9628640	42	2.8	44	81	2	138	27	24	19	28	1.98
9635841--9635883	22	1.9	22	85	4	59	39	13	6	39	1.72
9635855--9635906	19	2.9	17	72	10	50	34	15	9	40	1.80
9636366--9636390	12	2.1	12	100	0	50	92	0	8	0	0.40
9636611--9636704	46	2.0	46	95	0	170	43	9	7	39	1.65
9644551--9644615	30	2.2	30	83	5	78	40	6	10	43	1.65
9652440--9652567	50	2.6	51	86	5	172	26	24	28	20	1.99
9654083--9654113	13	2.4	13	100	0	62	32	25	6	35	1.82
9655596--9655731	38	3.6	38	84	2	166	30	25	22	22	1.99
9657668--9657706	20	1.9	21	85	15	55	48	7	12	30	1.69
9660960--9661026	26	2.6	26	95	4	118	19	26	5	47	1.72
9668089--9668113	13	1.9	13	100	0	50	52	8	0	40	1.31
9668941--9669166	111	2.0	111	92	1	373	23	24	15	36	1.93
9677840--9677877	13	2.9	13	92	0	58	0	31	21	47	1.51
9683386--9683540	30	5.2	28	80	13	175	29	23	23	23	1.99
9683648--9683728	26	3.1	26	87	7	128	34	23	20	20	1.97
9683898--9684574	27	25.2	27	80	6	574	21	19	19	39	1.92
9689391--9689451	20	3.3	20	65	25	62	60	1	4	32	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9689386--9689457	34	2.1	34	97	0	135	55	2	4	37	1.34
9689915--9689992	2	39.0	2	100	0	156	0	50	0	50	1.00
9690723--9690769	21	2.2	21	100	0	94	25	21	19	34	1.96
9691635--9691711	35	2.2	35	97	0	145	29	10	15	44	1.80
9694765--9694815	22	2.3	22	93	0	84	39	17	9	33	1.83
9698441--9698514	31	2.4	30	80	12	89	35	10	13	40	1.80
9698655--9698711	29	1.9	29	92	3	96	56	5	0	38	1.22
9699733--9699808	12	6.3	12	79	0	89	44	11	5	38	1.64
9699733--9699808	24	3.2	24	96	0	134	44	11	5	38	1.64
9706093--9706134	20	2.1	20	90	0	66	21	2	33	42	1.66
9707228--9707267	10	3.9	10	84	15	55	47	0	0	52	1.00
9708424--9708504	22	3.8	22	76	12	96	11	4	37	46	1.61
9708430--9708513	42	2.0	42	100	0	168	11	7	33	47	1.68
9712100--9712146	24	2.0	24	84	16	62	31	0	17	51	1.46
9712307--9712444	40	3.5	40	73	6	129	26	18	24	29	1.98
9734696--9734780	35	2.4	35	82	0	98	28	28	18	24	1.98
9739401--9739449	12	4.0	12	83	2	53	81	2	10	6	0.94
9745674--9745700	2	13.5	2	100	0	54	0	48	0	51	1.00
9756900--9757107	70	3.0	70	80	4	240	33	25	16	24	1.96
9757050--9757159	56	2.0	56	88	0	166	31	25	18	24	1.97
9760355--9760392	20	1.9	20	94	0	67	36	15	26	21	1.93
9761978--9762054	23	3.3	23	80	10	93	25	20	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9761978--9762048	24	3.0	24	84	10	92	25	21	18	35	1.95
9767258--9767307	25	2.0	25	84	7	66	60	6	12	22	1.53
9769677--9769717	13	2.9	15	79	20	52	58	0	0	41	0.98
9771297--9771446	40	3.7	39	76	7	106	36	20	25	17	1.94
9771489--9771808	41	7.7	41	89	1	406	15	24	27	33	1.95
9771489--9771850	82	4.4	82	83	2	420	15	24	27	33	1.95
9771512--9771850	41	8.2	41	82	6	124	15	24	27	32	1.95
9780891--9781053	43	3.7	42	78	11	166	21	19	30	28	1.97
9780890--9781053	89	1.8	89	85	7	235	21	18	30	28	1.97
9780982--9781074	43	2.2	43	78	3	98	21	22	31	24	1.98
9781041--9781185	43	3.4	43	79	3	159	35	24	20	20	1.95
9781343--9781385	22	2.0	22	95	0	77	41	27	20	9	1.83
9783347--9783440	47	2.0	47	93	0	161	29	18	18	34	1.94
9785442--9785472	3	10.3	3	100	0	62	67	0	32	0	0.91
9802294--9802380	26	3.3	26	83	3	102	34	25	13	26	1.93
9809264--9809569	27	11.4	27	83	5	336	43	20	16	20	1.88
9809915--9810131	28	7.8	28	88	3	305	23	23	23	29	1.99
9813259--9813317	21	2.8	20	79	7	64	55	13	3	27	1.54
9814091--9814150	20	3.0	20	87	0	93	33	8	13	45	1.73
9816049--9816092	2	22.5	2	95	4	81	52	0	0	47	1.00
9816199--9816238	2	20.0	2	100	0	80	50	0	0	50	1.00
9816434--9816712	138	2.0	138	98	0	540	50	16	7	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9816434--9816635	64	2.9	69	62	16	155	48	15	8	28	1.74
9816477--9816688	69	3.1	69	62	22	163	50	17	6	25	1.69
9816502--9816713	69	3.1	69	63	15	175	52	16	5	25	1.65
9816466--9816752	138	2.1	137	86	3	380	52	17	5	25	1.66
9817843--9817879	9	4.2	9	89	6	58	32	18	10	37	1.86
9817842--9817878	17	2.2	17	95	0	65	35	18	10	35	1.86
9817877--9818026	37	4.1	37	97	0	273	46	14	4	34	1.65
9817887--9818021	17	7.4	17	66	14	72	49	14	3	32	1.60
9817894--9818030	20	7.3	20	65	14	94	48	13	4	32	1.63
9817885--9818043	74	2.1	74	90	2	248	49	14	3	32	1.61
9821957--9821985	13	2.2	13	100	0	58	24	6	13	55	1.63
9821985--9822057	19	3.5	19	70	20	65	20	1	36	41	1.61
9821971--9822060	44	2.0	44	95	4	164	21	2	33	43	1.65
9822044--9822068	13	1.9	13	100	0	50	16	0	44	40	1.47
9823612--9823682	25	2.8	25	84	0	97	26	23	23	25	2.00
9831244--9831307	25	2.5	25	84	5	74	26	25	23	25	2.00
9841213--9841363	75	2.0	75	93	0	257	38	11	19	30	1.88
9843402--9843437	18	2.0	18	100	0	72	38	16	5	38	1.72
9846214--9846320	44	2.4	44	98	0	205	28	15	24	30	1.96
9846271--9846394	57	2.2	58	95	1	223	34	12	24	28	1.92
9846361--9846406	7	6.6	7	87	0	65	41	4	26	28	1.74
9847610--9847652	16	2.7	16	88	0	68	51	0	6	41	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9847643--9847839	66	3.1	66	92	5	318	41	5	9	44	1.60
9859415--9859466	3	17.3	3	91	0	86	67	3	0	28	1.08
9859543--9859605	24	2.7	23	79	13	67	50	1	3	44	1.27
9859585--9859655	19	3.7	19	83	9	83	35	0	5	59	1.21
9859585--9859655	20	3.7	20	83	9	85	35	0	5	59	1.21
9863029--9863067	3	13.0	3	83	0	51	35	5	0	58	1.20
9863040--9863068	15	1.9	15	100	0	58	41	0	0	58	0.98
9865252--9865298	21	2.2	22	84	3	60	76	2	10	10	1.10
9865768--9865915	77	1.9	77	87	0	215	28	15	10	45	1.78
9870356--9870430	37	2.0	37	100	0	150	36	10	13	40	1.79
9870623--9870684	32	1.9	32	90	6	99	54	1	6	37	1.36
9882945--9882999	24	2.7	18	72	27	56	30	5	23	40	1.77
9884370--9884429	30	2.0	30	96	0	111	25	16	25	33	1.96
9886155--9886362	91	2.3	89	85	4	258	31	14	22	31	1.94
9890165--9890202	18	2.1	18	85	9	51	18	5	15	60	1.53
9890979--9891038	17	3.5	17	78	13	52	30	8	18	43	1.79
9905328--9905379	25	2.1	25	86	10	72	67	0	1	30	1.02
9905550--9905610	32	1.9	32	83	6	79	39	1	27	31	1.66
9908597--9908643	14	3.1	15	84	6	51	44	2	2	51	1.25
9911553--9911581	13	2.2	13	100	0	58	65	0	6	27	1.18
9914027--9914073	3	15.7	3	100	0	94	31	34	0	34	1.58
9914072--9914120	3	16.3	3	95	0	89	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9915565--9915598	16	2.2	16	89	5	52	73	5	11	8	1.24
9918228--9918294	33	2.0	33	100	0	134	28	14	11	44	1.81
9921399--9921427	15	1.9	15	100	0	58	31	13	27	27	1.94
9924169--9924280	56	2.0	56	98	0	215	31	17	16	33	1.93
9925138--9925199	3	20.7	3	100	0	124	67	32	0	0	0.91
9925399--9925442	22	2.0	21	91	4	70	59	0	6	34	1.24
9925404--9925458	24	2.2	25	84	15	69	58	0	9	32	1.30
9926169--9926242	19	3.8	19	89	7	112	37	14	9	37	1.79
9926180--9926242	21	3.1	21	88	9	103	38	14	7	39	1.75
9926776--9926978	44	4.7	44	76	8	175	25	23	24	27	2.00

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