genome.fa.s13.2.7.7.80.10.50.1000.101.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  101  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)
30780729--30780800	33	2.2	33	84	0	90	30	45	6	16	1.74
30781649--30781851	41	5.0	41	92	4	320	27	30	22	19	1.98
30781887--30781961	39	1.9	38	89	2	114	22	24	20	33	1.97
30782136--30782256	16	7.8	16	67	18	67	43	23	2	30	1.67
30782111--30782159	25	2.0	25	87	0	71	42	24	4	28	1.73
30782136--30782254	34	3.8	32	72	22	101	43	23	2	30	1.67
30782167--30782227	25	2.5	24	89	5	86	42	22	1	32	1.64
30782108--30782399	9	34.7	9	70	15	153	46	20	2	30	1.62
30782214--30782370	25	6.3	25	82	2	172	48	20	1	29	1.58
30782186--30782263	34	2.3	34	86	4	113	42	24	1	32	1.63
30782191--30782370	50	3.6	50	79	5	186	47	21	1	30	1.58
30782108--30782288	59	3.1	58	83	6	206	45	22	2	29	1.66
30783773--30783844	36	2.0	36	97	0	135	30	12	19	37	1.89
30786953--30787041	43	2.1	43	100	0	178	52	15	11	20	1.73
30787925--30787973	21	2.3	20	83	10	62	32	16	44	6	1.72
30787882--30788058	87	2.0	87	88	0	264	40	16	31	11	1.85
30787882--30788084	87	2.3	87	83	1	228	40	17	30	11	1.86
30788414--30788676	43	6.1	44	79	9	224	29	18	25	26	1.98
30790000--30790047	25	1.9	25	82	0	60	45	14	12	27	1.81
30791109--30791171	15	4.4	14	78	13	65	65	1	4	28	1.22
30799650--30799846	62	3.0	67	74	17	205	40	4	6	49	1.46
30805035--30805117	3	27.7	3	90	0	130	61	3	0	34	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30806104--30806137	7	4.9	7	100	0	68	58	11	0	29	1.33
30806101--30806147	10	4.6	10	82	15	60	61	8	0	29	1.25
30806101--30806147	21	2.3	20	86	13	69	61	8	0	29	1.25
30812183--30812229	17	2.8	17	78	9	53	48	4	0	46	1.21
30820202--30820471	113	2.4	113	81	5	296	32	20	7	40	1.81
30822285--30822358	36	2.1	36	81	0	85	41	17	18	21	1.90
30829311--30829340	15	2.0	15	100	0	60	46	20	20	13	1.83
30830012--30830067	26	2.2	26	83	0	67	26	17	26	28	1.98
30833577--30833705	43	3.0	43	76	6	136	24	18	27	29	1.98
30835322--30835353	2	16.0	2	93	0	55	50	3	0	46	1.17
30836655--30836752	23	4.3	23	97	0	178	33	27	21	17	1.96
30844647--30844673	13	2.1	13	100	0	54	22	22	18	37	1.95
30847847--30847909	28	2.3	27	86	13	92	68	1	1	28	1.08
30854162--30854199	20	1.9	20	84	10	51	39	7	7	44	1.63
30856388--30856452	33	2.0	33	81	3	78	53	9	3	33	1.48
30856419--30856669	53	4.8	51	68	17	140	44	11	3	40	1.59
30856402--30856821	154	2.7	155	85	6	559	44	10	4	40	1.59
30857600--30857723	39	3.1	39	82	5	115	37	25	16	20	1.94
30857619--30858023	42	9.7	42	86	0	519	34	22	20	21	1.97
30871139--30871191	27	2.0	27	100	0	106	41	18	15	24	1.89
30871515--30871573	10	5.7	10	75	13	57	71	1	6	20	1.18
30871597--30871643	25	1.9	24	82	4	58	55	6	6	31	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30872137--30872557	153	2.8	150	82	8	471	45	9	4	41	1.55
30872453--30872497	20	2.2	20	84	4	54	53	6	0	40	1.27
30874493--30874595	28	3.7	28	86	0	143	38	14	22	24	1.91
30876204--30876237	17	2.0	17	88	0	50	41	0	0	58	0.98
30880670--30880698	15	1.9	15	100	0	58	13	0	37	48	1.43
30885333--30885376	24	1.9	22	90	9	70	27	0	4	68	1.09
30885983--30886029	24	2.0	24	83	8	60	55	27	8	8	1.59
30895660--30895800	42	3.5	40	81	8	169	31	30	14	23	1.94
30903355--30903404	3	16.7	3	100	0	100	68	0	0	32	0.90
30905283--30905624	41	8.3	41	82	1	398	17	22	28	31	1.97
30905717--30905767	26	2.0	26	84	0	66	58	5	11	23	1.55
30905998--30906031	14	2.3	15	90	5	52	35	0	29	35	1.58
30906113--30906153	14	2.8	14	88	7	55	12	0	46	41	1.41
30906853--30906884	16	2.0	16	100	0	64	62	6	6	25	1.42
30906850--30906904	28	1.9	29	85	10	78	65	3	7	23	1.34
30907220--30907277	25	2.4	25	88	2	82	27	50	1	20	1.58
30907679--30907704	12	2.2	12	100	0	52	23	7	11	57	1.59
30908652--30908686	18	1.9	18	100	0	70	54	5	11	28	1.59
30908709--30908750	22	1.9	22	95	0	75	47	14	0	38	1.44
30909047--30909117	25	2.8	25	86	0	106	47	15	0	36	1.46
30909085--30909211	16	7.7	16	81	10	134	48	18	0	33	1.48
30909071--30909211	41	3.4	41	82	9	187	48	17	0	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30909047--30909207	66	2.4	66	89	2	243	48	16	0	34	1.47
30909085--30909207	25	5.0	25	81	11	109	48	17	0	33	1.48
30914816--30914852	19	1.9	19	94	0	65	27	10	2	59	1.44
30915050--30915259	43	4.8	43	81	3	224	27	18	30	24	1.98
30926000--30926038	18	2.2	18	86	13	55	25	2	2	69	1.14
30926044--30926107	19	3.2	19	76	14	58	43	0	4	51	1.22
30926184--30926222	18	2.2	18	90	0	60	30	7	7	53	1.57
30929154--30929472	40	8.0	40	81	2	347	30	22	15	32	1.94
30929155--30929466	120	2.6	120	84	2	387	30	22	15	31	1.95
30938447--30938533	27	3.2	27	83	0	111	13	22	34	28	1.93
30938524--30938576	25	2.1	25	92	0	88	15	15	39	30	1.87
30938672--30938714	19	2.3	18	80	11	52	27	18	25	27	1.98
30939463--30939506	18	2.4	18	81	7	54	25	29	15	29	1.96
30939672--30939884	68	3.1	68	86	0	282	25	12	21	40	1.88
30941461--30941594	37	3.6	37	84	3	173	38	29	14	17	1.90
30951478--30951540	21	3.3	21	66	25	66	22	17	15	44	1.86
30951473--30951547	36	2.1	36	100	0	150	25	16	13	45	1.83
30952361--30952465	45	2.3	45	80	3	113	41	16	17	24	1.89
30952670--30952777	40	2.7	40	84	5	121	40	20	6	32	1.78
30953458--30953515	17	3.5	16	86	6	71	0	29	0	70	0.87
30953842--30953885	16	2.6	16	79	10	52	47	4	0	47	1.22
30959897--30959993	45	2.3	39	73	18	104	43	15	16	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30968079--30968114	17	2.2	16	90	5	54	25	16	0	58	1.38
30969109--30969179	5	13.4	5	77	16	72	60	1	0	38	1.06
30969109--30969179	8	8.9	8	73	17	67	60	1	0	38	1.06
30972511--30972538	14	2.0	14	100	0	56	42	7	0	50	1.30
30973726--30973766	21	1.9	22	85	14	59	36	4	9	48	1.58
30983445--30983562	50	2.3	50	86	5	157	33	17	13	35	1.89
30985906--30985949	12	3.8	12	84	3	54	72	2	20	4	1.13
30989337--30989399	20	3.2	19	77	8	72	9	26	20	42	1.83
30996177--30996258	25	3.3	25	82	0	110	40	36	9	13	1.78
31014382--31014414	13	2.6	13	85	4	50	72	0	3	24	0.98
31015518--31015552	16	2.1	17	94	5	63	80	0	5	14	0.89
31016438--31017667	44	28.7	41	72	11	355	24	24	21	30	1.99
31016439--31016668	123	1.8	127	87	3	351	25	21	22	30	1.98
31016516--31017534	87	11.8	87	77	4	897	24	24	20	29	1.99
31016639--31017583	174	5.4	174	93	1	1565	24	24	20	29	1.99
31016639--31017583	520	1.8	521	92	1	1626	24	24	20	29	1.99
31016639--31017618	346	2.8	345	91	1	1563	24	24	20	29	1.99
31018876--31018908	7	4.7	7	92	0	57	12	9	0	78	0.95
31018875--31018909	14	2.4	15	95	4	63	11	8	0	80	0.92
31019885--31019941	29	2.2	26	84	15	73	12	1	8	77	1.07
31019885--31019961	23	3.3	23	76	10	68	11	6	7	74	1.23
31025143--31025172	14	2.1	14	93	0	51	80	0	10	10	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31029950--31029988	19	2.1	19	95	0	69	0	46	10	43	1.37
31033637--31033844	91	2.3	91	91	2	328	46	2	5	45	1.40
31033677--31033819	44	3.2	44	68	13	119	46	2	4	47	1.33
31033861--31033898	17	2.2	17	86	9	51	44	2	0	52	1.14
31034054--31034241	61	3.1	61	70	17	201	43	1	6	48	1.39
31034106--31034157	15	3.6	15	80	12	56	44	0	1	53	1.11
31034231--31034276	15	3.1	15	87	9	60	43	0	4	52	1.21
31033860--31034278	120	3.5	120	94	1	705	42	2	5	49	1.38
31034490--31034543	16	3.4	16	89	0	72	31	31	0	37	1.58
31037793--31037977	101	1.8	101	91	5	311	23	18	28	30	1.97

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