genome.fa.s13.2.7.7.80.10.50.1000.38.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  38  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)
10813447--10813517	3	23.3	3	73	8	54	35	2	1	60	1.20
10814151--10814184	17	1.9	18	88	5	52	41	0	23	35	1.55
10820983--10821028	3	15.7	3	78	13	51	39	0	2	58	1.10
10820982--10821028	13	3.7	13	82	2	60	40	0	2	57	1.11
10821095--10821146	19	2.7	20	77	20	56	69	1	28	0	0.99
10827350--10827416	23	3.0	23	75	16	70	47	0	1	50	1.10
10833473--10833525	18	2.9	18	80	2	61	41	45	1	11	1.51
10833629--10833674	9	5.1	9	79	10	58	28	10	21	39	1.87
10833629--10833674	18	2.6	18	92	0	74	28	10	21	39	1.87
10837646--10837737	45	2.1	45	83	6	116	21	15	10	52	1.73
10846838--10846868	4	7.8	4	100	0	62	25	0	0	74	0.82
10847032--10847183	30	5.6	29	66	25	98	33	1	0	64	1.05
10847027--10847181	55	3.0	53	77	11	160	34	2	0	62	1.09
10847125--10847174	19	2.6	20	82	14	61	34	0	0	66	0.92
10847186--10847296	51	2.2	51	85	6	145	36	2	14	45	1.59
10855234--10855262	8	3.8	8	95	4	51	55	0	0	44	0.99
10858340--10858375	16	2.2	16	100	0	72	25	0	36	38	1.56
10858356--10858446	45	2.0	45	85	2	121	27	6	28	37	1.82
10858591--10858645	15	3.4	16	80	16	53	54	1	0	43	1.10
10858597--10858645	16	2.9	18	80	20	61	55	0	0	44	0.99
10858498--10858981	156	3.1	156	97	0	905	42	3	6	47	1.45
10858767--10858801	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10858535--10859099	156	3.8	148	91	4	751	44	3	5	46	1.43
10858903--10858957	15	3.4	16	80	16	53	50	1	0	47	1.11
10858923--10858957	18	2.0	17	88	5	52	54	0	0	45	0.99
10858849--10859061	67	3.2	66	66	19	159	45	3	3	47	1.35
10858861--10859139	137	2.0	135	81	6	321	45	5	3	46	1.42
10860607--10860668	31	2.0	31	100	0	124	41	9	9	38	1.71
10860713--10860738	10	2.6	10	100	0	52	46	7	11	34	1.69
10862454--10862607	51	3.0	51	98	1	292	27	7	18	45	1.77
10862633--10862710	24	3.2	24	68	13	79	48	1	2	47	1.23
10862641--10862721	27	3.2	27	68	31	88	50	1	1	46	1.17
10862627--10862723	48	2.0	48	100	0	194	49	2	2	46	1.25
10868167--10868202	18	2.1	17	89	5	54	16	30	38	13	1.88
10869079--10869113	18	1.9	18	88	11	54	45	2	17	34	1.63
10870191--10872172	507	3.9	507	95	0	3493	28	17	25	28	1.98
10873619--10873664	19	2.3	20	96	3	85	47	17	10	23	1.79
10874595--10874628	14	2.4	14	90	5	50	29	0	2	67	1.05
10877454--10877587	47	2.8	48	84	2	173	29	17	17	34	1.94
10879485--10879515	16	1.9	16	100	0	62	54	0	32	12	1.38
10884679--10885072	54	7.4	55	74	11	238	26	17	14	40	1.89
10884760--10885066	108	2.9	108	79	7	276	28	17	13	40	1.88
10885370--10885413	23	1.9	23	90	0	70	20	20	18	40	1.91
10886319--10886464	52	2.8	49	73	14	125	34	0	4	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10886399--10886440	21	2.0	20	82	13	50	40	0	2	57	1.12
10891197--10891238	11	3.9	11	78	6	50	73	11	7	7	1.23
10891198--10891251	21	2.6	21	85	5	74	74	9	9	7	1.23
10901850--10902064	23	9.3	23	74	8	195	38	13	18	29	1.90
10901829--10902064	46	5.1	46	94	1	391	37	14	19	29	1.91
10902909--10903038	43	3.0	43	76	14	151	30	26	20	22	1.98
10909357--10909417	28	2.2	28	96	0	113	27	6	24	40	1.80
10915564--10915618	9	6.2	9	91	4	76	21	10	27	40	1.87
10915564--10915618	18	3.1	18	86	5	85	21	10	27	40	1.87
10917731--10917787	20	3.0	18	82	10	69	45	0	29	24	1.53
10917744--10917798	27	2.0	27	86	6	76	45	0	27	27	1.54
10917735--10917797	19	3.3	20	79	14	71	44	0	28	26	1.55
10931423--10931483	3	20.3	3	74	12	54	32	32	29	4	1.79
10931523--10931589	30	2.2	30	86	0	89	34	37	19	8	1.83
10931475--10931589	27	4.3	27	71	15	94	33	36	20	10	1.86
10931556--10931608	24	2.2	24	86	6	72	28	37	22	11	1.89
10931595--10931638	3	14.7	3	90	0	52	38	34	25	2	1.68
10931541--10931629	21	4.2	21	70	5	63	35	35	20	7	1.82
10940457--10940487	2	15.5	2	100	0	62	51	48	0	0	1.00
10942187--10942238	21	2.5	21	80	0	68	51	21	7	19	1.71
10942773--10942830	16	3.8	15	85	14	75	13	22	24	39	1.90
10952599--10952644	18	2.6	18	92	0	74	34	26	10	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10953696--10953766	25	2.9	24	85	10	83	42	2	0	54	1.14
10953696--10953766	24	3.0	23	84	14	83	42	2	0	54	1.14
10954134--10954476	42	8.3	41	83	8	294	31	30	16	21	1.96
10954134--10954323	38	4.8	38	90	5	231	32	31	16	20	1.94
10958763--10959188	50	8.5	50	69	8	267	24	18	23	34	1.96
10958815--10959218	100	4.0	99	87	3	567	24	18	23	33	1.97
10958815--10959218	200	2.0	200	90	0	628	24	18	23	33	1.97
10959293--10959434	44	3.2	44	76	4	151	27	17	19	35	1.94
10960749--10960798	7	7.0	7	82	15	59	14	16	0	70	1.18
10960749--10960799	13	3.5	15	82	15	63	13	15	0	70	1.17
10971395--10971454	14	4.3	14	71	14	52	38	36	1	23	1.65
10971838--10971898	7	8.6	7	78	3	68	50	27	1	19	1.57
10971838--10971956	21	5.6	21	71	11	80	49	27	2	20	1.61
10971916--10971962	14	3.4	14	81	0	58	48	29	0	21	1.50
10972168--10972304	41	3.3	40	76	7	125	35	24	19	19	1.95
10972137--10972308	82	2.1	81	80	9	188	33	25	19	21	1.97
10972369--10972478	40	2.8	39	77	4	112	21	21	20	36	1.95
10973000--10973044	20	2.2	20	88	7	65	73	6	6	13	1.24
10973000--10973050	19	2.5	19	84	9	57	74	5	7	11	1.21
10976353--10976450	22	4.8	20	66	21	62	59	18	13	9	1.60
10976342--10976458	60	2.0	60	100	0	234	57	17	12	11	1.65
10978949--10978997	26	1.9	25	88	12	73	40	6	14	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10982280--10982331	18	2.8	18	86	11	70	50	0	25	25	1.50
10982280--10982327	19	2.5	19	90	6	71	52	0	25	22	1.48
10987341--10987426	45	1.9	45	85	0	118	22	19	12	45	1.84
10991329--10991365	17	2.1	18	85	14	51	51	13	5	29	1.63
10995208--10995893	44	15.6	43	77	6	599	30	25	15	29	1.96
10995205--10995893	132	5.2	132	89	0	1047	30	25	15	29	1.95
11007298--11007332	15	2.3	15	90	0	52	65	8	2	22	1.34
11007714--11007772	30	2.0	30	86	6	84	64	3	3	28	1.26
11007777--11007824	22	2.1	23	85	11	64	56	6	4	33	1.44
11007778--11007824	24	2.0	23	87	4	67	57	4	4	34	1.38
11016566--11016606	19	2.2	19	100	0	82	36	14	12	36	1.84
11020405--11020474	16	4.4	16	94	0	113	37	2	34	25	1.71
11020456--11020544	44	2.0	44	91	4	142	28	4	31	35	1.77
11020708--11020761	18	3.0	18	91	5	83	55	1	3	38	1.28
11020743--11020925	59	3.0	61	69	12	180	50	4	2	41	1.38
11027257--11027314	30	2.0	29	93	3	98	36	10	15	37	1.82
11031084--11031141	30	2.0	29	89	3	89	37	10	15	36	1.82
11033149--11033541	161	2.4	161	96	0	716	33	18	21	26	1.96
11038950--11039036	37	2.4	37	82	5	106	18	10	29	41	1.84
11040017--11040129	54	2.1	54	80	6	122	24	17	29	28	1.97
11049353--11049646	23	12.5	24	71	11	128	40	17	15	26	1.89
11049454--11049697	47	5.2	47	92	3	251	40	16	17	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11049426--11049709	23	12.2	23	73	5	203	40	15	17	25	1.89
11049490--11049709	47	4.7	47	96	0	395	41	14	18	25	1.88
11050549--11050678	43	3.0	42	80	16	167	30	29	17	23	1.97
11055838--11055869	16	2.0	16	93	0	55	25	15	0	59	1.36
11056100--11056287	51	3.7	49	75	14	143	29	28	17	23	1.97
11058751--11058807	26	2.3	25	85	8	73	45	0	3	50	1.18
11079588--11079633	23	2.0	23	83	8	58	6	13	2	78	1.04
11081236--11081291	29	1.9	29	100	0	112	32	21	25	21	1.98
11086596--11086632	15	2.3	17	86	9	51	37	0	10	51	1.37
11086519--11086635	38	3.0	36	75	16	101	38	3	8	49	1.50

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